TB-Profiler result

Run: SRR4037687
Summary

Run ID: SRR4037687

Sample name:

Date: 04-04-2023 07:35:38

Number of reads: 329349

Percentage reads mapped: 99.71

Strain: lineage4.4.1

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 0.98
lineage4.4.1 Euro-American (S-type) S;T None 0.98
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 9138 p.Gln613Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9783 p.Val828Met missense_variant 0.18
mshA 575158 c.-190C>A upstream_gene_variant 0.33
ccsA 620726 p.Leu279Pro missense_variant 0.33
rpoB 761232 p.Arg476Trp missense_variant 0.18
rpoC 765898 c.2529C>T synonymous_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777416 c.1065G>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471929 n.84C>A non_coding_transcript_exon_variant 0.13
rrl 1473455 n.-203G>T upstream_gene_variant 0.29
rrl 1473459 n.-199G>T upstream_gene_variant 0.25
inhA 1673363 c.-839G>A upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2168479 p.Thr712Pro missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518545 p.Met144Lys missense_variant 0.13
Rv2752c 3066175 p.Pro6Arg missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3448656 c.153G>A synonymous_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568779 c.-100T>C upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
clpC1 4038807 p.Glu633Gly missense_variant 0.18
clpC1 4038857 c.1848C>A synonymous_variant 0.67
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243612 p.Ala127Asp missense_variant 0.22
aftB 4267418 c.1419G>T synonymous_variant 0.67
whiB6 4338595 c.-75delG upstream_gene_variant 1.0