TB-Profiler result

Run: SRR6981970
Summary

Run ID: SRR6981970

Sample name:

Date: 04-04-2023 18:23:25

Number of reads: 266685

Percentage reads mapped: 97.61

Strain: lineage4.1.1.2

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
lineage4.1 Euro-American T;X;H None 0.98
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 0.98
lineage4.1.1.2 Euro-American (X-type) X1 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
gyrB 6223 c.984G>T synonymous_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9560 c.2259C>A synonymous_variant 0.14
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766891 c.3527delT frameshift_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777851 c.630C>G synonymous_variant 0.22
mmpL5 778453 p.Thr10Ala missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781780 p.Leu74Pro missense_variant 0.13
fbiC 1303962 c.1032G>C synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474932 n.1275C>A non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155296 c.816C>T synonymous_variant 1.0
katG 2156496 c.-385C>T upstream_gene_variant 0.14
PPE35 2169104 c.1508delT frameshift_variant 0.15
PPE35 2170589 c.23delC frameshift_variant 0.17
Rv1979c 2223089 p.Ser26Pro missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859426 c.993C>T synonymous_variant 0.25
ribD 2987138 c.300C>A synonymous_variant 0.18
thyA 3073799 c.673C>A synonymous_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449479 p.Glu326* stop_gained 0.22
Rv3083 3449787 c.1284C>T synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641748 c.214C>A synonymous_variant 0.15
alr 3840961 p.Val154Leu missense_variant 0.15
clpC1 4039676 c.1029G>A synonymous_variant 1.0
embC 4241478 p.Ala539Val missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243833 p.Ala201Thr missense_variant 1.0
embB 4246930 p.Gln139His missense_variant 1.0
embB 4247489 p.Pro326Thr missense_variant 0.13
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4267959 p.Val293Ala missense_variant 0.33
whiB6 4338264 c.258G>A synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407829 c.373delC frameshift_variant 0.12