TB-Profiler result

Run: SRR4034514
Summary

Run ID: SRR4034514

Sample name:

Date: 04-04-2023 06:51:19

Number of reads: 1130949

Percentage reads mapped: 99.64

Strain: lineage4.3.2.1

Drug-resistance: Other

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
tlyA 1918237 c.299delT frameshift_variant 0.11 capreomycin
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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575929 c.582C>A synonymous_variant 0.11
rpoB 761230 p.Gly475Val missense_variant 0.12
rpoB 761291 c.1485G>A synonymous_variant 0.15
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779187 c.-707C>A upstream_gene_variant 0.12
mmpR5 779278 p.Pro97Ser missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303536 c.606G>C synonymous_variant 1.0
fbiC 1303990 c.1064delG frameshift_variant 0.15
embR 1416536 p.Ala271Val missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472294 n.449G>T non_coding_transcript_exon_variant 0.17
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1473090 n.1245G>T non_coding_transcript_exon_variant 0.29
fabG1 1674093 c.658delG frameshift_variant 0.11
inhA 1674182 c.-20G>A upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167685 c.2927delA frameshift_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289788 c.-548dupC upstream_gene_variant 0.11
pncA 2290107 c.-866T>A upstream_gene_variant 1.0
kasA 2518506 p.Ala131Val missense_variant 0.12
ahpC 2726644 p.Ala151Asp missense_variant 0.12
pepQ 2859541 p.Gly293Val missense_variant 0.14
Rv2752c 3064680 c.1512C>T synonymous_variant 0.18
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074025 c.446delT frameshift_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473942 c.-65C>T upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568570 p.Glu37Gly missense_variant 0.12
fbiA 3640932 p.Glu130Asp missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4239704 c.-159C>A upstream_gene_variant 0.17
embC 4239740 c.-123C>A upstream_gene_variant 0.11
embC 4241160 p.Ala433Val missense_variant 0.12
embC 4241182 c.1320G>T synonymous_variant 0.12
embC 4241259 p.Arg466Gln missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245478 p.Met749Thr missense_variant 0.15
embB 4249009 c.2496G>A synonymous_variant 0.4
embB 4249271 p.Asp920Tyr missense_variant 0.12
aftB 4267401 p.Ala479Val missense_variant 0.14
ethA 4328327 c.-855delC upstream_gene_variant 0.17
ethA 4328376 c.-903G>T upstream_gene_variant 0.14
whiB6 4338416 p.Gln36Lys missense_variant 0.15
whiB6 4338429 c.93C>A synonymous_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0