Run ID: SRR11972331
Sample name:
Date: 03-04-2023 05:37:21
Number of reads: 940680
Percentage reads mapped: 94.81
Strain: lineage2.2.1
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 1.0 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.99 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2155168 | p.Ser315Thr | missense_variant | 0.38 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490785 | c.3G>T | synonymous_variant | 0.18 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
mshA | 576390 | p.Val348Ala | missense_variant | 0.15 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 760264 | p.Met153Thr | missense_variant | 0.1 |
rpoB | 761926 | p.Met707Thr | missense_variant | 0.15 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764058 | p.Ala230Val | missense_variant | 0.5 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpL5 | 778954 | c.-474T>A | upstream_gene_variant | 0.17 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303285 | p.Ser119Pro | missense_variant | 0.1 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472599 | n.754G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472606 | n.761C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474228 | n.571T>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474779 | n.1122G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474831 | n.1174A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.3 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1475175 | n.1518G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475182 | n.1525T>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476427 | n.2770G>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.27 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.17 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.17 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.18 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.13 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
rpsA | 1834333 | c.792C>T | synonymous_variant | 0.18 |
tlyA | 1917796 | c.-144C>T | upstream_gene_variant | 0.6 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154396 | c.1716G>A | synonymous_variant | 0.12 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155457 | p.Pro219Thr | missense_variant | 0.14 |
PPE35 | 2167745 | p.Thr956Arg | missense_variant | 0.3 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.22 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.22 |
PPE35 | 2170189 | p.Glu142Gln | missense_variant | 0.12 |
PPE35 | 2170196 | c.417A>C | synonymous_variant | 0.11 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518864 | c.750G>C | synonymous_variant | 0.27 |
folC | 2747437 | p.Met54Ile | missense_variant | 0.71 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087446 | c.627C>A | synonymous_variant | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474143 | p.Trp46Tyr | missense_variant | 0.33 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.26 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |
gid | 4407934 | p.Leu90Arg | missense_variant | 0.45 |