TB-Profiler result

Run: SRR18911131
Summary

Run ID: SRR18911131

Sample name:

Date: 03-04-2023 20:41:01

Number of reads: 596228

Percentage reads mapped: 99.54

Strain: lineage4.4.2

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.2 Euro-American T1;T2 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490824 c.42A>G synonymous_variant 0.95
mshA 576751 p.Lys468Asn missense_variant 0.36
ccsA 620748 c.858T>G synonymous_variant 0.25
rpoB 759620 c.-187A>C upstream_gene_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778895 p.Thr4Asn missense_variant 0.11
mmpR5 779228 p.Ile80Thr missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475187 n.1530C>G non_coding_transcript_exon_variant 0.2
inhA 1673952 c.-250G>A upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2222778 p.Asp129Glu missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518492 p.Tyr126* stop_gained 0.12
eis 2714570 p.Ala255Ser missense_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.23
Rv2752c 3066099 p.Met31Ile missense_variant 1.0
ald 3086712 c.-108C>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448348 c.-156G>A upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568628 c.52T>C synonymous_variant 0.11
clpC1 4038565 p.Asp714Asn missense_variant 1.0
embC 4241527 c.1665C>A synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244967 p.Gly579Trp missense_variant 0.2
embB 4246508 c.-6G>A upstream_gene_variant 1.0
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407535 p.Thr223Met missense_variant 1.0