TB-Profiler result

Run: SRR14782595
Summary

Run ID: SRR14782595

Sample name:

Date: 03-04-2023 11:31:49

Number of reads: 2203006

Percentage reads mapped: 99.62

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 9647 c.2346C>G synonymous_variant 0.25
fgd1 491424 c.650_655delCCGCTG disruptive_inframe_deletion 1.0
mshA 575915 p.Asp190Asn missense_variant 0.99
mshA 576108 p.Ala254Gly missense_variant 0.17
mshA 576113 p.Arg256Gly missense_variant 0.32
mshA 576456 p.Val370Gly missense_variant 0.17
mshA 576479 p.Pro378Ala missense_variant 0.15
mshA 576616 c.1269G>C synonymous_variant 0.24
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.96
fabG1 1673553 p.Asp38Glu missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102817 p.Leu76Val missense_variant 0.19
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.15
pepQ 2860159 p.Ala87Gly missense_variant 0.24
fbiD 3339734 p.Ala206Gly missense_variant 0.62
fbiD 3339751 p.Ala212Pro missense_variant 0.19
Rv3083 3448322 c.-182G>A upstream_gene_variant 0.98
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.67
whiB7 3568428 c.252A>G synonymous_variant 0.17
whiB7 3568431 c.249C>G synonymous_variant 0.28
rpoA 3878590 c.-83G>C upstream_gene_variant 0.33
rpoA 3878597 c.-90G>C upstream_gene_variant 0.5
rpoA 3878641 c.-134C>G upstream_gene_variant 0.8
embC 4240373 c.511C>T synonymous_variant 1.0
embC 4240409 p.Pro183Ala missense_variant 0.43
embA 4242643 c.-590C>T upstream_gene_variant 0.98
embB 4246527 p.Ala5Gly missense_variant 0.35
embB 4246529 p.Ser6Arg missense_variant 0.2
embB 4246584 p.Arg24Pro missense_variant 0.2
embB 4246904 p.Val131Met missense_variant 1.0
aftB 4268619 p.Val73Gly missense_variant 0.18
whiB6 4338205 p.Val106Gly missense_variant 0.24
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0