Run ID: ERR2229346
Sample name:
Date: 31-03-2023 17:05:08
Number of reads: 1206860
Percentage reads mapped: 96.96
Strain: lineage4.8
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 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 |
fgd1 | 491194 | p.Leu138Ile | missense_variant | 0.12 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.38 |
mshA | 576111 | p.Ala255Gly | missense_variant | 0.22 |
rpoB | 759988 | p.Ser61Leu | missense_variant | 0.14 |
rpoB | 760025 | p.Asp73Glu | missense_variant | 0.14 |
rpoB | 760400 | c.594G>T | synonymous_variant | 0.14 |
rpoB | 763010 | p.Trp1068* | stop_gained | 0.12 |
rpoC | 764399 | p.Tyr344His | missense_variant | 0.11 |
rpoC | 765944 | p.Gly859Ser | missense_variant | 0.12 |
rpoC | 766532 | p.Leu1055Ile | missense_variant | 0.11 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 778086 | c.394delG | frameshift_variant | 0.12 |
mmpL5 | 779157 | c.-677C>G | upstream_gene_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781754 | c.195G>A | synonymous_variant | 0.15 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
Rv1258c | 1407439 | c.-99G>A | upstream_gene_variant | 0.12 |
Rv1258c | 1407518 | c.-178C>G | upstream_gene_variant | 0.15 |
embR | 1416763 | c.584delA | frameshift_variant | 0.17 |
embR | 1417191 | p.Asp53Asn | missense_variant | 0.15 |
atpE | 1460889 | c.-156T>A | upstream_gene_variant | 0.25 |
atpE | 1460917 | c.-128C>A | upstream_gene_variant | 0.12 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474494 | n.837C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475421 | n.1764C>A | non_coding_transcript_exon_variant | 0.12 |
fabG1 | 1673346 | c.-94C>G | upstream_gene_variant | 0.2 |
fabG1 | 1673349 | c.-91G>C | upstream_gene_variant | 0.21 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.25 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.27 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.27 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.32 |
tlyA | 1917927 | c.-13G>A | upstream_gene_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154976 | p.Ala379Asp | missense_variant | 0.14 |
PPE35 | 2167814 | c.2799C>T | synonymous_variant | 0.14 |
PPE35 | 2168047 | p.Leu856Val | missense_variant | 0.12 |
PPE35 | 2168090 | p.Ile841Met | missense_variant | 0.11 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169146 | c.1467G>C | synonymous_variant | 0.12 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.14 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.17 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.67 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.68 |
PPE35 | 2170557 | p.Ala19Val | missense_variant | 0.13 |
Rv1979c | 2222219 | p.Asn316Asp | missense_variant | 0.17 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289189 | p.Ser18Leu | missense_variant | 0.14 |
kasA | 2518879 | c.765A>G | synonymous_variant | 0.12 |
ahpC | 2726099 | c.-93delG | upstream_gene_variant | 0.13 |
folC | 2746590 | p.Gly337Ser | missense_variant | 0.25 |
folC | 2746931 | p.Ala223Asp | missense_variant | 0.13 |
folC | 2746976 | p.Asp208Gly | missense_variant | 0.11 |
thyX | 3067533 | p.Ala138Gly | missense_variant | 0.13 |
thyX | 3067537 | c.408_409insA | frameshift_variant | 0.15 |
fbiD | 3339214 | p.Gln33* | stop_gained | 0.12 |
fprA | 3474304 | p.Val100Leu | missense_variant | 0.12 |
Rv3236c | 3613123 | c.-7T>G | upstream_gene_variant | 0.17 |
fbiA | 3640402 | c.-141C>A | upstream_gene_variant | 0.12 |
fbiB | 3642206 | p.Asp224Glu | missense_variant | 0.15 |
rpoA | 3877987 | p.Val174Ala | missense_variant | 0.13 |
rpoA | 3878489 | p.Pro7Thr | missense_variant | 0.12 |
clpC1 | 4038293 | c.2412G>C | synonymous_variant | 0.11 |
clpC1 | 4038668 | c.2037G>T | synonymous_variant | 0.17 |
clpC1 | 4038752 | p.Gln651His | missense_variant | 0.12 |
clpC1 | 4039730 | c.975C>A | synonymous_variant | 0.12 |
clpC1 | 4039888 | p.Leu273Ile | missense_variant | 0.17 |
panD | 4044336 | c.-55G>T | upstream_gene_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244348 | p.Trp372Cys | missense_variant | 0.12 |
embA | 4244730 | c.1499delT | frameshift_variant | 0.14 |
embA | 4245770 | p.Asn846Lys | missense_variant | 0.17 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.29 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.48 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.5 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.46 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.37 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.41 |
embB | 4247024 | p.Pro171Ala | missense_variant | 0.2 |
embB | 4248212 | c.1702delC | frameshift_variant | 0.17 |
embB | 4249396 | c.2883C>T | synonymous_variant | 0.14 |
aftB | 4267067 | c.1770C>T | synonymous_variant | 0.12 |
ethR | 4328104 | p.Ser186Thr | missense_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |