Run ID: SRR3086357
Sample name:
Date: 04-04-2023 05:00:42
Number of reads: 1222774
Percentage reads mapped: 99.36
Strain: lineage2.2.1
Drug-resistance: MDR-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 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 0.97 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
folC | 2747480 | p.Glu40Gly | missense_variant | 1.0 | para-aminosalicylic_acid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9232 | p.Arg644Leu | missense_variant | 0.12 |
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 | 576059 | c.713delT | frameshift_variant | 0.13 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 762117 | p.Ser771Pro | missense_variant | 0.18 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763913 | p.Ala182Pro | missense_variant | 0.17 |
rpoC | 766645 | p.Glu1092Asp | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.88 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpL5 | 777864 | p.Val206Ala | missense_variant | 0.2 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406318 | c.1023A>G | synonymous_variant | 0.12 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1475235 | n.1582delA | non_coding_transcript_exon_variant | 0.17 |
fabG1 | 1674093 | c.658delG | frameshift_variant | 0.13 |
rpsA | 1833765 | c.228delC | frameshift_variant | 0.2 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102372 | p.Met224Lys | missense_variant | 0.17 |
katG | 2154419 | p.Val565Leu | missense_variant | 0.11 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167991 | c.2622C>T | synonymous_variant | 0.14 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518930 | c.816G>A | synonymous_variant | 0.13 |
folC | 2747724 | c.-126C>A | upstream_gene_variant | 0.25 |
ribD | 2987276 | c.438G>A | synonymous_variant | 0.15 |
thyX | 3067678 | p.Thr90Ala | missense_variant | 0.17 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087687 | p.Val290Met | missense_variant | 0.12 |
Rv3083 | 3449284 | p.Trp261Gly | missense_variant | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474929 | p.Gly308Ala | missense_variant | 0.18 |
fprA | 3475259 | p.Val418Ala | missense_variant | 0.1 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiB | 3642715 | p.Gly394Asp | missense_variant | 0.18 |
alr | 3840793 | p.Val210Ile | missense_variant | 1.0 |
clpC1 | 4040853 | c.-149T>A | upstream_gene_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243190 | c.-43G>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4244085 | p.Pro285Ser | missense_variant | 0.18 |
embA | 4245727 | p.Leu832Ser | missense_variant | 0.17 |
aftB | 4267035 | p.Arg601His | missense_variant | 0.12 |
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 |