TB-Profiler result

Run: SRR023444
Summary

Run ID: SRR023444

Sample name:

Date: 02-04-2023 14:11:33

Number of reads: 452660

Percentage reads mapped: 97.37

Strain: lineage4

Drug-resistance: Sensitive

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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
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
gyrA 7204 c.-98C>T upstream_gene_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7807 p.Arg169Leu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 620489 p.Thr200Ile missense_variant 0.4
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761597 p.Asn597Lys missense_variant 0.75
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775979 p.Leu834Phe missense_variant 0.25
mmpS5 778554 p.Val118Phe missense_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.83
inhA 1673925 c.-277C>A upstream_gene_variant 0.4
tlyA 1918485 p.Lys182Asn missense_variant 0.12
ndh 2101809 p.Thr412Ala missense_variant 0.14
ndh 2102013 p.Ala344Ser missense_variant 0.4
katG 2154585 c.1527C>T synonymous_variant 0.29
Rv1979c 2222863 p.Thr101Asn missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289620 c.-379G>A upstream_gene_variant 0.16
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3613113 p.Glu2* stop_gained 0.12
fbiA 3640379 c.-164T>C upstream_gene_variant 1.0
fbiA 3640832 p.Val97Ala missense_variant 0.5
alr 3841600 c.-180G>T upstream_gene_variant 0.25
rpoA 3877698 p.His270Gln missense_variant 0.25
ddn 3987142 p.Val100Glu missense_variant 0.12
embA 4243203 c.-30C>T upstream_gene_variant 0.5
embB 4249057 p.Tyr848* stop_gained 0.33
aftB 4268031 p.Pro269Gln missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0