TB-Profiler result

Run: SRR4034505

Summary

Run ID: SRR4034505

Sample name:

Date: 04-04-2023 06:50:56

Number of reads: 1415157

Percentage reads mapped: 99.81

Strain: lineage4.3.2

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 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
gyrB 5247 p.Ala3Val missense_variant 0.12
gyrB 6994 c.1756delG frameshift_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8307 p.Gln336Lys missense_variant 0.1
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304456 p.Cys509Tyr missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rpsA 1834147 p.Phe202Leu missense_variant 0.12
rpsA 1834218 p.Val226Ala missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154424 c.1685_1687delACA disruptive_inframe_deletion 0.14
Rv1979c 2222043 c.1122G>A synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726604 c.413delT frameshift_variant 0.11
pepQ 2860151 p.Ala90Thr missense_variant 0.12
Rv2752c 3067113 c.-922C>A upstream_gene_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449082 c.581delC frameshift_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841211 c.210C>T synonymous_variant 0.13
rpoA 3878641 c.-134C>G upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4242564 p.Ala901Val missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245761 c.2533dupG frameshift_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407831 c.372G>A synonymous_variant 0.11
gid 4408156 p.Leu16Arg missense_variant 1.0