Run ID: SRR13861163
Sample name:
Date: 03-04-2023 09:25:05
Number of reads: 795118
Percentage reads mapped: 26.53
Strain: lineage4.9
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | T1 | None | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5258 | p.Lys7* | stop_gained | 1.0 |
gyrB | 7122 | c.1883_1884insA | frameshift_variant | 0.96 |
gyrA | 9345 | c.2044A>C | synonymous_variant | 0.15 |
gyrA | 9374 | c.2073G>C | synonymous_variant | 0.15 |
gyrA | 9383 | c.2082T>C | synonymous_variant | 0.17 |
gyrA | 9386 | c.2085T>C | synonymous_variant | 0.17 |
gyrA | 9395 | c.2094G>C | synonymous_variant | 0.18 |
gyrA | 9413 | c.2112G>C | synonymous_variant | 0.24 |
gyrA | 9419 | c.2118T>C | synonymous_variant | 0.15 |
gyrA | 9420 | p.Ile707Ala | missense_variant | 0.15 |
gyrA | 9429 | p.Arg710Tyr | missense_variant | 0.15 |
gyrA | 9443 | c.2142G>C | synonymous_variant | 0.17 |
gyrA | 9449 | c.2148C>G | synonymous_variant | 0.16 |
gyrA | 9452 | c.2151G>C | synonymous_variant | 0.15 |
gyrA | 9455 | c.2154T>C | synonymous_variant | 0.15 |
gyrA | 9458 | c.2157A>G | synonymous_variant | 0.14 |
gyrA | 9467 | c.2166T>C | synonymous_variant | 0.16 |
rpoB | 761791 | p.Arg662His | missense_variant | 0.12 |
rpoB | 761864 | c.2058G>C | synonymous_variant | 0.14 |
rpoB | 761873 | c.2067A>G | synonymous_variant | 0.16 |
rpoB | 761885 | c.2079T>C | synonymous_variant | 0.17 |
rpoB | 761891 | c.2085G>C | synonymous_variant | 0.16 |
rpoB | 761906 | c.2100C>G | synonymous_variant | 0.16 |
rpoB | 761909 | c.2103T>C | synonymous_variant | 0.15 |
rpoB | 761912 | c.2106T>C | synonymous_variant | 0.15 |
rpoB | 761915 | p.Asp703Glu | missense_variant | 0.15 |
rpoB | 761916 | p.Asp704Asn | missense_variant | 0.15 |
rpoC | 762443 | c.-927G>C | upstream_gene_variant | 0.12 |
rpoC | 762995 | c.-375G>T | upstream_gene_variant | 0.12 |
rpoC | 763702 | c.333C>G | synonymous_variant | 0.14 |
rpoC | 763708 | c.339G>A | synonymous_variant | 0.14 |
rpoC | 763709 | c.340C>T | synonymous_variant | 0.14 |
rpoC | 763714 | c.345G>C | synonymous_variant | 0.14 |
rpoC | 763801 | c.432C>G | synonymous_variant | 0.15 |
rpoC | 763807 | c.438T>C | synonymous_variant | 0.19 |
rpoC | 763819 | c.450G>C | synonymous_variant | 0.19 |
rpoC | 763831 | c.462A>G | synonymous_variant | 0.14 |
rpoC | 763933 | c.564C>T | synonymous_variant | 0.15 |
rpoC | 763945 | c.576T>C | synonymous_variant | 0.15 |
rpoC | 763967 | p.Gly200Ser | missense_variant | 0.15 |
rpoC | 763978 | c.609C>G | synonymous_variant | 0.16 |
rpoC | 763996 | c.627T>C | synonymous_variant | 0.16 |
rpoC | 764011 | c.642T>C | synonymous_variant | 0.14 |
rpoC | 764024 | c.655T>C | synonymous_variant | 0.14 |
rpoC | 764040 | p.Ser224Asn | missense_variant | 0.16 |
rpoC | 764044 | c.675T>C | synonymous_variant | 0.16 |
rpoC | 764872 | c.1503A>G | synonymous_variant | 0.14 |
rpoC | 765349 | c.1980T>C | synonymous_variant | 0.15 |
rpoC | 765352 | c.1983G>C | synonymous_variant | 0.14 |
rpoC | 766381 | c.3012C>T | synonymous_variant | 0.12 |
rpoC | 766384 | c.3015A>G | synonymous_variant | 0.12 |
rpoC | 766390 | c.3021C>T | synonymous_variant | 0.12 |
rpoC | 766426 | c.3057C>T | synonymous_variant | 0.13 |
rpoC | 766447 | c.3078T>C | synonymous_variant | 0.17 |
rpoC | 766945 | c.3576A>G | synonymous_variant | 0.12 |
rpoC | 767035 | c.3666G>T | synonymous_variant | 0.13 |
rpoC | 767062 | c.3693C>A | synonymous_variant | 0.12 |
rpoC | 767119 | c.3750A>G | synonymous_variant | 0.13 |
rpoC | 767134 | c.3765C>G | synonymous_variant | 0.13 |
rpoC | 767167 | c.3798C>G | synonymous_variant | 0.12 |
mmpL5 | 776374 | p.Arg703Cys | missense_variant | 1.0 |
mmpR5 | 779126 | p.Cys46Phe | missense_variant | 1.0 |
rpsL | 781760 | c.201T>C | synonymous_variant | 0.12 |
rplC | 801447 | p.Lys213Asn | missense_variant | 1.0 |
fbiC | 1303004 | p.Ala25Glu | missense_variant | 1.0 |
fbiC | 1303171 | p.Arg81Trp | missense_variant | 1.0 |
fbiC | 1303517 | p.Met196Thr | missense_variant | 0.96 |
rrs | 1472061 | n.216A>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472936 | n.1091C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472963 | n.1118G>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472971 | n.1126G>C | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473002 | n.1157G>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473044 | n.1199C>G | non_coding_transcript_exon_variant | 0.26 |
rrs | 1473051 | n.1206T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1473898 | n.241C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1473899 | n.242A>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475355 | n.1698C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475369 | n.1712G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475419 | n.1762C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475483 | n.1826C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475505 | n.1848G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475599 | n.1942A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475608 | n.1951T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475638 | n.1981C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475642 | n.1985T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475657 | n.2000A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475659 | n.2002G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476086 | n.2429G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476089 | n.2432T>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476095 | n.2438C>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476115 | n.2458T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476117 | n.2460G>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.56 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.66 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.15 |
inhA | 1674507 | c.306G>C | synonymous_variant | 0.15 |
inhA | 1674537 | c.336C>G | synonymous_variant | 0.19 |
inhA | 1674542 | p.Ala114Glu | missense_variant | 0.16 |
inhA | 1674549 | c.348G>C | synonymous_variant | 0.18 |
inhA | 1674555 | c.354G>A | synonymous_variant | 0.21 |
inhA | 1674561 | c.360C>T | synonymous_variant | 0.21 |
inhA | 1674564 | c.363C>T | synonymous_variant | 0.21 |
inhA | 1674582 | c.381T>C | synonymous_variant | 0.19 |
inhA | 1674585 | c.384T>C | synonymous_variant | 0.18 |
inhA | 1674589 | p.Met130Leu | missense_variant | 0.18 |
inhA | 1674624 | c.423A>C | synonymous_variant | 0.13 |
inhA | 1674627 | c.426T>G | synonymous_variant | 0.13 |
inhA | 1674630 | c.429C>G | synonymous_variant | 0.13 |
inhA | 1674654 | c.453G>C | synonymous_variant | 0.12 |
rpsA | 1834366 | c.825A>G | synonymous_variant | 0.15 |
rpsA | 1834375 | c.834G>A | synonymous_variant | 0.15 |
rpsA | 1834465 | c.924T>C | synonymous_variant | 0.14 |
rpsA | 1834468 | c.927A>G | synonymous_variant | 0.14 |
rpsA | 1834489 | c.948T>C | synonymous_variant | 0.17 |
rpsA | 1834498 | c.957C>T | synonymous_variant | 0.16 |
rpsA | 1834528 | c.987T>C | synonymous_variant | 0.15 |
rpsA | 1834546 | c.1005T>C | synonymous_variant | 0.14 |
rpsA | 1834555 | c.1014T>C | synonymous_variant | 0.15 |
rpsA | 1834558 | c.1017C>G | synonymous_variant | 0.14 |
rpsA | 1834606 | c.1065C>G | synonymous_variant | 0.17 |
rpsA | 1834609 | c.1068T>C | synonymous_variant | 0.17 |
rpsA | 1834622 | c.1081_1083delTCGinsAGC | synonymous_variant | 0.17 |
rpsA | 1834633 | c.1092A>G | synonymous_variant | 0.17 |
rpsA | 1834639 | c.1098T>C | synonymous_variant | 0.16 |
rpsA | 1834640 | p.Glu367* | stop_gained | 0.84 |
rpsA | 1834688 | c.1147_1148delAGinsTC | synonymous_variant | 0.13 |
rpsA | 1834732 | c.1191T>C | synonymous_variant | 0.16 |
rpsA | 1834733 | p.Ala398Pro | missense_variant | 0.16 |
ndh | 2103004 | c.39T>G | synonymous_variant | 1.0 |
katG | 2155741 | p.Gly124Asp | missense_variant | 0.12 |
PPE35 | 2170453 | p.Gly54Ser | missense_variant | 1.0 |
Rv1979c | 2223326 | c.-162C>T | upstream_gene_variant | 1.0 |
pncA | 2288748 | p.Ala165Asp | missense_variant | 1.0 |
kasA | 2517947 | c.-168C>T | upstream_gene_variant | 0.18 |
kasA | 2517974 | c.-141T>C | upstream_gene_variant | 0.15 |
kasA | 2517989 | c.-126T>C | upstream_gene_variant | 0.13 |
kasA | 2517992 | c.-123C>G | upstream_gene_variant | 0.13 |
kasA | 2517998 | c.-117C>T | upstream_gene_variant | 0.16 |
kasA | 2518474 | p.Glu120Asp | missense_variant | 0.92 |
thyX | 3067529 | c.417C>G | synonymous_variant | 0.95 |
thyX | 3067661 | c.285C>G | synonymous_variant | 0.12 |
thyX | 3067682 | c.264G>C | synonymous_variant | 0.18 |
thyX | 3067685 | c.261A>G | synonymous_variant | 0.14 |
thyX | 3067688 | c.258G>C | synonymous_variant | 0.14 |
thyX | 3067694 | c.252G>C | synonymous_variant | 0.14 |
thyA | 3073764 | c.708T>C | synonymous_variant | 1.0 |
thyA | 3073862 | p.Gly204Ser | missense_variant | 1.0 |
thyA | 3073963 | p.Leu170Gln | missense_variant | 0.85 |
thyA | 3073977 | c.495A>G | synonymous_variant | 0.15 |
thyA | 3073989 | c.483T>C | synonymous_variant | 0.16 |
thyA | 3074001 | c.471C>G | synonymous_variant | 0.18 |
thyA | 3074004 | c.468T>C | synonymous_variant | 0.17 |
thyA | 3074010 | c.462C>G | synonymous_variant | 0.17 |
thyA | 3074076 | c.396C>G | synonymous_variant | 0.14 |
thyA | 3074106 | c.366T>C | synonymous_variant | 0.12 |
fbiD | 3339357 | c.240G>T | synonymous_variant | 1.0 |
Rv3083 | 3448352 | c.-152G>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449624 | p.Lys374Met | missense_variant | 1.0 |
Rv3083 | 3449919 | c.1416C>A | synonymous_variant | 0.95 |
fbiB | 3642227 | p.Gln231His | missense_variant | 1.0 |
fbiB | 3642581 | c.1047A>C | synonymous_variant | 1.0 |
rpoA | 3877704 | c.804G>T | synonymous_variant | 0.15 |
rpoA | 3877743 | c.765T>C | synonymous_variant | 0.15 |
rpoA | 3878304 | c.204G>C | synonymous_variant | 0.14 |
rpoA | 3878313 | c.195G>C | synonymous_variant | 0.14 |
rpoA | 3878322 | c.186A>G | synonymous_variant | 0.16 |
clpC1 | 4039831 | c.874T>C | synonymous_variant | 0.14 |
clpC1 | 4039832 | c.873C>G | synonymous_variant | 0.14 |
clpC1 | 4039850 | c.855T>C | synonymous_variant | 0.14 |
clpC1 | 4039946 | c.759A>T | synonymous_variant | 0.15 |
clpC1 | 4039952 | c.753T>C | synonymous_variant | 0.13 |
clpC1 | 4039958 | c.747G>C | synonymous_variant | 0.13 |
clpC1 | 4039996 | p.Glu237Gln | missense_variant | 0.14 |
embA | 4244641 | p.Val470Gly | missense_variant | 1.0 |
embA | 4245197 | c.1965C>T | synonymous_variant | 0.96 |
embB | 4246641 | p.Ala43Glu | missense_variant | 1.0 |
embB | 4247233 | p.Asp240Glu | missense_variant | 1.0 |
ethA | 4327035 | p.Tyr147Asp | missense_variant | 1.0 |
ethR | 4327923 | p.Gln125His | missense_variant | 1.0 |