TB-Profiler result

Run: SRR14165011
Summary

Run ID: SRR14165011

Sample name:

Date: 03-04-2023 10:11:41

Number of reads: 569827

Percentage reads mapped: 99.72

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 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575224 c.-124A>T upstream_gene_variant 0.12
mshA 576482 p.Val379Leu missense_variant 0.17
mshA 576729 p.Ser461Leu missense_variant 0.1
rpoC 764636 p.Asp423Asn missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 0.88
rpoC 767028 p.Trp1220Ser missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778013 p.Asn156Lys missense_variant 0.13
mmpS5 778505 p.Leu134Gln missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473205 n.1360T>A non_coding_transcript_exon_variant 0.15
rrl 1474144 n.487G>T non_coding_transcript_exon_variant 0.17
rrl 1474921 n.1264C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918267 p.Ala110Thr missense_variant 0.11
ndh 2102308 c.735G>A synonymous_variant 1.0
ndh 2102935 c.108C>G synonymous_variant 0.11
ndh 2103224 c.-182C>T upstream_gene_variant 0.11
PPE35 2169413 c.1200T>A synonymous_variant 0.11
PPE35 2170099 c.514C>T synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 0.93
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086807 c.-13G>A upstream_gene_variant 0.1
Rv3083 3449445 c.942G>A synonymous_variant 0.1
Rv3083 3449854 p.Met451Val missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.18
fbiB 3640881 c.-654G>A upstream_gene_variant 0.17
rpoA 3878636 c.-129C>G upstream_gene_variant 0.22
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240976 p.Lys372Glu missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249552 c.3039C>T synonymous_variant 0.12
ethR 4326646 c.-903G>A upstream_gene_variant 0.11
ethA 4327253 p.Ala74Val missense_variant 0.15
ethR 4327813 p.Thr89Ser missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.96