TB-Profiler result

Run: SRR4035844

Summary

Run ID: SRR4035844

Sample name:

Date: 04-04-2023 07:20:02

Number of reads: 680205

Percentage reads mapped: 99.47

Strain: lineage4.1.2

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
lineage4.1 Euro-American T;X;H None 0.98
lineage4.1.2 Euro-American T;H None 0.99
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 5076 c.-164G>A upstream_gene_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8061 p.Arg254Cys missense_variant 0.92
gyrA 8994 p.Asp565His missense_variant 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491491 p.Pro237Thr missense_variant 0.15
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760765 p.Glu320Val missense_variant 0.14
rpoC 764263 c.894G>A synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766484 p.Val1039Ile missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777320 c.1161C>G synonymous_variant 1.0
mmpL5 777989 c.491delA frameshift_variant 0.11
rpsL 781370 c.-190G>T upstream_gene_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475159 n.1503delT non_coding_transcript_exon_variant 0.14
rrl 1475507 n.1850C>A non_coding_transcript_exon_variant 0.12
rrl 1476117 n.2460G>T non_coding_transcript_exon_variant 0.22
inhA 1674376 p.Pro59Thr missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102383 c.660G>A synonymous_variant 0.25
katG 2155273 p.Pro280Gln missense_variant 0.2
katG 2155608 c.504C>T synonymous_variant 0.22
Rv1979c 2222302 p.Thr288Ser missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726755 p.Gly188Asp missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474399 p.Trp131* stop_gained 0.12
Rv3236c 3611974 c.1143A>C synonymous_variant 1.0
clpC1 4040852 c.-148C>A upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4248695 p.Arg728* stop_gained 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407740 p.Pro155Ser missense_variant 0.17
gid 4407804 c.399T>G synonymous_variant 0.15