Run ID: SRR14088371
Sample name:
Date: 03-04-2023 09:46:21
Number of reads: 3255107
Percentage reads mapped: 99.57
Strain: lineage3
Drug-resistance: MDR-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 | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288703 | p.Val180Ala | missense_variant | 1.0 | pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | 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 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801316 | p.Met170Val | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474772 | n.1115C>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475164 | n.1507C>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475575 | n.1918C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475842 | n.2185C>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475848 | n.2191A>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475897 | n.2240T>A | non_coding_transcript_exon_variant | 0.17 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154570 | c.1542G>C | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167865 | c.2748G>C | synonymous_variant | 0.13 |
PPE35 | 2167868 | c.2745A>C | synonymous_variant | 0.12 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.13 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.13 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.16 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.31 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
whiB7 | 3568418 | c.250_261delGGACGTCCGCGC | conservative_inframe_deletion | 0.2 |
fbiB | 3642877 | p.Lys448Arg | missense_variant | 1.0 |
rpoA | 3877970 | p.Ala180Thr | missense_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 0.99 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.11 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.12 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.12 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.1 |
embB | 4247028 | p.Leu172Arg | missense_variant | 0.34 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4408103 | p.Gly34Trp | missense_variant | 1.0 |