Run ID: SRR4035514
Sample name:
Date: 04-04-2023 07:08:35
Number of reads: 1392284
Percentage reads mapped: 99.54
Strain: lineage3
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761109 | p.Asp435Tyr | missense_variant | 1.0 | rifampicin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8056 | p.Arg252Leu | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 |
rpoB | 760248 | p.Met148Val | missense_variant | 0.22 |
rpoB | 761195 | c.1389G>A | synonymous_variant | 0.14 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoB | 762772 | p.Asn989Ser | missense_variant | 0.2 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoB | 763114 | p.Gly1103Asp | missense_variant | 0.13 |
rpoC | 763596 | p.Glu76Gly | missense_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776074 | p.Val803Ile | missense_variant | 0.15 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776421 | p.Asp687Val | missense_variant | 0.17 |
mmpL5 | 776725 | p.Tyr586His | missense_variant | 0.15 |
mmpL5 | 776728 | p.Phe585Leu | missense_variant | 0.15 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303950 | c.1020C>T | synonymous_variant | 0.13 |
fbiC | 1305070 | p.Asp714Asn | missense_variant | 0.14 |
embR | 1417003 | p.Phe115Leu | missense_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471748 | n.-98C>T | upstream_gene_variant | 0.18 |
rrs | 1472199 | n.354C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473309 | n.1464G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475197 | n.1540G>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476388 | n.2731T>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476400 | n.2743G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476695 | n.3041delG | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476711 | n.3054G>T | non_coding_transcript_exon_variant | 0.17 |
inhA | 1673691 | c.-511G>A | upstream_gene_variant | 0.14 |
fabG1 | 1673699 | p.Ser87Phe | missense_variant | 0.12 |
fabG1 | 1673732 | p.Met98Lys | missense_variant | 0.12 |
inhA | 1674952 | p.Pro251Ala | missense_variant | 0.13 |
rpsA | 1833353 | c.-189C>T | upstream_gene_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 0.96 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170251 | p.Val121Gly | missense_variant | 0.12 |
Rv1979c | 2223078 | c.87C>A | synonymous_variant | 0.25 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 1.0 |
pncA | 2289295 | c.-54T>C | upstream_gene_variant | 0.12 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
kasA | 2519320 | c.1209delG | frameshift_variant | 0.12 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 0.96 |
ribD | 2986974 | p.Ile46Val | missense_variant | 0.12 |
Rv2752c | 3065434 | p.Val253Glu | missense_variant | 0.13 |
Rv2752c | 3065443 | p.Asp250Gly | missense_variant | 0.14 |
Rv2752c | 3065687 | p.Gly169Ser | missense_variant | 0.12 |
thyX | 3067703 | c.243C>T | synonymous_variant | 0.2 |
thyA | 3074424 | c.48G>T | synonymous_variant | 1.0 |
thyA | 3074474 | c.-3A>G | upstream_gene_variant | 0.11 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474372 | c.366T>C | synonymous_variant | 0.13 |
whiB7 | 3568633 | p.Pro16Arg | missense_variant | 0.12 |
Rv3236c | 3613088 | p.Glu10Gly | missense_variant | 0.12 |
rpoA | 3877534 | p.Val325Asp | missense_variant | 0.12 |
rpoA | 3877553 | p.Glu319* | stop_gained | 0.13 |
rpoA | 3878191 | p.Thr106Ile | missense_variant | 0.15 |
clpC1 | 4038234 | p.Arg824Pro | missense_variant | 0.13 |
embC | 4241460 | p.Arg533Pro | missense_variant | 0.12 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245077 | c.1845G>A | synonymous_variant | 0.14 |
aftB | 4268058 | p.Phe260Cys | missense_variant | 0.11 |
ethA | 4327103 | p.Gly124Asp | missense_variant | 0.17 |
ethA | 4327477 | c.-5delG | upstream_gene_variant | 0.14 |
ethA | 4328212 | c.-740delC | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4408335 | c.-133A>G | upstream_gene_variant | 0.13 |