Run ID: SRR11972169
Sample name:
Date: 03-04-2023 05:30:30
Number of reads: 507019
Percentage reads mapped: 98.29
Strain: lineage2.2
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 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6230 | p.Tyr331His | missense_variant | 0.12 |
gyrA | 6478 | c.-824G>A | upstream_gene_variant | 0.15 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9016 | p.Thr572Asn | missense_variant | 0.18 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491281 | p.Asp167Tyr | missense_variant | 0.2 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 760601 | c.795C>T | synonymous_variant | 0.22 |
rpoB | 760645 | p.Pro280His | missense_variant | 0.2 |
rpoB | 762275 | c.2469C>A | synonymous_variant | 0.29 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763426 | c.57C>T | synonymous_variant | 0.18 |
rpoC | 764058 | p.Ala230Val | missense_variant | 1.0 |
rpoC | 764916 | p.Leu516Pro | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775883 | p.Ile866Leu | missense_variant | 0.25 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpL5 | 777083 | p.Asn466Lys | missense_variant | 0.18 |
mmpL5 | 777406 | p.Ala359Thr | missense_variant | 0.18 |
mmpR5 | 779158 | p.Ala57Thr | missense_variant | 0.15 |
mmpL5 | 779175 | c.-695G>A | upstream_gene_variant | 0.14 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303217 | p.Arg96Gln | missense_variant | 0.14 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472193 | n.348A>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472333 | n.488G>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472344 | n.499C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472349 | n.504A>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472350 | n.505C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472373 | n.528G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472374 | n.529T>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472382 | n.537G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472389 | n.544G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472390 | n.545T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472391 | n.546C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472779 | n.934G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474737 | n.1080G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.16 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.32 |
inhA | 1674727 | c.527delC | frameshift_variant | 0.25 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102665 | c.377dupT | frameshift_variant | 0.22 |
ndh | 2103060 | c.-18C>T | upstream_gene_variant | 0.12 |
katG | 2154331 | p.Phe594Ser | missense_variant | 0.14 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155449 | c.663C>T | synonymous_variant | 0.17 |
PPE35 | 2167814 | c.2799C>T | synonymous_variant | 0.25 |
PPE35 | 2167838 | c.2775T>C | synonymous_variant | 0.22 |
PPE35 | 2167865 | c.2748G>C | synonymous_variant | 0.2 |
PPE35 | 2167868 | c.2745A>C | synonymous_variant | 0.2 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.15 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.15 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.16 |
PPE35 | 2169935 | p.Asn226Lys | missense_variant | 0.15 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.57 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.57 |
PPE35 | 2170147 | p.Ser156Ala | missense_variant | 0.17 |
PPE35 | 2170565 | p.Phe16Leu | missense_variant | 0.11 |
Rv1979c | 2221726 | p.Thr480Asn | missense_variant | 0.15 |
Rv1979c | 2222948 | p.Arg73* | stop_gained | 0.13 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2714454 | c.879C>T | synonymous_variant | 0.18 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.38 |
ahpC | 2726341 | p.Val50Gly | missense_variant | 0.57 |
ahpC | 2726350 | p.Trp53Leu | missense_variant | 0.2 |
folC | 2747437 | p.Met54Ile | missense_variant | 1.0 |
pepQ | 2860063 | p.Thr119Ile | missense_variant | 0.33 |
pepQ | 2860330 | p.Val30Ala | missense_variant | 0.15 |
pepQ | 2860516 | c.-98T>G | upstream_gene_variant | 0.13 |
Rv2752c | 3065779 | p.Val138Ala | missense_variant | 0.22 |
thyA | 3074411 | p.Arg21Cys | missense_variant | 0.2 |
thyA | 3074580 | c.-109T>C | upstream_gene_variant | 0.22 |
thyA | 3074604 | c.-133G>A | upstream_gene_variant | 0.2 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
Rv3236c | 3612976 | c.140delG | frameshift_variant | 0.2 |
Rv3236c | 3613099 | c.18G>A | synonymous_variant | 0.2 |
fbiB | 3640776 | c.-759C>T | upstream_gene_variant | 0.15 |
alr | 3841539 | c.-119C>T | upstream_gene_variant | 0.12 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.19 |
clpC1 | 4039161 | p.His515Gly | missense_variant | 0.18 |
clpC1 | 4039169 | p.Glu512Asp | missense_variant | 0.17 |
clpC1 | 4039717 | p.Lys330Glu | missense_variant | 0.2 |
clpC1 | 4039730 | c.975C>G | synonymous_variant | 0.33 |
clpC1 | 4040057 | c.648C>T | synonymous_variant | 0.33 |
clpC1 | 4040273 | c.432T>A | synonymous_variant | 0.2 |
embC | 4241958 | p.Arg699Leu | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.42 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.5 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.5 |
embB | 4247784 | p.Arg424Gln | missense_variant | 0.5 |
aftB | 4267647 | p.Asp397Gly | missense_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 |