Salmonella Analysis Performed on 2021-10-25
2021-10-25
TORMES version 1.3.0
Assembly statistics
| Field | Description |
|---|---|
| Sample | Name of the sample |
| Reads | Total number of reads after quality filtering |
| AvgReadLen | Average read length after quality filtering |
| Contigs | Number of contigs of the draft genome (>200bp) |
| GenomeLength | Length (bp) of the draft genome |
| LargestContig | Length (bp) of the largest contig in the genome |
| N50 | “Length of the smallest contig in the set that contains the fewest (largest) contigs whose combined length represents at least 50% of the assembly” (Miller et al., 2010) |
| GC | GC content (%) of the draft genome |
| Depth | Number of times each nucleotide position in the draft genome has a read that align to that position |
* When already assembled genomes are included for TORMES analysis, “NA” will appear for “Reads”, “AvgReadLen” and “Depth” fields.
Select the parameter
Number of contigs
Average number of contigs per sample = 126.3
Genome length
Average genome length per sample = 4.6813874^{6} bp
Largest contig length
Average largest contig length per sample = 4.063152^{5} bp
N50
Average N50 per sample = 1.400862^{5} bp
GC content
Average GC content per sample = 52.203%
Number of reads
Average number of reads per sample = 688592
Average read length
Average read length per sample = 258 bp
Sequencing depth
Average sequencing depth = 37X
Taxonomic identification
Taxonomic identification was performed by using Kraken2 (Wood et al., 2019). Further details can be found in the Kraken2 webpage. Additionally, 16S rRNA genes were extracted from each genome by using Barrnap and used for taxonomic classification by using the RDP Classifier (Wang et al., 2007) at a confidence level of 0.8. Further details can be found in the RDPTools webpage.
Taxonomic identification by using Kraken2
The number between brackets refers to the percentage of reads (when starting TORMES from raw reads) or contigs (when starting TORMES from already assembled genomes) from each sample covered by the clade rooted at this taxon.
| Sample | Family | Genus | Species |
|---|---|---|---|
| MS0495 | Enterobacteriaceae (99.60%) | Salmonella (98.46%) | Salmonella enterica (80.43%) |
| MS0496 | Enterobacteriaceae (96.00%) | Salmonella (90.52%) | Salmonella enterica (56.72%) |
| MS0497 | Enterobacteriaceae (99.60%) | Salmonella (98.49%) | Salmonella enterica (79.82%) |
| MS0498 | Enterobacteriaceae (96.44%) | Salmonella (91.27%) | Salmonella enterica (59.27%) |
| MS0499 | Enterobacteriaceae (96.28%) | Salmonella (91.44%) | Salmonella enterica (55.72%) |
| MS0500 | Enterobacteriaceae (99.49%) | Salmonella (96.81%) | Salmonella enterica (68.76%) |
| MS0501 | Enterobacteriaceae (99.71%) | Salmonella (98.92%) | Salmonella enterica (80.90%) |
| MS0502 | Enterobacteriaceae (99.43%) | Salmonella (98.53%) | Salmonella enterica (69.26%) |
| MS0503 | Enterobacteriaceae (99.45%) | Salmonella (98.55%) | Salmonella enterica (69.35%) |
| MS0504 | Enterobacteriaceae (99.60%) | Salmonella (97.95%) | Salmonella enterica (70.57%) |
Taxonomic identification by using RDP Classifier
| Field | Description |
|---|---|
| Sample | Name of the sample where the 16S rRNA gene was found. Note that the same sample might harbor more than one 16S rRNA gene copy. |
| Contig | Name of the contig where the 16S rRNA gene was found. |
| Position | Position within the contig where the 16S rRNA gene was found (begin-end). Note that the 16S rRNA genes identified for one sample might not harbor the same length (fragmented, etc.). |
| Strand | Strand of the 16S rRNA gene defined as forward (+) or reverse (-). |
| Order | Taxonomic order that the 16S rRNA gene was assigned over a confidence level of 0.8. |
| Family | Taxonomic family that the 16S rRNA gene was assigned over a confidence level of 0.8. |
| Genus | Taxonomic genus that the 16S rRNA gene was assigned over a confidence level of 0.8. |
| Sample | Contig | Position | Strand | Order | Family | Genus |
|---|---|---|---|---|---|---|
| MS0495-16S_rRNA | NODE_29_length_912_cov_150.585987 | 4-907 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0495-16S_rRNA | NODE_27_length_1182_cov_97.051185 | 0-663 | (+) | Enterobacterales | Enterobacteriaceae | Escherichia/Shigella |
| MS0496-16S_rRNA | NODE_74_length_906_cov_197.474968 | 3-902 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0496-16S_rRNA | NODE_66_length_1936_cov_113.928137 | 1269-1934 | (-) | Enterobacterales | Enterobacteriaceae | unclassified_Enterobacteriaceae |
| MS0497-16S_rRNA | NODE_75_length_912_cov_139.075159 | 4-907 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0497-16S_rRNA | NODE_72_length_1182_cov_93.776303 | 0-663 | (+) | Enterobacterales | Enterobacteriaceae | Escherichia/Shigella |
| MS0498-16S_rRNA | NODE_112_length_906_cov_157.566110 | 3-902 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0498-16S_rRNA | NODE_101_length_1777_cov_95.153939 | 1110-1775 | (-) | Enterobacterales | Enterobacteriaceae | Escherichia/Shigella |
| MS0499-16S_rRNA | NODE_78_length_906_cov_184.193838 | 3-902 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0499-16S_rRNA | NODE_72_length_1936_cov_117.624102 | 1269-1934 | (-) | Enterobacterales | Enterobacteriaceae | Escherichia/Shigella |
| MS0500-16S_rRNA | NODE_53_length_1697_cov_201.863694 | 11-1549 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0501-16S_rRNA | NODE_114_length_2187_cov_125.204854 | 1118-2182 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0501-16S_rRNA | NODE_1_length_237772_cov_22.844049 | 5-456 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0502-16S_rRNA | NODE_14_length_154089_cov_19.931152 | 153091-154086 | (+) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0502-16S_rRNA | NODE_40_length_979_cov_120.376761 | 461-976 | (-) | Enterobacterales | Enterobacteriaceae | unclassified_Enterobacteriaceae |
| MS0503-16S_rRNA | NODE_48_length_751_cov_163.017628 | 3-751 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0503-16S_rRNA | NODE_46_length_1213_cov_88.923573 | 546-1211 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0504-16S_rRNA | NODE_144_length_1150_cov_139.472141 | 1-1130 | (-) | Enterobacterales | Enterobacteriaceae | Salmonella |
| MS0504-16S_rRNA | NODE_151_length_997_cov_92.960920 | 3-535 | (+) | Enterobacterales | Enterobacteriaceae | Salmonella |
Multi-Locus Sequence Typing (MLST)
Further details can be found in mlst web page.
| Symbol | Meaning |
|---|---|
| ~ | novel full length allele similar to match |
| ? | partial match to known allele |
| - | allele missing |
| Scheme | ST | 1 | 2 | 3 | 4 | 5 | 6 | 7 | |
|---|---|---|---|---|---|---|---|---|---|
| MS0495 | senterica | 4 | aroC(43) | dnaN(41) | hemD(16) | hisD(13) | purE(34) | sucA(13) | thrA(4) |
| MS0496 | senterica | 279 | aroC(62) | dnaN(95) | hemD(54) | hisD(96) | purE(100) | sucA(9) | thrA(100) |
| MS0497 | senterica | 4 | aroC(43) | dnaN(41) | hemD(16) | hisD(13) | purE(34) | sucA(13) | thrA(4) |
| MS0498 | senterica | 279 | aroC(62) | dnaN(95) | hemD(54) | hisD(96) | purE(100) | sucA(9) | thrA(100) |
| MS0499 | senterica | 279 | aroC(62) | dnaN(95) | hemD(54) | hisD(96) | purE(100) | sucA(9) | thrA(100) |
| MS0500 | senterica | 11 | aroC(5) | dnaN(2) | hemD(3) | hisD(7) | purE(6) | sucA(6) | thrA(11) |
| MS0501 | senterica | 23 | aroC(13) | dnaN(11) | hemD(16) | hisD(15) | purE(12) | sucA(15) | thrA(4) |
| MS0502 | senterica | 64 | aroC(10) | dnaN(14) | hemD(15) | hisD(31) | purE(25) | sucA(20) | thrA(33) |
| MS0503 | senterica | 64 | aroC(10) | dnaN(14) | hemD(15) | hisD(31) | purE(25) | sucA(20) | thrA(33) |
| MS0504 | senterica | 45 | aroC(10) | dnaN(7) | hemD(21) | hisD(14) | purE(15) | sucA(12) | thrA(12) |
Serotyping
| Sample | Subspecie | Serovar | Serogroup | H1 | H2 | O Antigen | Quality Control |
|---|---|---|---|---|---|---|---|
| MS0495 | enterica | Montevideo | C1 | g,m,s | - | 6,7,14,[54] | PASS |
| MS0496 | enterica | I 1,4,[5],12:d:- | B | d | - | 1,4,[5],12 | PASS |
| MS0497 | enterica | Montevideo | F | g,m,s | - | 6,7,14,[54] | PASS |
| MS0498 | enterica | I 1,4,[5],12:d:- | B | d | - | 1,4,[5],12 | PASS |
| MS0499 | enterica | I 1,4,[5],12:d:- | B | d | - | 1,4,[5],12 | PASS |
| MS0500 | enterica | Enteritidis | D1 | g,m | - | 1,9,12 | PASS |
| MS0501 | enterica | Oranienburg | C1 | m,t | - | 6,7,14 | PASS |
| MS0502 | enterica | Anatum | E1 | e,h | 1,6 | 3,{10}{15}{15,34} | PASS |
| MS0503 | enterica | Anatum | E1 | e,h | 1,6 | 3,{10}{15}{15,34} | PASS |
| MS0504 | enterica | Newport | C2-C3 | e,h | 1,2 | 6,8,20 | PASS |
Pangenome analysis
Pangenome genes summary
| Genes | Description | Number |
|---|---|---|
| Core genes | (99% <= strains <= 100%) | 3626 |
| Soft core genes | (95% <= strains < 99%) | 0 |
| Shell genes | (15% <= strains < 95%) | 1630 |
| Cloud genes | (0% <= strains < 15%) | 629 |
| Total genes | (0% <= strains <= 100%) | 5885 |
Schematic representation of genes presence (color) or absence (blank) between ssamples:
Pangenome tree based on presence/absence of accesory genes representation
Rectangular (phylogram)
Circular (phylogram)
Rectangular (cladogram)
Circular (cladogram)
Pangenome tree based on core genes alignment representation
Rectangular (phylogram)
Circular (phylogram)
Rectangular (cladogram)
Circular (cladogram)
Antimicrobial resistance
The search of antimicrobial resistance genes was performed by screening the genome against Resfinder (E. Zankari et al., 2012), CARD (A.G. McArthur et al., 2013) and ARG-ANNOT (S.K. Gupta et al., 2014) databases by using Abricate. Any hit with coverage and/or identity below 90% was removed. If you would like to inspect hits with coverage and/or identity below 90%, please go to the corresponing TORMES output directory.
| Field | Description |
|---|---|
| Contig | Contig name where the gene was found |
| Start | Start position of the gene within the contig |
| End | End position of the gene within the contig |
| Gene | Antimicrobial resistance gene |
| Gaps | Gaps in subject (genome) and query (antimicrobial resistance gene) |
| Coverage | Proportion (%) of the gene covered |
| Identity | Proportion (%) of exact nucleotide matches |
| Accession | Accesion number of the antimicrobial resistance gene |
| Product | Antimicrobial resistance gene product |
| Resistance | Antimicrobial that the gene confers resistance to |
Select the samples and the database
MS0495
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_1 length_586740 cov_13.404769 | 416275 | 416712 | aac(6’)-Iaa_1 | 0/0 | 100 | 98 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_1 length_586740 cov_13.404769 | 416275 | 416712 | AAC(6’)-Iy | 0/0 | 100 | 98 | AF144880:3541-3979 | AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter. | aminoglycoside |
| NODE_3 length_453569 cov_16.045675 | 103355 | 103819 | golS | 0/0 | 100 | 99 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_3 length_453569 cov_16.045675 | 99551 | 100777 | mdsA | 0/0 | 100 | 98 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_3 length_453569 cov_16.045675 | 96387 | 99554 | mdsB | 0/0 | 100 | 99 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_3 length_453569 cov_16.045675 | 94913 | 96424 | mdsC | 0/0 | 100 | 98 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_8 length_225726 cov_13.618757 | 218721 | 220145 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_8 length_225726 cov_13.618757 | 171474 | 172196 | sdiA | 0/0 | 100 | 98 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_1 length_586740 cov_13.404769 | 416275 | 416712 | (AGly)aac6-Iy | 0/0 | 100 | 98 | AF144880:3452-3979 | (AGly)aac6-Iy | NA |
MS0496
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_1 length_549241 cov_18.519074 | 536292 | 536729 | aac(6’)-Iaa_1 | 0/0 | 100 | 99 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_1 length_549241 cov_18.519074 | 536292 | 536729 | AAC(6’)-Iaa | 0/0 | 100 | 99 | AE006468.2:1707351-1707789 | AAC(6’)-Iaa is a chromosomal-encoded aminoglycoside acetyltransferase in S. typhimurium | aminoglycoside |
| NODE_7 length_200502 cov_23.633058 | 89748 | 90212 | golS | 0/0 | 100 | 99 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_7 length_200502 cov_23.633058 | 92789 | 94015 | mdsA | 0/0 | 100 | 99 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_7 length_200502 cov_23.633058 | 94012 | 97179 | mdsB | 0/0 | 100 | 99 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_7 length_200502 cov_23.633058 | 97142 | 98653 | mdsC | 0/0 | 100 | 99 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_1 length_549241 cov_18.519074 | 26036 | 27460 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_10 length_136467 cov_17.965960 | 99405 | 100127 | sdiA | 0/0 | 100 | 98 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_1 length_549241 cov_18.519074 | 536292 | 536729 | (AGly)aac6-Iaa | 0/0 | 100 | 99 | NC_003197:1707358-1707795 | (AGly)aac6-Iaa | NA |
MS0497
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_11 length_115250 cov_14.173189 | 62380 | 62817 | aac(6’)-Iaa_1 | 0/0 | 100 | 98 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_11 length_115250 cov_14.173189 | 62380 | 62817 | AAC(6’)-Iy | 0/0 | 100 | 98 | AF144880:3541-3979 | AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter. | aminoglycoside |
| NODE_24 length_64776 cov_17.020867 | 22288 | 22752 | golS | 0/0 | 100 | 99 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_24 length_64776 cov_17.020867 | 25330 | 26556 | mdsA | 0/0 | 100 | 98 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_24 length_64776 cov_17.020867 | 26553 | 29720 | mdsB | 0/0 | 100 | 99 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_24 length_64776 cov_17.020867 | 29683 | 31194 | mdsC | 0/0 | 100 | 98 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_53 length_17197 cov_16.072173 | 10192 | 11616 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_12 length_112638 cov_15.741679 | 75571 | 76293 | sdiA | 0/0 | 100 | 98 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_11 length_115250 cov_14.173189 | 62380 | 62817 | (AGly)aac6-Iy | 0/0 | 100 | 98 | AF144880:3452-3979 | (AGly)aac6-Iy | NA |
MS0498
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_28 length_65470 cov_13.544236 | 52426 | 52863 | aac(6’)-Iaa_1 | 0/0 | 100 | 99 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
| NODE_93 length_2826 cov_1537.663950 | 1091 | 1735 | qnrB19_1 | 0/0 | 100 | 100 | EU432277 | qnrB19 | Ciprofloxacin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_28 length_65470 cov_13.544236 | 52426 | 52863 | AAC(6’)-Iaa | 0/0 | 100 | 99 | AE006468.2:1707351-1707789 | AAC(6’)-Iaa is a chromosomal-encoded aminoglycoside acetyltransferase in S. typhimurium | aminoglycoside |
| NODE_4 length_153648 cov_17.519955 | 89708 | 90172 | golS | 0/0 | 100 | 99 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_4 length_153648 cov_17.519955 | 92749 | 93975 | mdsA | 0/0 | 100 | 99 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_4 length_153648 cov_17.519955 | 93972 | 97139 | mdsB | 0/0 | 100 | 99 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_4 length_153648 cov_17.519955 | 97102 | 98613 | mdsC | 0/0 | 100 | 99 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_16 length_93408 cov_15.297467 | 71709 | 73133 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_93 length_2826 cov_1537.663950 | 1091 | 1771 | QnrB5 | 0/0 | 100 | 99 | DQ303919:0-681 | QnrB5 is a plasmid-mediated quinolone resistance protein found in Salmonella enterica | fluoroquinolone |
| NODE_10 length_115205 cov_14.347955 | 78159 | 78881 | sdiA | 0/0 | 100 | 98 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_28 length_65470 cov_13.544236 | 52426 | 52863 | (AGly)aac6-Iaa | 0/0 | 100 | 99 | NC_003197:1707358-1707795 | (AGly)aac6-Iaa | NA |
| NODE_93 length_2826 cov_1537.663950 | 1091 | 1771 | (Flq)qnrB5 | 0/0 | 100 | 99 | DQ303919:1-681 | (Flq)qnrB5 | NA |
MS0499
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_4 length_247095 cov_15.109630 | 158801 | 159238 | aac(6’)-Iaa_1 | 0/0 | 100 | 99 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
| NODE_70 length_2826 cov_1536.375324 | 1091 | 1735 | qnrB19_1 | 0/0 | 100 | 100 | EU432277 | qnrB19 | Ciprofloxacin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_4 length_247095 cov_15.109630 | 158801 | 159238 | AAC(6’)-Iaa | 0/0 | 100 | 99 | AE006468.2:1707351-1707789 | AAC(6’)-Iaa is a chromosomal-encoded aminoglycoside acetyltransferase in S. typhimurium | aminoglycoside |
| NODE_2 length_403701 cov_18.990123 | 64431 | 64895 | golS | 0/0 | 100 | 99 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_2 length_403701 cov_18.990123 | 60628 | 61854 | mdsA | 0/0 | 100 | 99 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_2 length_403701 cov_18.990123 | 57464 | 60631 | mdsB | 0/0 | 100 | 99 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_2 length_403701 cov_18.990123 | 55990 | 57501 | mdsC | 0/0 | 100 | 99 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_5 length_236778 cov_16.771660 | 25956 | 27380 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_70 length_2826 cov_1536.375324 | 1091 | 1771 | QnrB5 | 0/0 | 100 | 99 | DQ303919:0-681 | QnrB5 is a plasmid-mediated quinolone resistance protein found in Salmonella enterica | fluoroquinolone |
| NODE_7 length_162718 cov_15.360813 | 14409 | 15131 | sdiA | 0/0 | 100 | 98 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_4 length_247095 cov_15.109630 | 158801 | 159238 | (AGly)aac6-Iaa | 0/0 | 100 | 99 | NC_003197:1707358-1707795 | (AGly)aac6-Iaa | NA |
| NODE_70 length_2826 cov_1536.375324 | 1091 | 1771 | (Flq)qnrB5 | 0/0 | 100 | 99 | DQ303919:1-681 | (Flq)qnrB5 | NA |
MS0500
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_2 length_343106 cov_18.408900 | 51079 | 51516 | aac(6’)-Iaa_1 | 0/0 | 100 | 96 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_2 length_343106 cov_18.408900 | 51079 | 51516 | AAC(6’)-Iy | 0/0 | 100 | 97 | AF144880:3541-3979 | AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter. | aminoglycoside |
| NODE_1 length_438900 cov_21.348599 | 80683 | 81147 | golS | 0/0 | 100 | 100 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_1 length_438900 cov_21.348599 | 76880 | 78106 | mdsA | 0/0 | 100 | 99 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_1 length_438900 cov_21.348599 | 73716 | 76883 | mdsB | 0/0 | 100 | 100 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_1 length_438900 cov_21.348599 | 72242 | 73753 | mdsC | 0/0 | 100 | 98 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_23 length_65495 cov_19.942036 | 45261 | 46685 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_9 length_172957 cov_18.373234 | 43784 | 44506 | sdiA | 0/0 | 100 | 99 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_2 length_343106 cov_18.408900 | 51079 | 51516 | (AGly)aac6-Iy | 0/0 | 100 | 97 | AF144880:3452-3979 | (AGly)aac6-Iy | NA |
MS0501
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_51 length_31448 cov_14.845822 | 15446 | 15883 | aac(6’)-Iaa_1 | 0/0 | 100 | 98 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_51 length_31448 cov_14.845822 | 15446 | 15883 | AAC(6’)-Iy | 0/0 | 100 | 98 | AF144880:3541-3979 | AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter. | aminoglycoside |
| NODE_20 length_66119 cov_19.653200 | 23621 | 24085 | golS | 0/0 | 100 | 99 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_20 length_66119 cov_19.653200 | 26662 | 27888 | mdsA | 0/0 | 100 | 99 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_20 length_66119 cov_19.653200 | 27885 | 31052 | mdsB | 0/0 | 100 | 99 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_20 length_66119 cov_19.653200 | 31015 | 32526 | mdsC | 0/0 | 100 | 98 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_17 length_80241 cov_17.801158 | 7422 | 8846 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_28 length_54018 cov_17.535414 | 17111 | 17833 | sdiA | 0/0 | 100 | 99 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_51 length_31448 cov_14.845822 | 15446 | 15883 | (AGly)aac6-Iy | 0/0 | 100 | 98 | AF144880:3452-3979 | (AGly)aac6-Iy | NA |
MS0502
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_1 length_558193 cov_14.693909 | 83591 | 84028 | aac(6’)-Iaa_1 | 0/0 | 100 | 99 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_1 length_558193 cov_14.693909 | 83591 | 84028 | AAC(6’)-Iy | 0/0 | 100 | 100 | AF144880:3541-3979 | AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter. | aminoglycoside |
| NODE_8 length_198416 cov_20.162954 | 108234 | 108698 | golS | 0/0 | 100 | 99 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_8 length_198416 cov_20.162954 | 104431 | 105657 | mdsA | 0/0 | 100 | 99 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_8 length_198416 cov_20.162954 | 101267 | 104434 | mdsB | 0/0 | 100 | 99 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_8 length_198416 cov_20.162954 | 99793 | 101304 | mdsC | 0/0 | 100 | 99 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_2 length_395533 cov_15.228525 | 72990 | 74414 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_2 length_395533 cov_15.228525 | 142494 | 143216 | sdiA | 0/0 | 100 | 99 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_1 length_558193 cov_14.693909 | 83591 | 84028 | (AGly)aac6-Iy | 0/0 | 100 | 100 | AF144880:3452-3979 | (AGly)aac6-Iy | NA |
MS0503
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_2 length_403085 cov_13.500407 | 175360 | 175797 | aac(6’)-Iaa_1 | 0/0 | 100 | 99 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_2 length_403085 cov_13.500407 | 175360 | 175797 | AAC(6’)-Iy | 0/0 | 100 | 100 | AF144880:3541-3979 | AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter. | aminoglycoside |
| NODE_7 length_198401 cov_17.789685 | 108234 | 108698 | golS | 0/0 | 100 | 99 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_7 length_198401 cov_17.789685 | 104431 | 105657 | mdsA | 0/0 | 100 | 99 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_7 length_198401 cov_17.789685 | 101267 | 104434 | mdsB | 0/0 | 100 | 99 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_7 length_198401 cov_17.789685 | 99793 | 101304 | mdsC | 0/0 | 100 | 99 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_28 length_36756 cov_14.880177 | 10551 | 11975 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_8 length_196298 cov_14.571940 | 36338 | 37060 | sdiA | 0/0 | 100 | 99 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_2 length_403085 cov_13.500407 | 175360 | 175797 | (AGly)aac6-Iy | 0/0 | 100 | 100 | AF144880:3452-3979 | (AGly)aac6-Iy | NA |
MS0504
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_62 length_27019 cov_12.734828 | 14103 | 14540 | aac(6’)-Iaa_1 | 0/0 | 100 | 100 | NC_003197 | aac(6’)-Iaa | Amikacin, Tobramycin |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_62 length_27019 cov_12.734828 | 14103 | 14540 | AAC(6’)-Iy | 0/0 | 100 | 100 | AF144880:3541-3979 | AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter. | aminoglycoside |
| NODE_31 length_46760 cov_15.326486 | 22637 | 23101 | golS | 0/0 | 100 | 99 | AE006468.2:400860-401325 | GolS is a regulator activated by the presence of golD and promotes the expression of the MdsABC efflux pump. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_31 length_46760 cov_15.326486 | 18834 | 20060 | mdsA | 0/0 | 100 | 99 | AE006468.2:398284-397057 | MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_31 length_46760 cov_15.326486 | 15670 | 18837 | mdsB | 0/0 | 100 | 100 | AE006468.2:397061-393893 | MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC. mdsB corresponds to 1 locus in Pseudomonas aeruginosa PAO1 (gene name: mexQ) and 2 loci in Pseudomonas aeruginosa LESB58. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_31 length_46760 cov_15.326486 | 14196 | 15707 | mdsC | 0/0 | 100 | 99 | AE006468.2:393931-392419 | MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem, phenicol |
| NODE_46 length_34538 cov_13.913167 | 25951 | 27375 | mdtK | 0/0 | 100 | 99 | CP014358.1:2162750-2161325 | A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine. | fluoroquinolone |
| NODE_34 length_43892 cov_14.254267 | 17073 | 17795 | sdiA | 0/0 | 100 | 99 | AE006468.2:2040377-2039654 | SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| NODE_62 length_27019 cov_12.734828 | 14103 | 14540 | (AGly)aac6-Iy | 0/0 | 100 | 100 | AF144880:3452-3979 | (AGly)aac6-Iy | NA |
Summary figures
Presence/Absence of antimicrobial resistance genes (coverage and identity > 90%) on each sample.
Select the database:
Resfinder
CARD
ARG-ANNOT
Antimicrobial resistance due to point mutations
Select the sample
MS0495
| Mutation | Nucleotide change | Amino acid change | Resistance | PMID |
|---|---|---|---|---|
| parC p.T57S | ACC -> AGC | T -> S | Nalidixic acid,Ciprofloxacin | 15388468 |
MS0496
| Mutation | Nucleotide change | Amino acid change | Resistance | PMID |
|---|---|---|---|---|
| parC p.T57S | ACC -> AGC | T -> S | Nalidixic acid,Ciprofloxacin | 15388468 |
MS0497
| Mutation | Nucleotide change | Amino acid change | Resistance | PMID |
|---|---|---|---|---|
| parC p.T57S | ACC -> AGC | T -> S | Nalidixic acid,Ciprofloxacin | 15388468 |
MS0498
| Mutation | Nucleotide change | Amino acid change | Resistance | PMID |
|---|---|---|---|---|
| parC p.T57S | ACC -> AGC | T -> S | Nalidixic acid,Ciprofloxacin | 15388468 |
MS0499
| Mutation | Nucleotide change | Amino acid change | Resistance | PMID |
|---|---|---|---|---|
| parC p.T57S | ACC -> AGC | T -> S | Nalidixic acid,Ciprofloxacin | 15388468 |
MS0500
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"MS0501
| Mutation | Nucleotide change | Amino acid change | Resistance | PMID |
|---|---|---|---|---|
| parC p.T57S | ACC -> AGC | T -> S | Nalidixic acid,Ciprofloxacin | 15388468 |
MS0502
| Mutation | Nucleotide change | Amino acid change | Resistance | PMID |
|---|---|---|---|---|
| parC p.T57S | ACC -> AGC | T -> S | Nalidixic acid,Ciprofloxacin | 15388468 |
MS0503
| Mutation | Nucleotide change | Amino acid change | Resistance | PMID |
|---|---|---|---|---|
| parC p.T57S | ACC -> AGC | T -> S | Nalidixic acid,Ciprofloxacin | 15388468 |
MS0504
| Mutation | Nucleotide change | Amino acid change | Resistance | PMID |
|---|---|---|---|---|
| parC p.T57S | ACC -> AGC | T -> S | Nalidixic acid,Ciprofloxacin | 15388468 |
Virulence genes
The search of virulence genes was performed by screening the genome against Virulence Factors Data Base (VFDB, L. Chen et al., 2005) by using Abricate. Any hit with coverage and/or identity below 90% was removed. If you would like to inspect hits with coverage and/or identity below 90%, please go to the corresponing TORMES output directory.
| Field | Description |
|---|---|
| Contig | Contig name where the virulence gene was found |
| Start | Start position of the virulence gene within the contig |
| End | End position of the virulence gene within the contig |
| Gene | Virulence gene |
| Gaps | Gaps in subject (genome) and query (virulence gene) |
| Coverage | Proportion (%) of the gene covered |
| Identity | Proportion (%) of exact nucleotide matches |
| Accession | Accesion number of the virulence gene |
| Product | Virulence gene product |
Select the sample
MS0495
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_1 length_586740 cov_13.404769 | 39429 | 40238 | cdtB | 0/0 | 100 | 100 | NP_456275 | (cdtB) cytolethal distending toxin B [CdtB (VF0407)] [Salmonella enterica subsp. enterica serovar Typhi str. CT18] |
| NODE_10 length_155084 cov_14.356744 | 70219 | 70674 | csgA | 0/0 | 100 | 99 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_155084 cov_14.356744 | 70716 | 71171 | csgB | 0/0 | 100 | 99 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_155084 cov_14.356744 | 69831 | 70157 | csgC | 0/0 | 100 | 100 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_155084 cov_14.356744 | 71926 | 72576 | csgD | 0/0 | 100 | 99 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_155084 cov_14.356744 | 72581 | 72976 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_155084 cov_14.356744 | 73003 | 73419 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_155084 cov_14.356744 | 73446 | 74279 | csgG | 0/0 | 100 | 99 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_453569 cov_16.045675 | 303201 | 303893 | fimC | 0/0 | 100 | 99 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_453569 cov_16.045675 | 303924 | 306536 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_453569 cov_16.045675 | 307568 | 308085 | fimF | 0/0 | 100 | 98 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_453569 cov_16.045675 | 306551 | 307558 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_453569 cov_16.045675 | 302624 | 303157 | fimI | 0/0 | 100 | 98 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 341850 | 343907 | invA | 0/0 | 100 | 99 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 343931 | 344338 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 344335 | 345630 | invC | 0/0 | 100 | 99 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 340707 | 341825 | invE | 0/0 | 100 | 99 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 338375 | 339025 | invF | 0/0 | 100 | 99 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 339022 | 340710 | invG | 0/0 | 100 | 99 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 337475 | 337918 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 345608 | 346051 | invI | 0/0 | 100 | 100 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 346051 | 347061 | invJ | 0/0 | 100 | 99 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_17 length_95766 cov_20.143791 | 48213 | 50939 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_17 length_95766 cov_20.143791 | 47299 | 47994 | mgtC | 0/0 | 100 | 98 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_140248 cov_16.620656 | 39623 | 40519 | mig-14 | 0/0 | 100 | 97 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_17 length_95766 cov_20.143791 | 54794 | 57646 | misL | 1/15 | 99 | 98 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 367273 | 367872 | orgA | 0/0 | 100 | 99 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 367829 | 368519 | orgB | 1/10 | 100 | 98 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 368516 | 368968 | orgC | 0/0 | 100 | 98 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_155084 cov_14.356744 | 124683 | 125558 | pipB | 0/0 | 100 | 99 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 364777 | 365955 | prgH | 0/0 | 100 | 99 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 365980 | 366222 | prgI | 0/0 | 100 | 100 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 366241 | 366546 | prgJ | 0/0 | 100 | 100 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 366543 | 367301 | prgK | 0/0 | 100 | 100 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_243417 cov_15.331238 | 130654 | 137964 | ratB | 5/7 | 100 | 91 | NP_461449 | (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 350912 | 351409 | sicA | 0/0 | 100 | 99 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 358217 | 358609 | sicP | 0/0 | 100 | 99 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 12535 | 13545 | sifA | 0/0 | 100 | 96 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 401098 | 402048 | sifB | 0/0 | 100 | 96 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_243417 cov_15.331238 | 144839 | 147031 | sinH | 0/0 | 100 | 96 | NP_461452 | (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 355562 | 357619 | sipA/sspA | 0/0 | 100 | 98 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 351412 | 353193 | sipB/sspB | 0/0 | 100 | 100 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 353221 | 354450 | sipC/sspC | 0/0 | 100 | 99 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 354521 | 355543 | sipD | 3/11 | 99 | 90 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_260416 cov_14.461249 | 180313 | 182580 | slrP | 2/30 | 99 | 95 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_16 length_126356 cov_13.726386 | 45554 | 47902 | sopA | 0/0 | 100 | 97 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_155084 cov_14.356744 | 122091 | 123776 | sopB/sigD | 0/0 | 100 | 98 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 293683 | 294636 | sopD | 0/0 | 100 | 98 | NP_461866 | (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_260416 cov_14.461249 | 42295 | 43254 | sopD2 | 0/0 | 100 | 93 | NP_459947 | (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_8 length_225726 cov_13.618757 | 81782 | 82504 | sopE2 | 0/0 | 100 | 97 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 347061 | 347972 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 347962 | 348636 | spaP | 0/0 | 100 | 99 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 348662 | 348922 | spaQ | 0/0 | 100 | 100 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 348926 | 349717 | spaR | 0/0 | 100 | 99 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 349704 | 350774 | spaS | 0/0 | 100 | 99 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 184268 | 184669 | spiC/ssaB | 0/0 | 100 | 99 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_411544 cov_18.586028 | 358596 | 360227 | sptP | 0/0 | 100 | 97 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 184671 | 186164 | ssaC | 0/0 | 100 | 98 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 186145 | 187356 | ssaD | 0/0 | 100 | 99 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 187364 | 187606 | ssaE | 0/0 | 100 | 99 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 193806 | 194021 | ssaG | 0/0 | 100 | 100 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 194062 | 194289 | ssaH | 0/0 | 100 | 100 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 194301 | 194549 | ssaI | 0/0 | 100 | 98 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 194546 | 195295 | ssaJ | 0/0 | 100 | 98 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 195858 | 196532 | ssaK | 0/0 | 100 | 99 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 196498 | 197514 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 197572 | 197940 | ssaM | 0/0 | 100 | 97 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 199960 | 201267 | ssaN | 1/6 | 100 | 99 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 201270 | 201647 | ssaO | 0/0 | 100 | 99 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 201628 | 202002 | ssaP | 0/0 | 100 | 100 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 201983 | 202951 | ssaQ | 0/0 | 100 | 98 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 203019 | 203666 | ssaR | 0/0 | 100 | 99 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 203663 | 203929 | ssaS | 0/0 | 100 | 100 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 203930 | 204709 | ssaT | 0/0 | 100 | 98 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 204706 | 205764 | ssaU | 0/0 | 100 | 98 | NP_460387 | (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 197925 | 199970 | ssaV | 0/0 | 100 | 99 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 188790 | 189263 | sscA | 0/0 | 100 | 97 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 191794 | 192228 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 187870 | 188196 | sseA | 0/0 | 100 | 99 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 188203 | 188793 | sseB | 0/0 | 100 | 97 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 189266 | 190720 | sseC | 0/0 | 100 | 97 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 190736 | 191323 | sseD | 0/0 | 100 | 97 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 191326 | 191742 | sseE | 0/0 | 100 | 99 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 192244 | 193026 | sseF | 0/0 | 100 | 98 | NP_460369 | (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 193023 | 193712 | sseG | 0/0 | 100 | 98 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 430211 | 431437 | sseJ | 0/0 | 100 | 97 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_33332 cov_19.549857 | 14025 | 15035 | sseK1 | 0/0 | 100 | 99 | NP_463026 | (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_154126 cov_14.681829 | 41646 | 42599 | sseL | 0/0 | 100 | 97 | NP_461229 | (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 378449 | 379081 | steA | 0/0 | 100 | 94 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 428539 | 428940 | steB | 0/0 | 100 | 96 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_586740 cov_13.404769 | 507531 | 508904 | steC | 0/0 | 100 | 95 | NP_460656 | (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
MS0496
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_2 length_336019 cov_22.692062 | 147148 | 148056 | avrA | 0/0 | 100 | 99 | NP_461786 | (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 57084 | 57539 | csgA | 0/0 | 100 | 99 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 56587 | 57042 | csgB | 0/0 | 100 | 100 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 57601 | 57927 | csgC | 0/0 | 100 | 100 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 55182 | 55832 | csgD | 0/0 | 100 | 99 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 54782 | 55177 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 54339 | 54755 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 53479 | 54312 | csgG | 0/0 | 100 | 100 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_249784 cov_21.237534 | 134720 | 135412 | fimC | 0/0 | 100 | 99 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_249784 cov_21.237534 | 132077 | 134689 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_249784 cov_21.237534 | 130527 | 131045 | fimF | 0/0 | 100 | 98 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_249784 cov_21.237534 | 131055 | 132062 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_249784 cov_21.237534 | 135456 | 135989 | fimI | 0/0 | 100 | 99 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 175660 | 177717 | invA | 0/0 | 100 | 100 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 175229 | 175636 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 173937 | 175232 | invC | 0/0 | 100 | 99 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 177742 | 178860 | invE | 0/0 | 100 | 100 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 180542 | 181192 | invF | 0/0 | 100 | 100 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 178857 | 180545 | invG | 0/0 | 100 | 100 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 181650 | 182093 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 173516 | 173959 | invI | 0/0 | 100 | 99 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 172506 | 173516 | invJ | 0/0 | 100 | 99 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_221591 cov_23.714193 | 102 | 638 | lpfA | 0/0 | 100 | 97 | NP_462541 | (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_221591 cov_23.714193 | 722 | 1420 | lpfB | 0/0 | 100 | 99 | NP_462540 | (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_221591 cov_23.714193 | 1443 | 3971 | lpfC | 0/0 | 100 | 99 | NP_462539 | (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_221591 cov_23.714193 | 5059 | 5586 | lpfE | 0/0 | 100 | 99 | NP_462537 | (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_14 length_107805 cov_25.914811 | 62403 | 65129 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_14 length_107805 cov_25.914811 | 65349 | 66044 | mgtC | 0/0 | 100 | 99 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 66759 | 67655 | mig-14 | 0/0 | 100 | 98 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_14 length_107805 cov_25.914811 | 55623 | 58490 | misL | 3/30 | 99 | 97 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 151686 | 152285 | orgA | 0/0 | 100 | 100 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 151039 | 151729 | orgB | 1/10 | 100 | 98 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 150590 | 151042 | orgC | 0/0 | 100 | 98 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_128252 cov_19.083934 | 21371 | 22246 | pipB | 0/0 | 100 | 99 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 63966 | 65018 | pipB2 | 0/0 | 100 | 94 | NP_461706 | (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 153603 | 154781 | prgH | 0/0 | 100 | 99 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 153336 | 153578 | prgI | 0/0 | 100 | 99 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 153012 | 153317 | prgJ | 0/0 | 100 | 100 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 152257 | 153015 | prgK | 0/0 | 100 | 99 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 168158 | 168655 | sicA | 0/0 | 100 | 99 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 160949 | 161341 | sicP | 0/0 | 100 | 99 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 135301 | 136311 | sifA | 0/0 | 100 | 96 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 521116 | 522066 | sifB | 0/0 | 100 | 96 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_242135 cov_21.392239 | 193 | 2385 | sinH | 0/0 | 100 | 98 | NP_461452 | (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 161939 | 163996 | sipA/sspA | 0/0 | 100 | 99 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 166374 | 168155 | sipB/sspB | 0/0 | 100 | 100 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 165117 | 166346 | sipC/sspC | 0/0 | 100 | 100 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 164015 | 165046 | sipD | 0/0 | 100 | 99 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_26 length_59659 cov_19.118558 | 34575 | 36842 | slrP | 1/30 | 99 | 95 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_30 length_50067 cov_19.652283 | 24820 | 27168 | sopA | 0/0 | 100 | 98 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_128252 cov_19.083934 | 18347 | 20032 | sopB/sigD | 0/0 | 100 | 98 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 225310 | 226263 | sopD | 0/0 | 100 | 98 | NP_461866 | (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_128252 cov_19.083934 | 97838 | 98797 | sopD2 | 0/0 | 100 | 93 | NP_459947 | (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_136467 cov_17.965960 | 20161 | 20883 | sopE2 | 0/0 | 100 | 97 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 171595 | 172506 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 170931 | 171605 | spaP | 0/0 | 100 | 99 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 170645 | 170905 | spaQ | 0/0 | 100 | 99 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 169850 | 170641 | spaR | 0/0 | 100 | 100 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 168793 | 169863 | spaS | 0/0 | 100 | 100 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 306449 | 306850 | spiC/ssaB | 0/0 | 100 | 100 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_336019 cov_22.692062 | 159331 | 160962 | sptP | 0/0 | 100 | 98 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 306852 | 308345 | ssaC | 0/0 | 100 | 99 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 308326 | 309537 | ssaD | 0/0 | 100 | 99 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 309545 | 309787 | ssaE | 0/0 | 100 | 99 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 315985 | 316200 | ssaG | 0/0 | 100 | 99 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 316241 | 316468 | ssaH | 0/0 | 100 | 99 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 316480 | 316728 | ssaI | 0/0 | 100 | 98 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 316725 | 317474 | ssaJ | 0/0 | 100 | 99 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 318037 | 318711 | ssaK | 0/0 | 100 | 99 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 318677 | 319693 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 319751 | 320119 | ssaM | 0/0 | 100 | 99 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 322139 | 323440 | ssaN | 0/0 | 100 | 98 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 323443 | 323820 | ssaO | 0/0 | 100 | 99 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 323801 | 324175 | ssaP | 0/0 | 100 | 99 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 324156 | 325124 | ssaQ | 0/0 | 100 | 99 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 325192 | 325839 | ssaR | 0/0 | 100 | 100 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 325836 | 326102 | ssaS | 0/0 | 100 | 100 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 326103 | 326882 | ssaT | 0/0 | 100 | 98 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 326879 | 327937 | ssaU | 0/0 | 100 | 98 | NP_460387 | (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 320104 | 322149 | ssaV | 0/0 | 100 | 99 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 310970 | 311443 | sscA | 0/0 | 100 | 98 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 313974 | 314408 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 310050 | 310376 | sseA | 0/0 | 100 | 99 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 310383 | 310973 | sseB | 0/0 | 100 | 97 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 311446 | 312900 | sseC | 0/0 | 100 | 96 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 312916 | 313503 | sseD | 0/0 | 100 | 95 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 313506 | 313922 | sseE | 0/0 | 100 | 98 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 314424 | 315206 | sseF | 0/0 | 100 | 98 | NP_460369 | (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 315203 | 315892 | sseG | 0/0 | 100 | 98 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_18 length_74778 cov_16.215885 | 73074 | 74300 | sseJ | 0/0 | 100 | 96 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_112834 cov_20.092967 | 3672 | 4718 | sseK2 | 0/0 | 100 | 99 | NP_461081 | (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_19 length_74321 cov_19.222417 | 32081 | 33034 | sseL | 0/0 | 100 | 95 | NP_461229 | (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 498443 | 499075 | steA | 0/0 | 100 | 97 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_549241 cov_18.519074 | 548556 | 548957 | steB | 0/0 | 100 | 97 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_18 length_74778 cov_16.215885 | 2 | 1357 | steC | 0/0 | 99 | 96 | NP_460656 | (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
MS0497
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_4 length_224730 cov_14.909040 | 5382 | 6191 | cdtB | 0/0 | 100 | 100 | NP_456275 | (cdtB) cytolethal distending toxin B [CdtB (VF0407)] [Salmonella enterica subsp. enterica serovar Typhi str. CT18] |
| NODE_5 length_184030 cov_15.079901 | 84484 | 84939 | csgA | 0/0 | 100 | 99 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_184030 cov_15.079901 | 83987 | 84442 | csgB | 0/0 | 100 | 99 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_184030 cov_15.079901 | 85001 | 85327 | csgC | 0/0 | 100 | 100 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_184030 cov_15.079901 | 82582 | 83232 | csgD | 0/0 | 100 | 99 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_184030 cov_15.079901 | 82182 | 82577 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_184030 cov_15.079901 | 81739 | 82155 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_184030 cov_15.079901 | 80879 | 81712 | csgG | 0/0 | 100 | 99 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_26 length_63140 cov_16.183581 | 47497 | 48189 | fimC | 0/0 | 100 | 99 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_26 length_63140 cov_16.183581 | 48220 | 50832 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_26 length_63140 cov_16.183581 | 51864 | 52381 | fimF | 0/0 | 100 | 98 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_26 length_63140 cov_16.183581 | 50847 | 51854 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_26 length_63140 cov_16.183581 | 46920 | 47453 | fimI | 0/0 | 100 | 98 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 61127 | 63184 | invA | 0/0 | 100 | 99 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 63208 | 63615 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 63612 | 64907 | invC | 0/0 | 100 | 99 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 59984 | 61102 | invE | 0/0 | 100 | 99 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 57652 | 58302 | invF | 0/0 | 100 | 99 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 58299 | 59987 | invG | 0/0 | 100 | 99 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 56752 | 57195 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 64885 | 65328 | invI | 0/0 | 100 | 100 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 65328 | 66338 | invJ | 0/0 | 100 | 99 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_33 length_53044 cov_20.067672 | 1896 | 4622 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_33 length_53044 cov_20.067672 | 4841 | 5536 | mgtC | 0/0 | 100 | 98 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_30 length_57535 cov_17.423356 | 39623 | 40519 | mig-14 | 0/0 | 100 | 97 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_38 length_38948 cov_20.210633 | 1847 | 4699 | misL | 1/15 | 99 | 98 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 86550 | 87149 | orgA | 0/0 | 100 | 99 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 87106 | 87796 | orgB | 1/10 | 100 | 98 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 87793 | 88245 | orgC | 0/0 | 100 | 98 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_184030 cov_15.079901 | 29600 | 30475 | pipB | 0/0 | 100 | 99 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 84054 | 85232 | prgH | 0/0 | 100 | 99 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 85257 | 85499 | prgI | 0/0 | 100 | 100 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 85518 | 85823 | prgJ | 0/0 | 100 | 100 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 85820 | 86578 | prgK | 0/0 | 100 | 100 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_25 length_63246 cov_15.613888 | 55531 | 62841 | ratB | 5/7 | 100 | 91 | NP_461449 | (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 70189 | 70686 | sicA | 0/0 | 100 | 99 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 77494 | 77886 | sicP | 0/0 | 100 | 99 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_184030 cov_15.079901 | 167717 | 168727 | sifA | 0/0 | 100 | 96 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_11 length_115250 cov_14.173189 | 77044 | 77994 | sifB | 0/0 | 100 | 96 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_25 length_63246 cov_15.613888 | 46464 | 48656 | sinH | 0/0 | 100 | 96 | NP_461452 | (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 74839 | 76896 | sipA/sspA | 0/0 | 100 | 98 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 70689 | 72470 | sipB/sspB | 0/0 | 100 | 100 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 72498 | 73727 | sipC/sspC | 0/0 | 100 | 99 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 73798 | 74820 | sipD | 3/11 | 99 | 90 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_181675 cov_14.603488 | 37874 | 40141 | slrP | 2/30 | 99 | 95 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_23 length_65103 cov_15.790677 | 45554 | 47902 | sopA | 0/0 | 100 | 97 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_184030 cov_15.079901 | 31382 | 33067 | sopB/sigD | 0/0 | 100 | 98 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 12960 | 13913 | sopD | 0/0 | 100 | 98 | NP_461866 | (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_181675 cov_14.603488 | 177200 | 178159 | sopD2 | 0/0 | 100 | 93 | NP_459947 | (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_71 length_1199 cov_12.878731 | 73 | 795 | sopE2 | 0/0 | 100 | 97 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 66338 | 67249 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 67239 | 67913 | spaP | 0/0 | 100 | 99 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 67939 | 68199 | spaQ | 0/0 | 100 | 100 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 68203 | 68994 | spaR | 0/0 | 100 | 99 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 68981 | 70051 | spaS | 0/0 | 100 | 99 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 150221 | 150622 | spiC/ssaB | 0/0 | 100 | 99 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_130821 cov_18.889452 | 77873 | 79504 | sptP | 0/0 | 100 | 97 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 150624 | 152117 | ssaC | 0/0 | 100 | 98 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 152098 | 153309 | ssaD | 0/0 | 100 | 99 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 153317 | 153559 | ssaE | 0/0 | 100 | 99 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 159759 | 159974 | ssaG | 0/0 | 100 | 100 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 160015 | 160242 | ssaH | 0/0 | 100 | 100 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 160254 | 160502 | ssaI | 0/0 | 100 | 98 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 160499 | 161248 | ssaJ | 0/0 | 100 | 98 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 161811 | 162485 | ssaK | 0/0 | 100 | 99 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 162451 | 163467 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 163525 | 163893 | ssaM | 0/0 | 100 | 97 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 165913 | 167220 | ssaN | 1/6 | 100 | 99 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 167223 | 167600 | ssaO | 0/0 | 100 | 99 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 167581 | 167955 | ssaP | 0/0 | 100 | 100 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 167936 | 168904 | ssaQ | 0/0 | 100 | 98 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 168972 | 169619 | ssaR | 0/0 | 100 | 99 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 169616 | 169882 | ssaS | 0/0 | 100 | 100 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 169883 | 170662 | ssaT | 0/0 | 100 | 98 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 170659 | 171717 | ssaU | 0/0 | 100 | 98 | NP_460387 | (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 163878 | 165923 | ssaV | 0/0 | 100 | 99 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 154743 | 155216 | sscA | 0/0 | 100 | 97 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 157747 | 158181 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 153823 | 154149 | sseA | 0/0 | 100 | 99 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 154156 | 154746 | sseB | 0/0 | 100 | 97 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 155219 | 156673 | sseC | 0/0 | 100 | 97 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 156689 | 157276 | sseD | 0/0 | 100 | 97 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 157279 | 157695 | sseE | 0/0 | 100 | 99 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 158197 | 158979 | sseF | 0/0 | 100 | 98 | NP_460369 | (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_224730 cov_14.909040 | 158976 | 159665 | sseG | 0/0 | 100 | 98 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_11 length_115250 cov_14.173189 | 47655 | 48881 | sseJ | 0/0 | 100 | 97 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_51 length_19293 cov_15.986486 | 141 | 1151 | sseK1 | 0/0 | 100 | 99 | NP_463026 | (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_29 length_59399 cov_15.165677 | 43063 | 44016 | sseL | 0/0 | 100 | 97 | NP_461229 | (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_11 length_115250 cov_14.173189 | 100011 | 100643 | steA | 0/0 | 100 | 94 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_11 length_115250 cov_14.173189 | 50152 | 50553 | steB | 0/0 | 100 | 96 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_43 length_29783 cov_13.654202 | 28376 | 29749 | steC | 0/0 | 100 | 95 | NP_460656 | (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
MS0498
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_36 length_43137 cov_17.819879 | 2263 | 3171 | avrA | 0/0 | 100 | 99 | NP_461786 | (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_97993 cov_15.505671 | 1063 | 1518 | csgA | 0/0 | 100 | 99 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_97993 cov_15.505671 | 566 | 1021 | csgB | 0/0 | 100 | 100 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_97993 cov_15.505671 | 1580 | 1906 | csgC | 0/0 | 100 | 100 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_82 length_8172 cov_16.593536 | 7428 | 8078 | csgD | 0/0 | 100 | 99 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_82 length_8172 cov_16.593536 | 7028 | 7423 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_82 length_8172 cov_16.593536 | 6585 | 7001 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_82 length_8172 cov_16.593536 | 5725 | 6558 | csgG | 0/0 | 100 | 100 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_51 length_28857 cov_15.681761 | 5221 | 5913 | fimC | 0/0 | 100 | 99 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_51 length_28857 cov_15.681761 | 2578 | 5190 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_51 length_28857 cov_15.681761 | 1028 | 1546 | fimF | 0/0 | 100 | 98 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_51 length_28857 cov_15.681761 | 1556 | 2563 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_51 length_28857 cov_15.681761 | 5957 | 6490 | fimI | 0/0 | 100 | 99 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 4421 | 6478 | invA | 0/0 | 100 | 100 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 6502 | 6909 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 6906 | 8201 | invC | 0/0 | 100 | 99 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 3278 | 4396 | invE | 0/0 | 100 | 100 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 946 | 1596 | invF | 0/0 | 100 | 100 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 1593 | 3281 | invG | 0/0 | 100 | 100 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 45 | 488 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 8179 | 8622 | invI | 0/0 | 100 | 99 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 8622 | 9632 | invJ | 0/0 | 100 | 99 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_221410 cov_19.526769 | 220789 | 221325 | lpfA | 0/0 | 100 | 97 | NP_462541 | (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_221410 cov_19.526769 | 220007 | 220705 | lpfB | 0/0 | 100 | 99 | NP_462540 | (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_221410 cov_19.526769 | 217456 | 219984 | lpfC | 0/0 | 100 | 99 | NP_462539 | (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_221410 cov_19.526769 | 215841 | 216368 | lpfE | 0/0 | 100 | 99 | NP_462537 | (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_11 length_107697 cov_21.088631 | 42677 | 45403 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_11 length_107697 cov_21.088631 | 41762 | 42457 | mgtC | 0/0 | 100 | 99 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_30 length_59122 cov_17.108602 | 17240 | 18136 | mig-14 | 0/0 | 100 | 98 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_11 length_107697 cov_21.088631 | 49316 | 52183 | misL | 3/30 | 99 | 97 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 29853 | 30452 | orgA | 0/0 | 100 | 100 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 30409 | 31099 | orgB | 1/10 | 100 | 98 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 31096 | 31548 | orgC | 0/0 | 100 | 98 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_37 length_40142 cov_14.949894 | 27 | 902 | pipB | 0/0 | 100 | 99 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_30 length_59122 cov_17.108602 | 19877 | 20929 | pipB2 | 0/0 | 100 | 94 | NP_461706 | (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 27357 | 28535 | prgH | 0/0 | 100 | 99 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 28560 | 28802 | prgI | 0/0 | 100 | 99 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 28821 | 29126 | prgJ | 0/0 | 100 | 100 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 29123 | 29881 | prgK | 0/0 | 100 | 99 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 13483 | 13980 | sicA | 0/0 | 100 | 99 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 20797 | 21189 | sicP | 0/0 | 100 | 99 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_97993 cov_15.505671 | 79280 | 80290 | sifA | 0/0 | 100 | 96 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_28 length_65470 cov_13.544236 | 37250 | 38200 | sifB | 0/0 | 100 | 96 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_31 length_56892 cov_19.322487 | 54570 | 56762 | sinH | 0/0 | 100 | 98 | NP_461452 | (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 18142 | 20199 | sipA/sspA | 0/0 | 100 | 99 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 13983 | 15764 | sipB/sspB | 0/0 | 100 | 100 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 15792 | 17021 | sipC/sspC | 0/0 | 100 | 100 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 17092 | 18123 | sipD | 0/0 | 100 | 99 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_152416 cov_15.327535 | 115575 | 117842 | slrP | 1/30 | 99 | 95 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_16 length_93408 cov_15.297467 | 18470 | 20818 | sopA | 0/0 | 100 | 98 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_76 length_11117 cov_13.632029 | 8164 | 9849 | sopB/sigD | 0/0 | 100 | 98 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_149413 cov_18.312394 | 38623 | 39576 | sopD | 0/0 | 100 | 98 | NP_461866 | (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_26 length_66594 cov_15.655002 | 29403 | 30362 | sopD2 | 0/0 | 100 | 93 | NP_459947 | (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_24 length_70283 cov_13.568162 | 69222 | 69944 | sopE2 | 0/0 | 100 | 97 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 9632 | 10543 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 10533 | 11207 | spaP | 0/0 | 100 | 99 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 11233 | 11493 | spaQ | 0/0 | 100 | 99 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 11497 | 12288 | spaR | 0/0 | 100 | 100 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 12275 | 13345 | spaS | 0/0 | 100 | 100 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 7667 | 8068 | spiC/ssaB | 0/0 | 100 | 100 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_45 length_31672 cov_17.482042 | 21176 | 22807 | sptP | 0/0 | 100 | 98 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 6172 | 7665 | ssaC | 0/0 | 100 | 99 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 4980 | 6191 | ssaD | 0/0 | 100 | 99 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 4730 | 4972 | ssaE | 0/0 | 100 | 99 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 144627 | 144842 | ssaG | 0/0 | 100 | 99 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 144359 | 144586 | ssaH | 0/0 | 100 | 99 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 144099 | 144347 | ssaI | 0/0 | 100 | 98 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 143353 | 144102 | ssaJ | 0/0 | 100 | 99 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 142116 | 142790 | ssaK | 0/0 | 100 | 99 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 141134 | 142150 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 140708 | 141076 | ssaM | 0/0 | 100 | 99 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 137387 | 138688 | ssaN | 0/0 | 100 | 98 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 137007 | 137384 | ssaO | 0/0 | 100 | 99 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 136652 | 137026 | ssaP | 0/0 | 100 | 99 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 135703 | 136671 | ssaQ | 0/0 | 100 | 99 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 134988 | 135635 | ssaR | 0/0 | 100 | 100 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 134725 | 134991 | ssaS | 0/0 | 100 | 100 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 133945 | 134724 | ssaT | 0/0 | 100 | 98 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 132890 | 133948 | ssaU | 0/0 | 100 | 98 | NP_460387 | (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 138678 | 140723 | ssaV | 0/0 | 100 | 99 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 3074 | 3547 | sscA | 0/0 | 100 | 98 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 109 | 543 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 4141 | 4467 | sseA | 0/0 | 100 | 99 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 3544 | 4134 | sseB | 0/0 | 100 | 97 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 1617 | 3071 | sseC | 0/0 | 100 | 96 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 1014 | 1601 | sseD | 0/0 | 100 | 95 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_52 length_28146 cov_13.233627 | 595 | 1011 | sseE | 0/0 | 100 | 98 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_146295 cov_14.241989 | 144935 | 145624 | sseG | 0/0 | 100 | 98 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_58 length_25477 cov_12.839250 | 904 | 2130 | sseJ | 0/0 | 100 | 96 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_41 length_32722 cov_20.918914 | 17862 | 18872 | sseK1 | 0/0 | 100 | 99 | NP_463026 | (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_21 length_81721 cov_15.300010 | 3571 | 4617 | sseK2 | 0/0 | 100 | 99 | NP_461081 | (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_28 length_65470 cov_13.544236 | 14577 | 15209 | steA | 0/0 | 100 | 97 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_28 length_65470 cov_13.544236 | 64690 | 65091 | steB | 0/0 | 100 | 97 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
MS0499
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_35 length_43133 cov_20.445473 | 39967 | 40875 | avrA | 0/0 | 100 | 99 | NP_461786 | (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_236778 cov_16.771660 | 57004 | 57459 | csgA | 0/0 | 100 | 99 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_236778 cov_16.771660 | 56507 | 56962 | csgB | 0/0 | 100 | 100 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_236778 cov_16.771660 | 57521 | 57847 | csgC | 0/0 | 100 | 100 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_236778 cov_16.771660 | 55102 | 55752 | csgD | 0/0 | 100 | 99 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_236778 cov_16.771660 | 54702 | 55097 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_236778 cov_16.771660 | 54259 | 54675 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_236778 cov_16.771660 | 53399 | 54232 | csgG | 0/0 | 100 | 100 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403701 cov_18.990123 | 268986 | 269678 | fimC | 0/0 | 100 | 99 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403701 cov_18.990123 | 269709 | 272321 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403701 cov_18.990123 | 273353 | 273871 | fimF | 0/0 | 100 | 98 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403701 cov_18.990123 | 272336 | 273343 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403701 cov_18.990123 | 268409 | 268942 | fimI | 0/0 | 100 | 99 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 25231 | 27288 | invA | 0/0 | 100 | 100 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 24800 | 25207 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 23508 | 24803 | invC | 0/0 | 100 | 99 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 27313 | 28431 | invE | 0/0 | 100 | 100 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 30113 | 30763 | invF | 0/0 | 100 | 100 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 28428 | 30116 | invG | 0/0 | 100 | 100 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 31221 | 31664 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 23087 | 23530 | invI | 0/0 | 100 | 99 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 22077 | 23087 | invJ | 0/0 | 100 | 99 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_414499 cov_22.624224 | 220921 | 221457 | lpfA | 0/0 | 100 | 97 | NP_462541 | (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_414499 cov_22.624224 | 220139 | 220837 | lpfB | 0/0 | 100 | 99 | NP_462540 | (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_414499 cov_22.624224 | 217588 | 220116 | lpfC | 0/0 | 100 | 99 | NP_462539 | (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_414499 cov_22.624224 | 215973 | 216500 | lpfE | 0/0 | 100 | 99 | NP_462537 | (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_414499 cov_22.624224 | 369097 | 371823 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_414499 cov_22.624224 | 372043 | 372738 | mgtC | 0/0 | 100 | 99 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_37 length_34757 cov_18.762720 | 16366 | 17262 | mig-14 | 0/0 | 100 | 98 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_414499 cov_22.624224 | 362317 | 365184 | misL | 3/30 | 99 | 97 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 1257 | 1856 | orgA | 0/0 | 100 | 100 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 610 | 1300 | orgB | 1/10 | 100 | 98 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 161 | 613 | orgC | 0/0 | 100 | 98 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_19 length_79531 cov_16.139099 | 39460 | 40335 | pipB | 0/0 | 100 | 99 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_37 length_34757 cov_18.762720 | 13573 | 14625 | pipB2 | 0/0 | 100 | 94 | NP_461706 | (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 3174 | 4352 | prgH | 0/0 | 100 | 99 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 2907 | 3149 | prgI | 0/0 | 100 | 99 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 2583 | 2888 | prgJ | 0/0 | 100 | 100 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 1828 | 2586 | prgK | 0/0 | 100 | 99 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 17729 | 18226 | sicA | 0/0 | 100 | 99 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 10520 | 10912 | sicP | 0/0 | 100 | 99 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_236778 cov_16.771660 | 135221 | 136231 | sifA | 0/0 | 100 | 96 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_247095 cov_15.109630 | 143625 | 144575 | sifB | 0/0 | 100 | 96 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_266139 cov_18.717648 | 91 | 2283 | sinH | 0/0 | 100 | 98 | NP_461452 | (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 11510 | 13567 | sipA/sspA | 0/0 | 100 | 99 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 15945 | 17726 | sipB/sspB | 0/0 | 100 | 100 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 14688 | 15917 | sipC/sspC | 0/0 | 100 | 100 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 13586 | 14617 | sipD | 0/0 | 100 | 99 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_23 length_73619 cov_16.970201 | 34575 | 36842 | slrP | 1/30 | 99 | 95 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_32 length_50055 cov_17.007871 | 24955 | 27303 | sopA | 0/0 | 100 | 98 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_19 length_79531 cov_16.139099 | 36436 | 38121 | sopB/sigD | 0/0 | 100 | 98 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 74881 | 75834 | sopD | 0/0 | 100 | 98 | NP_461866 | (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_25 length_66396 cov_17.237381 | 29148 | 30107 | sopD2 | 0/0 | 100 | 93 | NP_459947 | (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_162718 cov_15.360813 | 93653 | 94375 | sopE2 | 0/0 | 100 | 97 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 21166 | 22077 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 20502 | 21176 | spaP | 0/0 | 100 | 99 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 20216 | 20476 | spaQ | 0/0 | 100 | 99 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 19421 | 20212 | spaR | 0/0 | 100 | 100 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 18364 | 19434 | spaS | 0/0 | 100 | 100 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 69199 | 69600 | spiC/ssaB | 0/0 | 100 | 100 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_15 length_89140 cov_19.659679 | 8902 | 10533 | sptP | 0/0 | 100 | 98 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 69602 | 71095 | ssaC | 0/0 | 100 | 99 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 71076 | 72287 | ssaD | 0/0 | 100 | 99 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 72295 | 72537 | ssaE | 0/0 | 100 | 99 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 1455 | 1670 | ssaG | 0/0 | 100 | 99 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 1711 | 1938 | ssaH | 0/0 | 100 | 99 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 1950 | 2198 | ssaI | 0/0 | 100 | 98 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 2195 | 2944 | ssaJ | 0/0 | 100 | 99 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 3507 | 4181 | ssaK | 0/0 | 100 | 99 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 4147 | 5163 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 5221 | 5589 | ssaM | 0/0 | 100 | 99 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 7609 | 8910 | ssaN | 0/0 | 100 | 98 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 8913 | 9290 | ssaO | 0/0 | 100 | 99 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 9271 | 9645 | ssaP | 0/0 | 100 | 99 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 9626 | 10594 | ssaQ | 0/0 | 100 | 99 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 10662 | 11309 | ssaR | 0/0 | 100 | 100 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 11306 | 11572 | ssaS | 0/0 | 100 | 100 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 11573 | 12352 | ssaT | 0/0 | 100 | 98 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 12349 | 13407 | ssaU | 0/0 | 100 | 98 | NP_460387 | (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 5574 | 7619 | ssaV | 0/0 | 100 | 99 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 73720 | 74193 | sscA | 0/0 | 100 | 98 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 76724 | 77158 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 72800 | 73126 | sseA | 0/0 | 100 | 99 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 73133 | 73723 | sseB | 0/0 | 100 | 97 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 74196 | 75650 | sseC | 0/0 | 100 | 96 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 75666 | 76253 | sseD | 0/0 | 100 | 95 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_77226 cov_15.706935 | 76256 | 76672 | sseE | 0/0 | 100 | 98 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_62916 cov_16.095972 | 673 | 1362 | sseG | 0/0 | 100 | 98 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_247095 cov_15.109630 | 172737 | 173963 | sseJ | 0/0 | 100 | 96 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_53 length_18864 cov_21.285425 | 151 | 1161 | sseK1 | 0/0 | 100 | 99 | NP_463026 | (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_113058 cov_16.737371 | 108117 | 109163 | sseK2 | 0/0 | 100 | 99 | NP_461081 | (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_247095 cov_15.109630 | 120952 | 121584 | steA | 0/0 | 100 | 97 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_247095 cov_15.109630 | 171065 | 171466 | steB | 0/0 | 100 | 97 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_247095 cov_15.109630 | 245680 | 247053 | steC | 0/0 | 100 | 96 | NP_460656 | (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
MS0500
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_13 length_144214 cov_21.738103 | 2459 | 3367 | avrA | 0/0 | 100 | 100 | NP_461786 | (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_189929 cov_19.391366 | 954 | 1409 | csgA | 0/0 | 100 | 99 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_189929 cov_19.391366 | 457 | 912 | csgB | 0/0 | 100 | 100 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_189929 cov_19.391366 | 1471 | 1797 | csgC | 0/0 | 100 | 100 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_55592 cov_21.606941 | 54643 | 55293 | csgD | 0/0 | 100 | 100 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_55592 cov_21.606941 | 54243 | 54638 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_55592 cov_21.606941 | 53800 | 54216 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_55592 cov_21.606941 | 52940 | 53773 | csgG | 0/0 | 100 | 100 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_438900 cov_21.348599 | 285322 | 286014 | fimC | 0/0 | 100 | 99 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_438900 cov_21.348599 | 286045 | 288657 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_438900 cov_21.348599 | 289689 | 290207 | fimF | 0/0 | 100 | 99 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_438900 cov_21.348599 | 288672 | 289679 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_438900 cov_21.348599 | 284745 | 285278 | fimI | 0/0 | 100 | 98 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 25176 | 27233 | invA | 0/0 | 100 | 99 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 24745 | 25152 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 23453 | 24748 | invC | 0/0 | 100 | 100 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 27258 | 28376 | invE | 0/0 | 100 | 100 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 30058 | 30708 | invF | 0/0 | 100 | 100 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 28373 | 30061 | invG | 0/0 | 100 | 99 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 31164 | 31607 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 23032 | 23475 | invI | 0/0 | 100 | 100 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 22022 | 23032 | invJ | 0/0 | 100 | 99 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_228394 cov_24.336886 | 102 | 638 | lpfA | 0/0 | 100 | 100 | NP_462541 | (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_228394 cov_24.336886 | 723 | 1421 | lpfB | 0/0 | 100 | 100 | NP_462540 | (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_228394 cov_24.336886 | 1444 | 3972 | lpfC | 0/0 | 100 | 99 | NP_462539 | (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_228394 cov_24.336886 | 3990 | 5069 | lpfD | 0/0 | 100 | 100 | NP_462538 | (lpfD) long polar fimbrial protein LpfD [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_228394 cov_24.336886 | 5075 | 5602 | lpfE | 0/0 | 100 | 100 | NP_462537 | (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_16 length_123183 cov_24.632192 | 77773 | 80499 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_16 length_123183 cov_24.632192 | 80719 | 81414 | mgtC | 0/0 | 100 | 99 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_144214 cov_21.738103 | 82645 | 83541 | mig-14 | 0/0 | 100 | 98 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_16 length_123183 cov_24.632192 | 71053 | 73920 | misL | 0/0 | 100 | 99 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 1200 | 1799 | orgA | 0/0 | 100 | 100 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 563 | 1243 | orgB | 0/0 | 100 | 100 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 114 | 566 | orgC | 0/0 | 100 | 99 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_21 length_89962 cov_18.846830 | 33424 | 34299 | pipB | 0/0 | 100 | 99 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_144214 cov_21.738103 | 85283 | 86335 | pipB2 | 0/0 | 100 | 100 | NP_461706 | (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 3117 | 4295 | prgH | 0/0 | 100 | 100 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 2850 | 3092 | prgI | 0/0 | 100 | 100 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 2526 | 2831 | prgJ | 0/0 | 100 | 99 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 1771 | 2529 | prgK | 0/0 | 100 | 100 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_245745 cov_21.007841 | 106468 | 113775 | ratB | 0/0 | 100 | 99 | NP_461449 | (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 17674 | 18171 | sicA | 0/0 | 100 | 100 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 10465 | 10857 | sicP | 0/0 | 100 | 100 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_189929 cov_19.391366 | 79154 | 80164 | sifA | 0/0 | 100 | 100 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 65745 | 66695 | sifB | 0/0 | 100 | 98 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 11455 | 13512 | sipA/sspA | 0/0 | 100 | 100 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 15890 | 17671 | sipB/sspB | 0/0 | 100 | 100 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 14633 | 15862 | sipC/sspC | 0/0 | 100 | 100 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 13531 | 14562 | sipD | 0/0 | 100 | 100 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_24 length_65031 cov_19.515854 | 33913 | 36167 | slrP | 3/43 | 98 | 96 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_172957 cov_18.373234 | 126862 | 127395 | sodCI | 0/0 | 100 | 100 | NP_460019 | (sodCI) Gifsy-2 prophage: superoxide dismutase precursor (Cu-Zn) [SodCI (VF0109)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_197194 cov_20.326904 | 194356 | 196704 | sopA | 0/0 | 100 | 99 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_21 length_89962 cov_18.846830 | 35205 | 36890 | sopB/sigD | 0/0 | 100 | 100 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_19 length_109850 cov_22.932521 | 108826 | 109779 | sopD | 0/0 | 100 | 98 | NP_461866 | (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_163604 cov_19.603204 | 111954 | 112913 | sopD2 | 0/0 | 100 | 99 | NP_459947 | (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_172957 cov_18.373234 | 152144 | 152866 | sopE2 | 0/0 | 100 | 100 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 21111 | 22022 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 20447 | 21121 | spaP | 0/0 | 100 | 99 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 20161 | 20421 | spaQ | 0/0 | 100 | 100 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 19366 | 20157 | spaR | 0/0 | 100 | 99 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 18309 | 19379 | spaS | 0/0 | 100 | 100 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 273831 | 274232 | spiC/ssaB | 0/0 | 100 | 100 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_35 length_33794 cov_21.304096 | 8847 | 10478 | sptP | 0/0 | 100 | 100 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 272336 | 273829 | ssaC | 0/0 | 100 | 99 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 271144 | 272355 | ssaD | 0/0 | 100 | 100 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 270894 | 271136 | ssaE | 0/0 | 100 | 100 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 264540 | 264755 | ssaG | 0/0 | 100 | 100 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 264272 | 264499 | ssaH | 0/0 | 100 | 100 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 264012 | 264260 | ssaI | 0/0 | 100 | 100 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 263266 | 264015 | ssaJ | 0/0 | 100 | 99 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 262029 | 262703 | ssaK | 0/0 | 100 | 100 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 261047 | 262063 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 260621 | 260989 | ssaM | 0/0 | 100 | 100 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 257300 | 258601 | ssaN | 0/0 | 100 | 99 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 256920 | 257297 | ssaO | 0/0 | 100 | 100 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 256565 | 256939 | ssaP | 0/0 | 100 | 99 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 255616 | 256584 | ssaQ | 0/0 | 100 | 98 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 254901 | 255548 | ssaR | 0/0 | 100 | 99 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 254638 | 254904 | ssaS | 0/0 | 100 | 100 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 253858 | 254637 | ssaT | 0/0 | 100 | 99 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 252803 | 253861 | ssaU | 0/0 | 100 | 99 | NP_460387 | (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 258591 | 260636 | ssaV | 0/0 | 100 | 100 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 269298 | 269771 | sscA | 0/0 | 100 | 99 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 266333 | 266767 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 270365 | 270691 | sseA | 0/0 | 100 | 100 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 269768 | 270358 | sseB | 0/0 | 100 | 100 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 267841 | 269295 | sseC | 0/0 | 100 | 99 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 267238 | 267825 | sseD | 0/0 | 100 | 100 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 266819 | 267235 | sseE | 0/0 | 100 | 100 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 265535 | 266317 | sseF | 0/0 | 100 | 99 | NP_460369 | (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 264849 | 265538 | sseG | 0/0 | 100 | 99 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_163604 cov_19.603204 | 160554 | 161522 | sseI/srfH | 0/0 | 100 | 100 | NP_460026 | (sseI/srfH) type III secretion system effector SseI/SrfH cysteine protease [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 31625 | 32851 | sseJ | 0/0 | 100 | 100 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_155456 cov_20.657694 | 113199 | 114152 | sseL | 0/0 | 100 | 97 | NP_461229 | (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_5 length_197194 cov_20.326904 | 4336 | 6702 | sspH2 | 0/0 | 100 | 100 | NP_461184 | (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 88719 | 89351 | steA | 0/0 | 100 | 97 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_343106 cov_18.408900 | 34122 | 34522 | steB | 1/1 | 100 | 100 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_191046 cov_18.049618 | 48393 | 49766 | steC | 0/0 | 100 | 99 | NP_460656 | (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
MS0501
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_106 length_3491 cov_10.610583 | 2503 | 3312 | cdtB | 0/0 | 100 | 100 | NP_456275 | (cdtB) cytolethal distending toxin B [CdtB (VF0407)] [Salmonella enterica subsp. enterica serovar Typhi str. CT18] |
| NODE_6 length_135378 cov_17.004591 | 101888 | 102343 | csgA | 0/0 | 100 | 99 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_135378 cov_17.004591 | 102385 | 102840 | csgB | 0/0 | 100 | 99 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_135378 cov_17.004591 | 101500 | 101826 | csgC | 0/0 | 100 | 99 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_135378 cov_17.004591 | 103595 | 104245 | csgD | 0/0 | 100 | 99 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_135378 cov_17.004591 | 104250 | 104645 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_135378 cov_17.004591 | 104672 | 105088 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_135378 cov_17.004591 | 105115 | 105948 | csgG | 0/0 | 100 | 100 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_130137 cov_19.524329 | 15129 | 15821 | fimC | 0/0 | 100 | 98 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_130137 cov_19.524329 | 12486 | 15098 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_130137 cov_19.524329 | 10937 | 11454 | fimF | 0/0 | 100 | 98 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_130137 cov_19.524329 | 11464 | 12471 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_7 length_130137 cov_19.524329 | 15865 | 16398 | fimI | 0/0 | 100 | 99 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 8044 | 10101 | invA | 0/0 | 100 | 99 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 10125 | 10532 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 10529 | 11824 | invC | 0/0 | 100 | 99 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 6901 | 8019 | invE | 0/0 | 100 | 99 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 4569 | 5219 | invF | 0/0 | 100 | 100 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 5216 | 6904 | invG | 0/0 | 100 | 99 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 3669 | 4112 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 11802 | 12245 | invI | 0/0 | 100 | 100 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 12245 | 13255 | invJ | 0/0 | 100 | 99 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_55323 cov_23.117780 | 50738 | 53464 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_27 length_55323 cov_23.117780 | 49822 | 50517 | mgtC | 0/0 | 100 | 99 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_98963 cov_19.695971 | 81703 | 82599 | mig-14 | 0/0 | 100 | 97 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_94 length_6029 cov_19.819722 | 1179 | 4031 | misL | 1/15 | 99 | 98 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 33467 | 34066 | orgA | 0/0 | 100 | 100 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 34023 | 34713 | orgB | 1/10 | 100 | 98 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 34710 | 35162 | orgC | 0/0 | 100 | 99 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_44 length_36329 cov_17.097647 | 241 | 1116 | pipB | 0/0 | 100 | 99 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 30971 | 32149 | prgH | 0/0 | 100 | 99 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 32174 | 32416 | prgI | 0/0 | 100 | 100 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 32435 | 32740 | prgJ | 0/0 | 100 | 100 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 32737 | 33495 | prgK | 0/0 | 100 | 100 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 17106 | 17603 | sicA | 0/0 | 100 | 99 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 24411 | 24803 | sicP | 0/0 | 100 | 99 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_135378 cov_17.004591 | 16778 | 17788 | sifA | 0/0 | 100 | 97 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_51 length_31448 cov_14.845822 | 270 | 1220 | sifB | 0/0 | 100 | 96 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_79 length_14674 cov_20.241149 | 131 | 2323 | sinH | 0/0 | 100 | 96 | NP_461452 | (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 21756 | 23813 | sipA/sspA | 0/0 | 100 | 98 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 17606 | 19387 | sipB/sspB | 0/0 | 100 | 99 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 19415 | 20644 | sipC/sspC | 0/0 | 100 | 100 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 20715 | 21737 | sipD | 3/11 | 99 | 90 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_93603 cov_16.464536 | 58804 | 61071 | slrP | 2/30 | 99 | 95 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_17 length_80241 cov_17.801158 | 60647 | 62995 | sopA | 0/0 | 100 | 97 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_86 length_10509 cov_16.241187 | 8158 | 9843 | sopB/sigD | 0/0 | 100 | 98 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_29 length_53692 cov_20.885112 | 40635 | 41588 | sopD | 0/0 | 100 | 98 | NP_461866 | (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_47 length_34888 cov_15.027876 | 20265 | 20987 | sopE2 | 0/0 | 100 | 98 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 13255 | 14166 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 14156 | 14830 | spaP | 0/0 | 100 | 99 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 14856 | 15116 | spaQ | 0/0 | 100 | 100 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 15120 | 15911 | spaR | 0/0 | 100 | 99 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 15898 | 16968 | spaS | 0/0 | 100 | 99 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 123 | 524 | spiC/ssaB | 0/0 | 100 | 99 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_46 length_35322 cov_18.081688 | 24790 | 26421 | sptP | 0/0 | 100 | 98 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 526 | 2019 | ssaC | 0/0 | 100 | 99 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 2000 | 3211 | ssaD | 0/0 | 100 | 98 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 3219 | 3461 | ssaE | 0/0 | 100 | 99 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 9600 | 9815 | ssaG | 0/0 | 100 | 100 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 9856 | 10083 | ssaH | 0/0 | 100 | 100 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 10095 | 10343 | ssaI | 0/0 | 100 | 99 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 10340 | 11089 | ssaJ | 0/0 | 100 | 98 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 11652 | 12326 | ssaK | 0/0 | 100 | 99 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 12292 | 13308 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 13366 | 13734 | ssaM | 0/0 | 100 | 97 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 15754 | 17055 | ssaN | 0/0 | 100 | 99 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 17058 | 17435 | ssaO | 0/0 | 100 | 98 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 17416 | 17790 | ssaP | 0/0 | 100 | 99 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 17771 | 18739 | ssaQ | 0/0 | 100 | 98 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 18807 | 19454 | ssaR | 0/0 | 100 | 99 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 19451 | 19717 | ssaS | 0/0 | 100 | 99 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 19718 | 20497 | ssaT | 0/0 | 100 | 98 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 13719 | 15764 | ssaV | 0/0 | 100 | 99 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 4584 | 5057 | sscA | 0/0 | 100 | 97 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 7588 | 8022 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 3664 | 3990 | sseA | 0/0 | 100 | 100 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 3997 | 4587 | sseB | 0/0 | 100 | 97 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 5060 | 6514 | sseC | 0/0 | 100 | 97 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 6530 | 7117 | sseD | 0/0 | 100 | 97 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 7120 | 7536 | sseE | 0/0 | 100 | 99 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 8038 | 8820 | sseF | 0/0 | 100 | 98 | NP_460369 | (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_69 length_20602 cov_15.086593 | 8817 | 9506 | sseG | 0/0 | 100 | 97 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_51 length_31448 cov_14.845822 | 29381 | 30607 | sseJ | 0/0 | 100 | 97 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_40 length_36904 cov_16.683008 | 21688 | 22320 | steA | 0/0 | 100 | 94 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_51 length_31448 cov_14.845822 | 27709 | 28110 | steB | 0/0 | 100 | 98 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_92 length_7171 cov_12.926462 | 5748 | 7121 | steC | 0/0 | 100 | 95 | NP_460656 | (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
MS0502
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_14 length_154089 cov_19.931152 | 2391 | 3299 | avrA | 0/0 | 100 | 100 | NP_461786 | (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 556698 | 557153 | csgA | 0/0 | 100 | 99 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 557195 | 557650 | csgB | 0/0 | 100 | 100 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 556310 | 556636 | csgC | 0/0 | 100 | 100 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_158383 cov_15.601702 | 192 | 842 | csgD | 0/0 | 100 | 100 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_158383 cov_15.601702 | 847 | 1242 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_158383 cov_15.601702 | 1269 | 1685 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_158383 cov_15.601702 | 1712 | 2545 | csgG | 0/0 | 100 | 100 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_311708 cov_19.745119 | 114309 | 115001 | fimC | 0/0 | 100 | 98 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_311708 cov_19.745119 | 115032 | 117644 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_311708 cov_19.745119 | 118676 | 119194 | fimF | 0/0 | 100 | 99 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_311708 cov_19.745119 | 117659 | 118666 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_311708 cov_19.745119 | 113732 | 114265 | fimI | 0/0 | 100 | 98 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 167959 | 170016 | invA | 0/0 | 100 | 99 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 170040 | 170447 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 170444 | 171739 | invC | 0/0 | 100 | 99 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 166816 | 167934 | invE | 0/0 | 100 | 99 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 164484 | 165134 | invF | 0/0 | 100 | 99 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 165131 | 166819 | invG | 0/0 | 100 | 99 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 163583 | 164026 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 171717 | 172160 | invI | 0/0 | 100 | 100 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 172160 | 173170 | invJ | 0/0 | 100 | 99 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_17 length_101920 cov_23.993683 | 50725 | 53451 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_17 length_101920 cov_23.993683 | 53671 | 54366 | mgtC | 0/0 | 100 | 99 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_14 length_154089 cov_19.931152 | 82570 | 83466 | mig-14 | 0/0 | 100 | 98 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_17 length_101920 cov_23.993683 | 43944 | 46811 | misL | 0/0 | 100 | 99 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 193391 | 193990 | orgA | 0/0 | 100 | 100 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 193947 | 194627 | orgB | 0/0 | 100 | 100 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 194624 | 195076 | orgC | 0/0 | 100 | 99 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_158383 cov_15.601702 | 52697 | 53572 | pipB | 0/0 | 100 | 99 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_14 length_154089 cov_19.931152 | 85208 | 86260 | pipB2 | 0/0 | 100 | 98 | NP_461706 | (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 190895 | 192073 | prgH | 0/0 | 100 | 100 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 192098 | 192340 | prgI | 0/0 | 100 | 100 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 192359 | 192664 | prgJ | 0/0 | 100 | 100 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 192661 | 193419 | prgK | 0/0 | 100 | 100 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_360607 cov_17.370284 | 107423 | 113551 | shdA | 5/13 | 100 | 94 | NP_461448 | (shdA) AIDA autotransporter-like protein [ShdA (VF0398)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 177021 | 177518 | sicA | 0/0 | 100 | 99 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 184335 | 184727 | sicP | 0/0 | 100 | 100 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 477932 | 478942 | sifA | 0/0 | 100 | 100 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 98256 | 99206 | sifB | 0/0 | 100 | 97 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_360607 cov_17.370284 | 97419 | 99611 | sinH | 0/0 | 100 | 98 | NP_461452 | (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 181680 | 183737 | sipA/sspA | 0/0 | 100 | 100 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 177521 | 179302 | sipB/sspB | 0/0 | 100 | 99 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 179330 | 180559 | sipC/sspC | 0/0 | 100 | 100 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 180630 | 181661 | sipD | 0/0 | 100 | 100 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_169440 cov_15.786000 | 119616 | 121883 | slrP | 2/30 | 99 | 97 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_395533 cov_15.228525 | 19754 | 22102 | sopA | 0/0 | 100 | 99 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_158383 cov_15.601702 | 50106 | 51791 | sopB/sigD | 0/0 | 100 | 100 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 121150 | 122103 | sopD | 0/0 | 100 | 99 | NP_461866 | (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_13 length_158383 cov_15.601702 | 129223 | 130182 | sopD2 | 0/0 | 100 | 100 | NP_459947 | (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_395533 cov_15.228525 | 232459 | 233181 | sopE2 | 0/0 | 100 | 100 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 173170 | 174081 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 174071 | 174745 | spaP | 0/0 | 100 | 99 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 174771 | 175031 | spaQ | 0/0 | 100 | 100 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 175035 | 175826 | spaR | 0/0 | 100 | 100 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 175813 | 176883 | spaS | 0/0 | 100 | 100 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 310453 | 310852 | spiC/ssaB | 0/0 | 100 | 100 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_195208 cov_20.450398 | 184714 | 186345 | sptP | 0/0 | 100 | 100 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 308958 | 310451 | ssaC | 0/0 | 100 | 99 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 307766 | 308977 | ssaD | 0/0 | 100 | 99 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 307516 | 307758 | ssaE | 0/0 | 100 | 100 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 301102 | 301317 | ssaG | 0/0 | 100 | 100 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 300834 | 301061 | ssaH | 0/0 | 100 | 100 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 300574 | 300822 | ssaI | 0/0 | 100 | 100 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 299828 | 300577 | ssaJ | 0/0 | 100 | 99 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 298591 | 299265 | ssaK | 0/0 | 100 | 100 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 297609 | 298625 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 297183 | 297551 | ssaM | 0/0 | 100 | 100 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 293862 | 295163 | ssaN | 0/0 | 100 | 99 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 293482 | 293859 | ssaO | 0/0 | 100 | 100 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 293127 | 293501 | ssaP | 0/0 | 100 | 100 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 292178 | 293146 | ssaQ | 0/0 | 100 | 98 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 291463 | 292110 | ssaR | 0/0 | 100 | 99 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 291200 | 291466 | ssaS | 0/0 | 100 | 100 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 290420 | 291199 | ssaT | 0/0 | 100 | 99 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 289365 | 290423 | ssaU | 0/0 | 100 | 99 | NP_460387 | (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 295153 | 297198 | ssaV | 0/0 | 100 | 100 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 305860 | 306333 | sscA | 0/0 | 100 | 99 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 302895 | 303329 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 306927 | 307253 | sseA | 0/0 | 100 | 100 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 306330 | 306920 | sseB | 0/0 | 100 | 100 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 304403 | 305857 | sseC | 0/0 | 100 | 98 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 303800 | 304387 | sseD | 0/0 | 100 | 97 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 303381 | 303797 | sseE | 0/0 | 100 | 99 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 302097 | 302879 | sseF | 0/0 | 100 | 99 | NP_460369 | (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 301411 | 302100 | sseG | 0/0 | 100 | 99 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 68867 | 70093 | sseJ | 0/0 | 100 | 99 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_163065 cov_16.743160 | 105636 | 106682 | sseK2 | 0/0 | 100 | 100 | NP_461081 | (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_360607 cov_17.370284 | 344329 | 345282 | sseL | 0/0 | 100 | 98 | NP_461229 | (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_163065 cov_16.743160 | 4544 | 6910 | sspH2 | 0/0 | 100 | 100 | NP_461184 | (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 121244 | 121863 | steA | 2/15 | 98 | 96 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_558193 cov_14.693909 | 71364 | 71765 | steB | 0/0 | 100 | 100 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_31 length_12556 cov_10.552096 | 6287 | 7208 | tcpC | 2/2 | 100 | 96 | NP_754290 | (tcpC) Tir domain containing protein TcpC [TcpC (VF0413)] [Escherichia coli CFT073] |
MS0503
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_6 length_226261 cov_17.488356 | 150167 | 151075 | avrA | 0/0 | 100 | 100 | NP_461786 | (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 245541 | 245996 | csgA | 0/0 | 100 | 99 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 246038 | 246493 | csgB | 0/0 | 100 | 100 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 245153 | 245479 | csgC | 0/0 | 100 | 100 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 247248 | 247898 | csgD | 0/0 | 100 | 100 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 247903 | 248298 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 248325 | 248741 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 248768 | 249601 | csgG | 0/0 | 100 | 100 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_326616 cov_17.860023 | 114326 | 115018 | fimC | 0/0 | 100 | 98 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_326616 cov_17.860023 | 115049 | 117661 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_326616 cov_17.860023 | 118693 | 119211 | fimF | 0/0 | 100 | 99 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_326616 cov_17.860023 | 117676 | 118683 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_326616 cov_17.860023 | 113749 | 114282 | fimI | 0/0 | 100 | 98 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 178668 | 180725 | invA | 0/0 | 100 | 99 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 178237 | 178644 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 176945 | 178240 | invC | 0/0 | 100 | 99 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 180750 | 181868 | invE | 0/0 | 100 | 99 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 183550 | 184200 | invF | 0/0 | 100 | 99 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 181865 | 183553 | invG | 0/0 | 100 | 99 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 184658 | 185101 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 176524 | 176967 | invI | 0/0 | 100 | 100 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 175514 | 176524 | invJ | 0/0 | 100 | 99 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_19 length_101386 cov_21.265537 | 48470 | 51196 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_19 length_101386 cov_21.265537 | 47555 | 48250 | mgtC | 0/0 | 100 | 99 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 70000 | 70896 | mig-14 | 0/0 | 100 | 98 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_19 length_101386 cov_21.265537 | 55110 | 57977 | misL | 0/0 | 100 | 99 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 154694 | 155293 | orgA | 0/0 | 100 | 100 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 154057 | 154737 | orgB | 0/0 | 100 | 100 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 153608 | 154060 | orgC | 0/0 | 100 | 99 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 299753 | 300628 | pipB | 0/0 | 100 | 99 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 67206 | 68258 | pipB2 | 0/0 | 100 | 98 | NP_461706 | (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 156611 | 157789 | prgH | 0/0 | 100 | 100 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 156344 | 156586 | prgI | 0/0 | 100 | 100 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 156020 | 156325 | prgJ | 0/0 | 100 | 100 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 155265 | 156023 | prgK | 0/0 | 100 | 100 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_301022 cov_16.408225 | 107423 | 113551 | shdA | 5/13 | 100 | 94 | NP_461448 | (shdA) AIDA autotransporter-like protein [ShdA (VF0398)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 171166 | 171663 | sicA | 0/0 | 100 | 99 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 163957 | 164349 | sicP | 0/0 | 100 | 100 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 166775 | 167785 | sifA | 0/0 | 100 | 100 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 190025 | 190975 | sifB | 0/0 | 100 | 97 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_4 length_301022 cov_16.408225 | 97419 | 99611 | sinH | 0/0 | 100 | 98 | NP_461452 | (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 164947 | 167004 | sipA/sspA | 0/0 | 100 | 100 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 169382 | 171163 | sipB/sspB | 0/0 | 100 | 99 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 168125 | 169354 | sipC/sspC | 0/0 | 100 | 100 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 167023 | 168054 | sipD | 0/0 | 100 | 100 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_10 length_169408 cov_14.571736 | 119584 | 121851 | slrP | 2/30 | 99 | 97 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_26 length_46382 cov_14.923230 | 26073 | 28421 | sopA | 0/0 | 100 | 99 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 297162 | 298847 | sopB/sigD | 0/0 | 100 | 100 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_16 length_122553 cov_18.320880 | 121272 | 122225 | sopD | 0/0 | 100 | 99 | NP_461866 | (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_408239 cov_14.118818 | 376279 | 377238 | sopD2 | 0/0 | 100 | 100 | NP_459947 | (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_8 length_196298 cov_14.571940 | 126303 | 127025 | sopE2 | 0/0 | 100 | 100 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 174603 | 175514 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 173939 | 174613 | spaP | 0/0 | 100 | 99 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 173653 | 173913 | spaQ | 0/0 | 100 | 100 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 172858 | 173649 | spaR | 0/0 | 100 | 100 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 171801 | 172871 | spaS | 0/0 | 100 | 100 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 402408 | 402807 | spiC/ssaB | 0/0 | 100 | 100 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_6 length_226261 cov_17.488356 | 162339 | 163970 | sptP | 0/0 | 100 | 100 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 400913 | 402406 | ssaC | 0/0 | 100 | 99 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 399721 | 400932 | ssaD | 0/0 | 100 | 99 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 399471 | 399713 | ssaE | 0/0 | 100 | 100 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 393057 | 393272 | ssaG | 0/0 | 100 | 100 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 392789 | 393016 | ssaH | 0/0 | 100 | 100 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 392529 | 392777 | ssaI | 0/0 | 100 | 100 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 391783 | 392532 | ssaJ | 0/0 | 100 | 99 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 390546 | 391220 | ssaK | 0/0 | 100 | 100 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 389564 | 390580 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 389138 | 389506 | ssaM | 0/0 | 100 | 100 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 385817 | 387118 | ssaN | 0/0 | 100 | 99 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 385437 | 385814 | ssaO | 0/0 | 100 | 100 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 385082 | 385456 | ssaP | 0/0 | 100 | 100 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 384133 | 385101 | ssaQ | 0/0 | 100 | 98 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 383418 | 384065 | ssaR | 0/0 | 100 | 99 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 383155 | 383421 | ssaS | 0/0 | 100 | 100 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 382375 | 383154 | ssaT | 0/0 | 100 | 99 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 381320 | 382378 | ssaU | 0/0 | 100 | 99 | NP_460387 | (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 387108 | 389153 | ssaV | 0/0 | 100 | 100 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 397815 | 398288 | sscA | 0/0 | 100 | 99 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 394850 | 395284 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 398882 | 399208 | sseA | 0/0 | 100 | 100 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 398285 | 398875 | sseB | 0/0 | 100 | 100 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 396358 | 397812 | sseC | 0/0 | 100 | 98 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 395755 | 396342 | sseD | 0/0 | 100 | 97 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 395336 | 395752 | sseE | 0/0 | 100 | 99 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 394052 | 394834 | sseF | 0/0 | 100 | 99 | NP_460369 | (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 393366 | 394055 | sseG | 0/0 | 100 | 99 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 160636 | 161862 | sseJ | 0/0 | 100 | 99 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_163278 cov_15.519641 | 105636 | 106682 | sseK2 | 0/0 | 100 | 100 | NP_461081 | (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_21 length_85728 cov_15.998061 | 43211 | 44164 | sseL | 0/0 | 100 | 98 | NP_461229 | (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_163278 cov_15.519641 | 4544 | 6910 | sspH2 | 0/0 | 100 | 100 | NP_461184 | (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 213013 | 213632 | steA | 2/15 | 98 | 96 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 163133 | 163534 | steB | 0/0 | 100 | 100 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_2 length_403085 cov_13.500407 | 91596 | 92969 | steC | 0/0 | 100 | 99 | NP_460656 | (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_37 length_4319 cov_8.693225 | 849 | 1770 | tcpC | 2/2 | 100 | 96 | NP_754290 | (tcpC) Tir domain containing protein TcpC [TcpC (VF0413)] [Escherichia coli CFT073] |
MS0504
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_18 length_67170 cov_16.687171 | 2423 | 3330 | avrA | 1/1 | 100 | 100 | NP_461786 | (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 93875 | 94330 | csgA | 0/0 | 100 | 100 | NP_460115 | (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 93378 | 93833 | csgB | 0/0 | 100 | 100 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 94392 | 94718 | csgC | 0/0 | 100 | 100 | NP_460116 | (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 91973 | 92623 | csgD | 0/0 | 100 | 100 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 91573 | 91968 | csgE | 0/0 | 100 | 100 | NP_460112 | (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 91130 | 91546 | csgF | 0/0 | 100 | 100 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 90270 | 91103 | csgG | 0/0 | 100 | 100 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_86138 cov_15.042436 | 9357 | 10049 | fimC | 0/0 | 100 | 99 | NP_459540 | (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_86138 cov_15.042436 | 6714 | 9326 | fimD | 0/0 | 100 | 99 | NP_459541 | (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_86138 cov_15.042436 | 5164 | 5682 | fimF | 0/0 | 100 | 99 | NP_459543 | (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_86138 cov_15.042436 | 5692 | 6699 | fimH | 0/0 | 100 | 98 | NP_459542 | (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_12 length_86138 cov_15.042436 | 10093 | 10626 | fimI | 0/0 | 100 | 99 | NP_459539 | (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 5501 | 7558 | invA | 0/0 | 100 | 99 | NP_461817 | (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 7582 | 7989 | invB | 0/0 | 100 | 99 | NP_461816 | (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 7986 | 9281 | invC | 0/0 | 100 | 99 | NP_461815 | (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 4358 | 5476 | invE | 0/0 | 100 | 100 | NP_461818 | (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 2026 | 2676 | invF | 0/0 | 100 | 100 | NP_461820 | (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 2673 | 4361 | invG | 0/0 | 100 | 99 | NP_461819 | (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 1127 | 1570 | invH | 0/0 | 100 | 99 | NP_461821 | (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 9259 | 9702 | invI | 0/0 | 100 | 100 | NP_461814 | (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 9702 | 10712 | invJ | 0/0 | 100 | 100 | NP_461813 | (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_106 length_11850 cov_21.737269 | 11207 | 11743 | lpfA | 0/0 | 100 | 100 | NP_462541 | (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_106 length_11850 cov_21.737269 | 10424 | 11122 | lpfB | 0/0 | 100 | 100 | NP_462540 | (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_106 length_11850 cov_21.737269 | 7873 | 10401 | lpfC | 0/0 | 100 | 100 | NP_462539 | (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_106 length_11850 cov_21.737269 | 6776 | 7855 | lpfD | 0/0 | 100 | 100 | NP_462538 | (lpfD) long polar fimbrial protein LpfD [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_106 length_11850 cov_21.737269 | 6243 | 6770 | lpfE | 0/0 | 100 | 100 | NP_462537 | (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_94112 cov_18.454094 | 49389 | 52115 | mgtB | 0/0 | 100 | 99 | NP_462662 | (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_94112 cov_18.454094 | 48474 | 49169 | mgtC | 0/0 | 100 | 99 | NP_462663 | (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_85 length_19144 cov_15.209917 | 15409 | 16305 | mig-14 | 0/0 | 100 | 99 | NP_461708 | (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_9 length_94112 cov_18.454094 | 56030 | 58897 | misL | 0/0 | 100 | 99 | NP_462656 | (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_121 length_6242 cov_14.166476 | 4446 | 5045 | orgA | 0/0 | 100 | 100 | NP_461791 | (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_121 length_6242 cov_14.166476 | 5002 | 5682 | orgB | 0/0 | 100 | 100 | NP_461790 | (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_121 length_6242 cov_14.166476 | 5679 | 6131 | orgC | 0/0 | 100 | 100 | NP_461789 | (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 39244 | 40119 | pipB | 0/0 | 100 | 100 | NP_460061 | (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_85 length_19144 cov_15.209917 | 18046 | 19098 | pipB2 | 0/0 | 100 | 98 | NP_461706 | (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_121 length_6242 cov_14.166476 | 1950 | 3128 | prgH | 0/0 | 100 | 99 | NP_461795 | (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_121 length_6242 cov_14.166476 | 3153 | 3395 | prgI | 0/0 | 100 | 100 | NP_461794 | (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_121 length_6242 cov_14.166476 | 3414 | 3719 | prgJ | 0/0 | 100 | 100 | NP_461793 | (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_121 length_6242 cov_14.166476 | 3716 | 4474 | prgK | 0/0 | 100 | 100 | NP_461792 | (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_96 length_16729 cov_16.041079 | 232 | 7539 | ratB | 2/6 | 100 | 99 | NP_461449 | (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 14563 | 15060 | sicA | 0/0 | 100 | 100 | NP_461807 | (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 21877 | 22269 | sicP | 0/0 | 100 | 99 | NP_461800 | (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 172083 | 173093 | sifA | 0/0 | 100 | 100 | NP_460194 | (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_95 length_16950 cov_11.997801 | 73 | 1023 | sifB | 0/0 | 100 | 99 | NP_460561 | (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_96 length_16729 cov_16.041079 | 14442 | 16634 | sinH | 0/0 | 100 | 99 | NP_461452 | (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 19222 | 21279 | sipA/sspA | 0/0 | 100 | 100 | NP_461803 | (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 15063 | 16844 | sipB/sspB | 0/0 | 100 | 99 | NP_461806 | (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 16872 | 18101 | sipC/sspC | 0/0 | 100 | 100 | NP_461805 | (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 18172 | 19203 | sipD | 0/0 | 100 | 100 | NP_461804 | (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_11 length_88493 cov_13.468857 | 28859 | 31126 | slrP | 2/30 | 99 | 97 | NP_459778 | (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_33 length_45637 cov_15.527071 | 18406 | 20754 | sopA | 0/0 | 100 | 99 | NP_461011 | (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_1 length_206250 cov_13.468599 | 41025 | 42710 | sopB/sigD | 0/0 | 100 | 100 | NP_460064 | (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_58 length_28598 cov_11.907731 | 12286 | 13008 | sopE2 | 0/0 | 100 | 100 | NP_460811 | (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 10712 | 11623 | spaO | 0/0 | 100 | 99 | NP_461812 | (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 11613 | 12287 | spaP | 0/0 | 100 | 100 | NP_461811 | (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 12313 | 12573 | spaQ | 0/0 | 100 | 100 | NP_461810 | (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 12577 | 13368 | spaR | 0/0 | 100 | 99 | NP_461809 | (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 13355 | 14425 | spaS | 0/0 | 100 | 100 | NP_461808 | (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 116 | 517 | spiC/ssaB | 0/0 | 100 | 100 | NP_460358 | (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_67 length_26468 cov_15.530352 | 22256 | 23887 | sptP | 0/0 | 100 | 100 | NP_461799 | (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 519 | 2012 | ssaC | 0/0 | 100 | 99 | NP_460359 | (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 1993 | 3204 | ssaD | 0/0 | 100 | 99 | NP_460360 | (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 3212 | 3454 | ssaE | 0/0 | 100 | 100 | NP_460361 | (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 9653 | 9868 | ssaG | 0/0 | 100 | 100 | NP_460371 | (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 9909 | 10136 | ssaH | 0/0 | 100 | 100 | NP_460372 | (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 10148 | 10396 | ssaI | 0/0 | 100 | 100 | NP_460373 | (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 10393 | 11142 | ssaJ | 0/0 | 100 | 99 | NP_460374 | (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 11705 | 12379 | ssaK | 0/0 | 100 | 100 | NP_460376 | (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 12345 | 13361 | ssaL | 0/0 | 100 | 99 | NP_460377 | (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 13419 | 13787 | ssaM | 0/0 | 100 | 100 | NP_460378 | (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 15807 | 17108 | ssaN | 0/0 | 100 | 99 | NP_460380 | (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 17111 | 17488 | ssaO | 0/0 | 100 | 100 | NP_460381 | (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 17469 | 17843 | ssaP | 0/0 | 100 | 99 | NP_460382 | (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 17824 | 18792 | ssaQ | 0/0 | 100 | 98 | NP_460383 | (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 18860 | 19507 | ssaR | 0/0 | 100 | 99 | NP_460384 | (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 19504 | 19770 | ssaS | 0/0 | 100 | 100 | NP_460385 | (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 19771 | 20550 | ssaT | 0/0 | 100 | 98 | NP_460386 | (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 20547 | 21605 | ssaU | 0/0 | 100 | 99 | NP_460387 | (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 13772 | 15817 | ssaV | 0/0 | 100 | 100 | NP_460379 | (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 4637 | 5110 | sscA | 0/0 | 100 | 99 | NP_460364 | (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 7641 | 8075 | sscB | 0/0 | 100 | 100 | NP_460368 | (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 3717 | 4043 | sseA | 0/0 | 100 | 100 | NP_460362 | (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 4050 | 4640 | sseB | 0/0 | 100 | 100 | NP_460363 | (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 5113 | 6567 | sseC | 0/0 | 100 | 99 | NP_460365 | (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 6583 | 7170 | sseD | 0/0 | 100 | 100 | NP_460366 | (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 7173 | 7589 | sseE | 0/0 | 100 | 100 | NP_460367 | (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 8091 | 8873 | sseF | 0/0 | 100 | 99 | NP_460369 | (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_3 length_135045 cov_13.524978 | 8870 | 9559 | sseG | 0/0 | 100 | 100 | NP_460370 | (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_113 length_7838 cov_10.237712 | 444 | 1670 | sseJ | 0/0 | 100 | 99 | NP_460590 | (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_14 length_77860 cov_15.308801 | 28374 | 29420 | sseK2 | 0/0 | 100 | 100 | NP_461081 | (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_22 length_59219 cov_14.761084 | 15331 | 16284 | sseL | 0/0 | 100 | 98 | NP_461229 | (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_102 length_13335 cov_10.864249 | 7739 | 9850 | sspH1 | 1/9 | 100 | 98 | AAD40326 | (sspH1) type III secretion system effector SspH1 E3 ubiquitin ligase [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028s] |
| NODE_63 length_26799 cov_14.350780 | 21483 | 23849 | sspH2 | 0/0 | 100 | 100 | NP_461184 | (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_79 length_21202 cov_12.277817 | 6157 | 6789 | steA | 0/0 | 100 | 98 | NP_460542 | (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| NODE_62 length_27019 cov_12.734828 | 26366 | 26767 | steB | 0/0 | 100 | 100 | AAL20547 | (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
Plasmids
The search of plasmid replicons was performed by screening of the genome against PlasmidFinder database (A. Carattoli et al., 2014) by using Abricate. Any hit with coverage and/or identity below 90% was removed. If you would like to inspect hits with coverage and/or identity below 90%, please go to the corresponing TORMES output directory.
| Field | Description |
|---|---|
| Contig | Contig name where the plasmid replicon was found |
| Start | Start position of the plasmid replicon within the contig |
| End | End position of the plasmid replicon within the contig |
| Gene | Plasmid replicon |
| Gaps | Gaps in subject (genome) and query (plasmid replicon) |
| Coverage | Proportion (%) of the plasmid replicon covered |
| Identity | Proportion (%) of exact nucleotide matches |
| Accession | Accesion number of the plasmid replicon |
| Product | Plasmid replicon product |
Select the sample
MS0495
## [1] "No plasmid replicon genes from Plasmidfinder database were found"MS0496
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_63_length_2826_cov_2003.191182 | 1907 | 2020 | Col440I_1 | 0/0 | 100 | 91 | CP023920.1 | Col440I_1__CP023920.1 |
MS0497
## [1] "No plasmid replicon genes from Plasmidfinder database were found"MS0498
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_93_length_2826_cov_1537.663950 | 2239 | 2352 | Col440I_1 | 0/0 | 100 | 91 | CP023920.1 | Col440I_1__CP023920.1 |
MS0499
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| NODE_70_length_2826_cov_1536.375324 | 2239 | 2352 | Col440I_1 | 0/0 | 100 | 91 | CP023920.1 | Col440I_1__CP023920.1 |
MS0500
## [1] "No plasmid replicon genes from Plasmidfinder database were found"MS0501
## [1] "No plasmid replicon genes from Plasmidfinder database were found"MS0502
## [1] "No plasmid replicon genes from Plasmidfinder database were found"MS0503
## [1] "No plasmid replicon genes from Plasmidfinder database were found"MS0504
## [1] "No plasmid replicon genes from Plasmidfinder database were found"Citation
If using TORMES, please cite it as:
Narciso Martin Quijada, David Rodriguez-Lazaro, Jose Maria Eiros, Marta Hernandez (2019). TORMES: an automated pipeline for whole bacterial genome analysis. Bioinformatics, 35(21), 4207–4212, https://doi.org/10.1093/bioinformatics/btz220.
TORMES is a pipeline that relies in many different software and databases that should be cited when using TORMES. The following software and databases were used for this analysis:
- GNU Parallel, O. Tange, 2018
- Prinseq, R. Schmieder and R. Edwards, 2011
- SPAdes, A. Bankevich et al., 2012
- QUAST, A. Gurevich et al., 2013
- Barrnap, T. Seemann
- Kraken2, Wood et al., 2019
- RDP Classifier, Q. Wang et al., 2007
- mlst, T. Seemann
- ABRicate, T. Seemann
- ResFinder database, E. Zankari et al., 2012
- CARD database, A.G. McArthur et al., 2013
- ARG-ANNOT database, S.K. Gupta et al., 2014
- VFDB database, L. Chen et al., 2005
- Prodigal, Hyatt et al., 2010
- Prokka, T. Seemann, 2014
- Roary, A.J. Page et al., 2015
- SISTR, C.E. Yoshida et al., 2016
- PlasmidFinder database, A. Carattoli et al., 2014
- PointFinder, E. Zankari et al., 2017
- R, R Development Core Team, 2008
- ggplot2, H. Wickham, 2009
- ggtree, G. Yu et al., 2016
- knitr, Y. Xie, 2015
- plotly, C. Sievert et al., 2017
- RColorBrewer, E. Neuwirth and R.C. Brewer, 2014
- reshape2, H. Wickham, 2007
- rmarkdown, J.J. Allaire, 2015
- treeio, L-G. Wang et al., 2019