Run ID: SRR10272570
Sample name:
Date: 02-04-2023 16:38:41
Number of reads: 719333
Percentage reads mapped: 86.99
Strain: lineage4.4.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 0.97 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 7106 | p.Glu623Lys | missense_variant | 0.12 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7986 | p.Pro229Ser | missense_variant | 0.12 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491494 | c.713dupA | frameshift_variant | 0.13 |
fgd1 | 491717 | p.Ala312Val | missense_variant | 0.14 |
mshA | 576412 | c.1065C>T | synonymous_variant | 0.25 |
mshA | 576751 | p.Lys468Asn | missense_variant | 0.4 |
ccsA | 619831 | c.-60T>G | upstream_gene_variant | 0.29 |
ccsA | 620007 | c.117T>C | synonymous_variant | 0.15 |
ccsA | 620728 | p.His280Asn | missense_variant | 0.12 |
rpoB | 762325 | p.Lys840Arg | missense_variant | 0.13 |
rpoB | 763222 | p.Ile1139Thr | missense_variant | 0.11 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 779193 | c.-713G>A | upstream_gene_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781831 | p.Pro91His | missense_variant | 0.13 |
fbiC | 1303850 | p.Pro307His | missense_variant | 0.13 |
fbiC | 1304970 | c.2040G>T | synonymous_variant | 0.12 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472157 | n.312A>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472373 | n.528G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474498 | n.841G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474522 | n.865C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475193 | n.1536C>G | non_coding_transcript_exon_variant | 0.11 |
inhA | 1674498 | c.297G>C | synonymous_variant | 0.14 |
inhA | 1674849 | p.Gln216His | missense_variant | 0.13 |
rpsA | 1834012 | c.471G>A | synonymous_variant | 0.12 |
rpsA | 1834015 | c.474G>C | synonymous_variant | 0.12 |
rpsA | 1834018 | c.477C>T | synonymous_variant | 0.12 |
rpsA | 1834024 | c.483G>C | synonymous_variant | 0.12 |
rpsA | 1834034 | p.Ile165Val | missense_variant | 0.12 |
rpsA | 1834039 | c.498C>T | synonymous_variant | 0.12 |
rpsA | 1834040 | p.Lys167Gln | missense_variant | 0.12 |
rpsA | 1834069 | c.528G>C | synonymous_variant | 0.12 |
rpsA | 1834090 | c.549G>T | synonymous_variant | 0.14 |
rpsA | 1834099 | c.558C>G | synonymous_variant | 0.17 |
rpsA | 1834827 | p.Thr429Asn | missense_variant | 0.2 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
katG | 2155006 | p.Gly369Val | missense_variant | 0.14 |
katG | 2155414 | p.Glu233Gly | missense_variant | 0.13 |
katG | 2156527 | c.-417delG | upstream_gene_variant | 0.17 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.14 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.14 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.12 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.12 |
PPE35 | 2169602 | c.1011C>A | synonymous_variant | 0.13 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
PPE35 | 2169890 | c.723C>T | synonymous_variant | 0.18 |
PPE35 | 2169893 | c.720C>A | synonymous_variant | 0.18 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.21 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.15 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.6 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.57 |
PPE35 | 2170147 | p.Ser156Ala | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290036 | c.-795C>T | upstream_gene_variant | 0.15 |
pncA | 2290169 | c.-928C>T | upstream_gene_variant | 0.15 |
ahpC | 2726732 | p.Lys180Asn | missense_variant | 0.18 |
folC | 2746512 | p.Ala363Pro | missense_variant | 0.11 |
folC | 2746692 | p.Val303Met | missense_variant | 0.15 |
pepQ | 2859375 | c.1044G>T | synonymous_variant | 0.14 |
ribD | 2986825 | c.-14C>T | upstream_gene_variant | 0.13 |
thyX | 3067745 | c.201C>A | synonymous_variant | 0.12 |
thyA | 3073949 | p.Pro175Ala | missense_variant | 0.17 |
thyA | 3074514 | c.-43T>C | upstream_gene_variant | 0.18 |
thyA | 3074554 | c.-83G>A | upstream_gene_variant | 0.2 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
Rv3083 | 3449713 | p.Ala404Ser | missense_variant | 0.15 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474014 | p.Pro3Leu | missense_variant | 0.33 |
fprA | 3474058 | p.Ala18Thr | missense_variant | 0.2 |
fprA | 3474160 | p.Gly52Trp | missense_variant | 0.12 |
fprA | 3475295 | p.Glu430Gly | missense_variant | 0.4 |
Rv3236c | 3612155 | p.Arg321Leu | missense_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
fbiB | 3641951 | c.417G>T | synonymous_variant | 0.2 |
fbiB | 3642655 | p.Thr374Lys | missense_variant | 0.15 |
alr | 3841187 | c.234C>A | synonymous_variant | 0.12 |
alr | 3841565 | c.-145G>T | upstream_gene_variant | 0.12 |
clpC1 | 4038444 | p.Ala754Glu | missense_variant | 0.2 |
clpC1 | 4039184 | c.1521G>T | synonymous_variant | 0.18 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.12 |
clpC1 | 4040151 | p.Gly185Val | missense_variant | 0.12 |
clpC1 | 4040244 | p.Gly154Val | missense_variant | 0.14 |
clpC1 | 4040265 | p.Gly147Val | missense_variant | 0.14 |
clpC1 | 4040898 | c.-194C>A | upstream_gene_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244284 | p.Pro351Leu | missense_variant | 0.12 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.21 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.21 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.21 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.21 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.18 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.19 |
embB | 4247225 | p.Arg238Cys | missense_variant | 0.15 |
embB | 4247769 | p.Ile419Thr | missense_variant | 0.2 |
embB | 4247814 | p.Ala434Val | missense_variant | 0.17 |
embB | 4249323 | p.Ala937Glu | missense_variant | 0.25 |
embB | 4249731 | p.Ala1073Val | missense_variant | 0.15 |
ethA | 4326241 | p.Asp411Glu | missense_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |