Run ID: ERR2229521
Sample name:
Date: 31-03-2023 17:16:47
Number of reads: 964184
Percentage reads mapped: 99.33
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 | 0.96 |
fgd1 | 491139 | p.Glu119Asp | missense_variant | 0.12 |
mshA | 575716 | c.369C>T | synonymous_variant | 0.13 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.43 |
mshA | 576588 | p.Gly414Val | missense_variant | 0.12 |
rpoC | 765077 | p.Ser570Thr | missense_variant | 0.12 |
rpoC | 766218 | p.Asp950Gly | missense_variant | 0.1 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776023 | p.Val820Leu | missense_variant | 0.17 |
mmpL5 | 776152 | p.Met777Leu | missense_variant | 0.17 |
mmpL5 | 777128 | c.1353A>G | synonymous_variant | 0.17 |
mmpL5 | 777501 | p.Thr327Asn | missense_variant | 0.13 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
embR | 1416232 | p.Cys372Gly | missense_variant | 0.1 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472952 | n.1107T>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1473995 | n.338G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474736 | n.1084delG | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476656 | n.2999G>C | non_coding_transcript_exon_variant | 0.11 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.14 |
rpsA | 1834849 | c.1308C>A | synonymous_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918064 | p.Pro42Leu | missense_variant | 0.15 |
tlyA | 1918243 | p.Asp102Asn | missense_variant | 0.13 |
katG | 2154634 | p.Asn493Ile | missense_variant | 0.11 |
katG | 2155021 | p.Ile364Asn | missense_variant | 0.18 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169725 | c.888T>C | synonymous_variant | 0.16 |
PPE35 | 2169902 | c.711G>C | synonymous_variant | 0.13 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.24 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.27 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.29 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289448 | c.-207G>T | upstream_gene_variant | 0.15 |
pncA | 2289464 | c.-223A>G | upstream_gene_variant | 0.13 |
kasA | 2519057 | p.Thr315Ser | missense_variant | 0.13 |
kasA | 2519062 | c.948T>G | synonymous_variant | 0.13 |
kasA | 2519065 | c.951C>A | synonymous_variant | 0.13 |
kasA | 2519066 | c.956_982delACGCCGCGGAGGCCAACGCCATCCGCG | disruptive_inframe_deletion | 0.25 |
kasA | 2519129 | p.Pro339Thr | missense_variant | 0.25 |
eis | 2714323 | p.Arg337His | missense_variant | 0.14 |
eis | 2714350 | p.Arg328Gln | missense_variant | 0.13 |
pepQ | 2860154 | p.Glu89Gln | missense_variant | 0.14 |
thyA | 3073924 | p.Leu183Ser | missense_variant | 0.1 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
whiB7 | 3568431 | c.249C>G | synonymous_variant | 0.23 |
Rv3236c | 3612861 | p.Leu86Val | missense_variant | 0.2 |
fbiA | 3641452 | p.Arg304Trp | missense_variant | 0.13 |
fbiB | 3642436 | p.Gln301Arg | missense_variant | 0.12 |
rpoA | 3878013 | p.Asp165Glu | missense_variant | 0.14 |
clpC1 | 4038773 | p.Asp644Glu | missense_variant | 0.17 |
clpC1 | 4038776 | p.Glu643Asp | missense_variant | 0.17 |
clpC1 | 4038782 | c.1923G>C | synonymous_variant | 0.18 |
clpC1 | 4039691 | c.1014G>C | synonymous_variant | 0.13 |
clpC1 | 4040057 | c.648C>T | synonymous_variant | 0.14 |
embC | 4242030 | p.Leu723Pro | missense_variant | 0.11 |
embC | 4242255 | p.Pro798Gln | missense_variant | 0.4 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.5 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.5 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.5 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.5 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.5 |
aftB | 4267096 | p.Pro581Ser | missense_variant | 0.15 |
ethR | 4326964 | c.-585G>A | upstream_gene_variant | 0.13 |
ethR | 4326970 | c.-579G>T | upstream_gene_variant | 0.15 |
ethR | 4328044 | p.Leu166Met | missense_variant | 0.11 |
ethA | 4328085 | c.-612G>A | upstream_gene_variant | 0.11 |
whiB6 | 4338457 | p.Thr22Lys | missense_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-6_*1408del | transcript_ablation | 1.0 |