TB-Profiler result

Run: SRR6045241
Summary

Run ID: SRR6045241

Sample name:

Date: 04-04-2023 11:55:19

Number of reads: 407533

Percentage reads mapped: 91.59

Strain: lineage4.1.2.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrB 6449 p.Lys404Glu missense_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7425 p.Pro42Ser missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8503 p.Leu401Pro missense_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.29
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 575766 p.Glu140Val missense_variant 0.2
mshA 576744 p.Val466Gly missense_variant 0.25
ccsA 620836 p.Gly316Cys missense_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.25
rpoB 760106 c.300G>A synonymous_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761278 p.Ile491Asn missense_variant 0.2
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406189 c.1152A>G synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918185 c.246G>A synonymous_variant 0.15
katG 2156410 c.-299T>C upstream_gene_variant 0.15
PPE35 2169827 c.786G>A synonymous_variant 1.0
PPE35 2169984 p.Ala210Val missense_variant 0.18
Rv1979c 2221879 p.Ala429Val missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289566 c.-325G>A upstream_gene_variant 0.18
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339650 p.Leu178Pro missense_variant 0.25
Rv3083 3449033 p.Gly177Asp missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3640869 c.-666G>T upstream_gene_variant 0.2
fbiA 3641394 p.Ile284Met missense_variant 0.18
fbiB 3641454 c.-81G>A upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4247174 p.Ala221Thr missense_variant 0.14
embB 4247497 p.Asp328Glu missense_variant 0.22
embB 4249467 p.Leu985Pro missense_variant 0.2
aftB 4267635 p.Arg401Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0