Run ID: SRR6831778
Sample name:
Date: 04-04-2023 17:01:43
Number of reads: 633304
Percentage reads mapped: 99.56
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 | 7023 | p.Leu595Gln | missense_variant | 0.15 |
gyrB | 7095 | p.Lys619Thr | missense_variant | 0.25 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7494 | p.Arg65Gly | missense_variant | 0.18 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8036 | p.Lys245Asn | missense_variant | 0.18 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
mshA | 576264 | c.919delG | frameshift_variant | 0.14 |
ccsA | 620327 | c.438delG | frameshift_variant | 0.2 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
ccsA | 620652 | c.762C>T | synonymous_variant | 0.17 |
rpoB | 762970 | p.Ala1055Glu | missense_variant | 0.12 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764727 | p.Lys453Met | missense_variant | 0.13 |
rpoC | 766373 | p.Ser1002Pro | missense_variant | 0.29 |
rpoC | 766849 | p.Gln1160His | missense_variant | 0.17 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781694 | c.135G>A | synonymous_variant | 0.13 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1473467 | n.-191A>G | upstream_gene_variant | 0.14 |
rrl | 1473881 | n.224A>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474412 | n.755G>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476177 | n.2520G>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476433 | n.2776C>A | non_coding_transcript_exon_variant | 0.22 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170013 | c.600C>T | synonymous_variant | 0.4 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289828 | c.-587C>A | upstream_gene_variant | 0.29 |
eis | 2715310 | p.Pro8Gln | missense_variant | 0.12 |
ahpC | 2726680 | p.Arg163Leu | missense_variant | 0.25 |
ribD | 2987382 | p.Leu182Phe | missense_variant | 0.4 |
thyX | 3067781 | c.165C>T | synonymous_variant | 0.29 |
ald | 3086731 | c.-89A>G | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087199 | p.Leu127Arg | missense_variant | 0.29 |
ald | 3087331 | p.Val171Ala | missense_variant | 0.67 |
Rv3083 | 3449130 | p.Met209Ile | missense_variant | 0.2 |
Rv3083 | 3449893 | p.Met464Val | missense_variant | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
Rv3236c | 3613275 | c.-159C>A | upstream_gene_variant | 0.14 |
embC | 4240824 | c.964delG | frameshift_variant | 0.33 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243346 | c.114A>G | synonymous_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4246059 | p.Ala943Thr | missense_variant | 0.18 |
embB | 4246307 | c.-207G>T | upstream_gene_variant | 0.33 |
embB | 4249350 | p.Val946Ala | missense_variant | 0.14 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ubiA | 4269343 | p.Gly164Glu | missense_variant | 0.22 |
whiB6 | 4338371 | p.Thr51Pro | 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 |