Run ID: SRR11972320
Sample name:
Date: 03-04-2023 05:36:57
Number of reads: 1522820
Percentage reads mapped: 98.42
Strain: lineage4.5
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.5 | Euro-American | H;T | RD122 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7892 | c.591G>A | synonymous_variant | 1.0 |
gyrA | 8750 | c.1449C>G | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9534 | p.Arg745Ser | missense_variant | 0.15 |
fgd1 | 490805 | p.Tyr8Cys | missense_variant | 0.12 |
fgd1 | 490942 | p.Ser54Pro | missense_variant | 0.12 |
mshA | 576030 | p.His228Leu | missense_variant | 0.12 |
mshA | 576479 | p.Pro378Ala | missense_variant | 0.18 |
ccsA | 620029 | c.139C>T | synonymous_variant | 1.0 |
rpoB | 760872 | p.Glu356Lys | missense_variant | 0.12 |
rpoC | 766484 | p.Val1039Ile | missense_variant | 0.13 |
mmpL5 | 775635 | p.Pro949Leu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776314 | p.Glu723* | stop_gained | 0.14 |
mmpR5 | 779181 | c.198delG | frameshift_variant | 0.13 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304420 | p.Ala497Val | missense_variant | 0.18 |
Rv1258c | 1406261 | c.1080C>T | synonymous_variant | 0.2 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475124 | n.1467A>C | non_coding_transcript_exon_variant | 0.11 |
rpsA | 1834277 | p.Asp246Asn | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102333 | p.Gln237Leu | missense_variant | 0.12 |
katG | 2153970 | p.Asp714Glu | missense_variant | 0.15 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.18 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.15 |
PPE35 | 2170392 | p.Gly74Ala | missense_variant | 0.14 |
PPE35 | 2170400 | c.213G>C | synonymous_variant | 0.12 |
PPE35 | 2170568 | p.Ile15Met | missense_variant | 0.96 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289510 | c.-269G>A | upstream_gene_variant | 0.12 |
eis | 2714872 | p.Pro154Leu | missense_variant | 0.12 |
folC | 2746191 | c.1407delC | frameshift_variant | 0.22 |
folC | 2746775 | p.Gln275Leu | missense_variant | 0.12 |
pepQ | 2859969 | c.450C>G | synonymous_variant | 1.0 |
ribD | 2986840 | c.2T>C | start_lost | 0.12 |
ribD | 2986908 | p.Thr24Ser | missense_variant | 0.12 |
Rv3083 | 3448711 | p.Arg70Cys | missense_variant | 0.14 |
Rv3083 | 3448987 | p.Arg162Trp | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474528 | c.522A>G | synonymous_variant | 0.1 |
fprA | 3474842 | p.Lys279Arg | missense_variant | 0.11 |
Rv3236c | 3612113 | c.1003delG | frameshift_variant | 0.29 |
alr | 3841049 | c.372G>A | synonymous_variant | 0.13 |
rpoA | 3877575 | c.933C>T | synonymous_variant | 0.25 |
rpoA | 3878575 | c.-68C>T | upstream_gene_variant | 1.0 |
clpC1 | 4038318 | p.Pro796Leu | missense_variant | 1.0 |
clpC1 | 4038908 | c.1797C>A | synonymous_variant | 1.0 |
panD | 4043888 | c.394C>T | synonymous_variant | 0.13 |
panD | 4044428 | c.-147G>A | upstream_gene_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243453 | c.225delC | frameshift_variant | 0.12 |
embA | 4243478 | c.246G>A | synonymous_variant | 0.13 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.48 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.28 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.24 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.24 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.12 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.12 |
embB | 4247677 | c.1164C>T | synonymous_variant | 0.12 |
aftB | 4269516 | c.-680G>T | upstream_gene_variant | 0.17 |
aftB | 4269561 | c.-725G>A | upstream_gene_variant | 0.13 |
ubiA | 4269932 | c.-100delC | upstream_gene_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407704 | p.Ala167Thr | missense_variant | 0.13 |
gid | 4408304 | c.-102G>A | upstream_gene_variant | 0.14 |