TB-Profiler result

Run: SRR4034618

Summary

Run ID: SRR4034618

Sample name:

Date: 04-04-2023 06:55:32

Number of reads: 614162

Percentage reads mapped: 99.79

Strain: lineage4.3.3

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
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 5072 c.-168G>A upstream_gene_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9164 c.1863G>A synonymous_variant 0.22
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764183 p.Ala272Thr missense_variant 0.29
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765448 p.Gln693His missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778296 p.Val62Ala missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461065 c.21C>A synonymous_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.12
rrs 1472809 n.964G>A non_coding_transcript_exon_variant 0.17
rrl 1473585 n.-73C>T upstream_gene_variant 0.12
rrl 1473957 n.300G>T non_coding_transcript_exon_variant 0.22
rrl 1476056 n.2399G>A non_coding_transcript_exon_variant 1.0
rpsA 1834880 p.Asp447Asn missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153970 p.Asp714Glu missense_variant 0.15
PPE35 2169320 p.Leu431Phe missense_variant 0.23
PPE35 2169704 c.908delG frameshift_variant 0.13
PPE35 2170475 c.138C>A synonymous_variant 0.17
Rv1979c 2221862 p.Arg435Ser missense_variant 0.13
Rv1979c 2223051 p.Glu38Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2517958 c.-157A>G upstream_gene_variant 0.17
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2714266 p.Leu356Pro missense_variant 0.22
eis 2714994 c.339T>C synonymous_variant 0.22
Rv2752c 3065824 p.Pro123Leu missense_variant 0.92
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086783 c.-37C>T upstream_gene_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448974 c.471C>T synonymous_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475134 c.1128A>G synonymous_variant 0.2
Rv3236c 3612030 p.Ala363Thr missense_variant 0.18
Rv3236c 3612391 c.726G>T synonymous_variant 0.67
fbiA 3640963 p.Arg141Cys missense_variant 0.25
fbiA 3641386 c.846delC frameshift_variant 0.15
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243877 c.645G>T synonymous_variant 0.13
embB 4247155 c.642G>T synonymous_variant 0.13
embB 4247555 p.Leu348Met missense_variant 0.15
aftB 4267291 p.Ala516Thr missense_variant 0.12
aftB 4268886 c.-50G>A upstream_gene_variant 0.18
ubiA 4269581 p.Pro85Thr missense_variant 0.17
ubiA 4269589 p.Arg82Leu missense_variant 0.17
ethR 4327932 p.Arg128Ser missense_variant 0.13
whiB6 4338295 p.Trp76Leu missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0