Run ID: SRR13861618
Sample name:
Date: 03-04-2023 09:36:23
Number of reads: 163905
Percentage reads mapped: 3.28
Strain: lineage4.9
Drug-resistance: RR-TB
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 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761131 | p.Gly442Glu | missense_variant | 0.78 | rifampicin |
ethA | 4327340 | p.Trp45* | stop_gained | 1.0 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 8646 | p.Gln449Lys | missense_variant | 1.0 |
gyrA | 9138 | p.Gln613Lys | missense_variant | 1.0 |
gyrA | 9604 | p.Val768Ala | missense_variant | 1.0 |
ccsA | 620748 | c.858T>G | synonymous_variant | 1.0 |
rpoB | 761126 | c.1320G>T | synonymous_variant | 0.78 |
rpoB | 761129 | c.1323G>C | synonymous_variant | 0.78 |
rpoB | 761133 | p.Leu443Ile | missense_variant | 0.78 |
rpoB | 761150 | c.1344A>C | synonymous_variant | 0.78 |
rpoB | 761151 | p.Leu449Val | missense_variant | 0.78 |
rpoB | 761156 | c.1350G>C | synonymous_variant | 0.78 |
rpoB | 761162 | c.1356G>C | synonymous_variant | 0.78 |
rpoB | 761165 | c.1359G>C | synonymous_variant | 0.7 |
rpoB | 761168 | c.1362C>G | synonymous_variant | 0.7 |
rpoB | 761178 | p.Ser458Thr | missense_variant | 0.7 |
rpoB | 761192 | c.1386C>G | synonymous_variant | 0.56 |
rpoB | 761195 | c.1389G>C | synonymous_variant | 0.64 |
rpoB | 761196 | p.Leu464Phe | missense_variant | 0.64 |
rpoB | 761204 | c.1398C>T | synonymous_variant | 0.64 |
rpoB | 761207 | c.1401C>T | synonymous_variant | 0.64 |
rpoB | 761213 | c.1407G>A | synonymous_variant | 0.64 |
rpoB | 761220 | p.Ser472Thr | missense_variant | 0.64 |
rpoB | 761234 | c.1428G>C | synonymous_variant | 0.64 |
rpoB | 761235 | p.Met477Val | missense_variant | 0.64 |
rpoB | 761853 | p.Ile683Val | missense_variant | 1.0 |
rpoB | 762878 | p.Ile1024Met | missense_variant | 0.43 |
rpoB | 762879 | p.Met1025Leu | missense_variant | 0.43 |
rpoB | 762888 | p.His1028Asn | missense_variant | 0.43 |
rpoB | 762911 | p.Ile1035Met | missense_variant | 0.43 |
rpoC | 762920 | c.-450C>T | upstream_gene_variant | 0.43 |
rpoC | 762929 | c.-441G>C | upstream_gene_variant | 0.43 |
rpoB | 762930 | p.Pro1042Ser | missense_variant | 0.43 |
rpoC | 762936 | c.-434_-432delTCGinsAGC | upstream_gene_variant | 0.5 |
rpoB | 762939 | p.Met1045Leu | missense_variant | 0.5 |
rpoB | 762942 | p.Ile1046Val | missense_variant | 0.5 |
rpoC | 762962 | c.-408C>T | upstream_gene_variant | 0.6 |
rpoC | 762971 | c.-399G>A | upstream_gene_variant | 0.6 |
rpoC | 762983 | c.-387C>T | upstream_gene_variant | 0.6 |
rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.6 |
rpoC | 762995 | c.-375G>T | upstream_gene_variant | 0.6 |
rpoC | 764387 | c.1018T>C | synonymous_variant | 0.44 |
rpoC | 764401 | c.1032C>T | synonymous_variant | 0.62 |
rpoC | 764404 | c.1035C>T | synonymous_variant | 0.62 |
rpoC | 764405 | c.1036A>C | synonymous_variant | 0.62 |
rpoC | 764419 | c.1050C>T | synonymous_variant | 0.62 |
rpoC | 764428 | c.1059G>T | synonymous_variant | 0.62 |
rpoC | 764434 | c.1065A>G | synonymous_variant | 0.67 |
rpoC | 764435 | c.1066_1068delAGGinsCGC | synonymous_variant | 0.67 |
rpoC | 764441 | p.Ile358Leu | missense_variant | 0.73 |
rpoC | 764446 | c.1077T>C | synonymous_variant | 0.73 |
rpoC | 764451 | p.Gly361Ala | missense_variant | 0.67 |
rpoC | 764455 | c.1086G>T | synonymous_variant | 0.73 |
rpoC | 764461 | p.Glu364Asp | missense_variant | 0.67 |
rpoC | 764470 | c.1101C>G | synonymous_variant | 0.73 |
rpoC | 764471 | p.Asn368Arg | missense_variant | 0.73 |
rpoC | 764479 | c.1110G>A | synonymous_variant | 0.8 |
rpoC | 764485 | c.1116G>C | synonymous_variant | 0.8 |
rpoC | 764498 | p.Ser377Ala | missense_variant | 0.8 |
rpoC | 764503 | c.1134G>C | synonymous_variant | 0.8 |
rpoC | 764509 | c.1140G>C | synonymous_variant | 0.8 |
rpoC | 764513 | p.Phe382Leu | missense_variant | 0.89 |
rpoC | 764521 | c.1152T>C | synonymous_variant | 0.8 |
rpoC | 764527 | c.1158C>T | synonymous_variant | 0.67 |
mmpL5 | 777509 | c.972G>T | synonymous_variant | 1.0 |
mmpS5 | 779508 | c.-603G>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406904 | c.436dupT | frameshift_variant | 1.0 |
Rv1258c | 1407127 | p.Arg72Ser | missense_variant | 1.0 |
rrs | 1472094 | n.249T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472108 | n.263C>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472128 | n.283G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472133 | n.288G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472135 | n.290C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472138 | n.293C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472147 | n.302G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472153 | n.308G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472155 | n.310C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472936 | n.1091C>T | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472963 | n.1118G>A | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472971 | n.1126G>C | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472973 | n.1128A>G | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.63 |
rrs | 1473002 | n.1157G>T | non_coding_transcript_exon_variant | 0.63 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.63 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.63 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.63 |
rrs | 1473044 | n.1199C>G | non_coding_transcript_exon_variant | 0.71 |
rrs | 1473051 | n.1206T>C | non_coding_transcript_exon_variant | 0.67 |
rrs | 1473053 | n.1208T>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.94 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.94 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.97 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.5 |
inhA | 1674552 | c.351C>G | synonymous_variant | 1.0 |
rpsA | 1834079 | p.Arg180Cys | missense_variant | 1.0 |
Rv1979c | 2221876 | p.Val430Glu | missense_variant | 1.0 |
kasA | 2518036 | c.-78delG | upstream_gene_variant | 1.0 |
kasA | 2518088 | c.-27T>A | upstream_gene_variant | 1.0 |
eis | 2714449 | p.Trp295Ser | missense_variant | 1.0 |
eis | 2714773 | p.Pro187Gln | missense_variant | 1.0 |
eis | 2715525 | c.-193G>T | upstream_gene_variant | 1.0 |
ahpC | 2726611 | c.419_420insA | frameshift_variant | 1.0 |
pepQ | 2859723 | c.696T>C | synonymous_variant | 1.0 |
ribD | 2987540 | c.702G>T | synonymous_variant | 1.0 |
fbiD | 3339321 | c.204G>A | synonymous_variant | 1.0 |
fprA | 3474339 | p.Met111Ile | missense_variant | 1.0 |
fprA | 3474353 | c.348delT | frameshift_variant | 1.0 |
clpC1 | 4038436 | p.Ala757Ser | missense_variant | 1.0 |
embC | 4242635 | p.Ala925Ser | missense_variant | 1.0 |
embB | 4249145 | c.2634delC | frameshift_variant | 1.0 |
ubiA | 4269803 | p.Ala11Pro | missense_variant | 1.0 |
ethA | 4326689 | p.Lys262Thr | missense_variant | 1.0 |
ethA | 4326849 | p.Pro209Thr | missense_variant | 1.0 |