Run ID: SRR6257068
Sample name:
Date: 04-04-2023 13:25:01
Number of reads: 798856
Percentage reads mapped: 97.79
Strain: lineage2.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 0.99 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7932 | p.Asp211Tyr | missense_variant | 0.29 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575267 | c.-81G>A | upstream_gene_variant | 0.12 |
mshA | 575853 | p.Trp169Leu | missense_variant | 0.2 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 761718 | p.Ala638Thr | missense_variant | 0.22 |
rpoC | 762470 | c.-900G>A | upstream_gene_variant | 0.14 |
rpoB | 762918 | p.Arg1038Ser | missense_variant | 0.15 |
rpoB | 762935 | p.Tyr1043* | stop_gained | 0.13 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoB | 763097 | p.Tyr1097* | stop_gained | 0.12 |
rpoC | 763670 | p.Val101Phe | missense_variant | 0.22 |
rpoC | 763853 | p.Val162Ile | missense_variant | 0.18 |
rpoC | 765818 | p.Leu817Met | missense_variant | 0.14 |
rpoC | 766645 | p.Glu1092Asp | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776018 | c.2463G>C | synonymous_variant | 0.21 |
mmpL5 | 776021 | c.2460G>C | synonymous_variant | 0.21 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpL5 | 777173 | c.1308C>T | synonymous_variant | 0.12 |
mmpL5 | 777725 | c.756C>T | synonymous_variant | 0.14 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303511 | p.Gly194Asp | missense_variant | 0.18 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 0.8 |
atpE | 1461052 | p.Pro3Leu | missense_variant | 0.14 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474218 | n.561T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474649 | n.992A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474759 | n.1102A>T | non_coding_transcript_exon_variant | 0.12 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.29 |
inhA | 1674714 | c.513C>A | synonymous_variant | 0.29 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102420 | p.Lys208Arg | missense_variant | 0.17 |
katG | 2154044 | p.Thr690Ser | missense_variant | 0.12 |
katG | 2154566 | p.Lys516* | stop_gained | 0.25 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167745 | p.Thr956Arg | missense_variant | 0.27 |
PPE35 | 2167868 | c.2745A>C | synonymous_variant | 0.12 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168905 | p.Ile570Phe | missense_variant | 0.12 |
PPE35 | 2169269 | c.1344A>G | synonymous_variant | 0.23 |
PPE35 | 2169272 | c.1341C>G | synonymous_variant | 0.23 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.22 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.25 |
PPE35 | 2169287 | c.1326T>C | synonymous_variant | 0.14 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.21 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.15 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.5 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.48 |
PPE35 | 2170566 | p.Phe16Tyr | missense_variant | 0.16 |
PPE35 | 2170623 | c.-11G>A | upstream_gene_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518809 | p.Lys232Arg | missense_variant | 0.24 |
kasA | 2518839 | p.Ala242Gly | missense_variant | 0.17 |
kasA | 2518879 | c.765A>G | synonymous_variant | 0.27 |
kasA | 2518882 | c.768C>A | synonymous_variant | 0.29 |
kasA | 2518896 | c.783_784delGT | frameshift_variant | 0.15 |
kasA | 2519140 | c.1026G>C | synonymous_variant | 0.18 |
kasA | 2519143 | c.1029G>C | synonymous_variant | 0.18 |
eis | 2714955 | c.378C>T | synonymous_variant | 1.0 |
folC | 2746660 | c.938delT | frameshift_variant | 0.29 |
folC | 2747361 | p.Arg80Ser | missense_variant | 0.18 |
Rv2752c | 3065377 | p.Val272Ala | missense_variant | 0.18 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087413 | c.594C>T | synonymous_variant | 0.14 |
fbiD | 3339630 | c.513C>T | synonymous_variant | 1.0 |
Rv3083 | 3448907 | p.Tyr135Cys | missense_variant | 0.14 |
Rv3083 | 3449041 | p.Val180Ile | missense_variant | 0.15 |
Rv3083 | 3449061 | c.558C>G | synonymous_variant | 0.18 |
Rv3083 | 3449064 | c.561A>C | synonymous_variant | 0.18 |
Rv3083 | 3449456 | c.955_958delGATC | frameshift_variant | 0.18 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612568 | c.549G>T | synonymous_variant | 0.12 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiB | 3641958 | c.431_448delTCGCCGTGGTCATCACCG | disruptive_inframe_deletion | 0.2 |
fbiB | 3642257 | c.723C>T | synonymous_variant | 0.18 |
fbiB | 3642363 | p.Glu277Lys | missense_variant | 0.22 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.35 |
clpC1 | 4039498 | p.Ile403Val | missense_variant | 0.14 |
clpC1 | 4039508 | c.1197G>C | synonymous_variant | 0.13 |
clpC1 | 4039526 | c.1179G>C | synonymous_variant | 0.2 |
embC | 4239780 | c.-83G>A | upstream_gene_variant | 0.15 |
embC | 4240801 | c.939C>T | synonymous_variant | 0.17 |
embC | 4240803 | p.Tyr314Phe | missense_variant | 0.17 |
embC | 4241118 | c.1257_1258insGGCAGC | conservative_inframe_insertion | 0.17 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243157 | c.-76G>C | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4244102 | c.870A>G | synonymous_variant | 0.14 |
embA | 4244579 | c.1347C>A | synonymous_variant | 0.15 |
embA | 4245672 | p.Gly814Arg | missense_variant | 0.22 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.13 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.14 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.14 |
embB | 4247830 | c.1317A>G | synonymous_variant | 0.12 |
embB | 4248116 | p.Gly535Ser | missense_variant | 0.15 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ethR | 4326925 | c.-624A>G | upstream_gene_variant | 0.18 |
ethR | 4326934 | c.-615C>G | upstream_gene_variant | 0.2 |
ethR | 4326961 | c.-588G>C | upstream_gene_variant | 0.12 |
ethR | 4326970 | c.-579G>T | upstream_gene_variant | 0.12 |
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 |