TB-Profiler result

Run: ERR2229007
Summary

Run ID: ERR2229007

Sample name:

Date: 31-03-2023 16:30:41

Number of reads: 1034278

Percentage reads mapped: 99.45

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 1.0
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
fgd1 491765 p.Leu328Pro missense_variant 0.12
mshA 575420 p.Thr25Ser missense_variant 0.2
mshA 576089 c.750_769delTGATCGGCGCGCGGCCCGGG frameshift_variant 0.33
ccsA 619700 c.-191C>T upstream_gene_variant 0.14
ccsA 620060 p.Asp57Gly missense_variant 0.15
ccsA 620154 c.267delG frameshift_variant 0.14
rpoB 762646 p.Pro947Leu missense_variant 0.12
rpoB 763050 p.Leu1082Met missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776446 p.Ala679Ser missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304456 p.Cys509Tyr missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473051 n.1206T>A non_coding_transcript_exon_variant 0.15
rrs 1473073 n.1228A>T non_coding_transcript_exon_variant 0.17
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474952 n.1295A>T non_coding_transcript_exon_variant 0.33
rrl 1476254 n.2597C>T non_coding_transcript_exon_variant 0.17
fabG1 1673346 c.-94C>G upstream_gene_variant 0.11
fabG1 1673349 c.-91G>C upstream_gene_variant 0.11
fabG1 1673357 c.-83G>A upstream_gene_variant 0.21
fabG1 1673359 c.-81T>C upstream_gene_variant 0.22
fabG1 1673361 c.-79C>G upstream_gene_variant 0.22
fabG1 1673380 c.-60C>G upstream_gene_variant 0.47
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168850 p.Ser588Leu missense_variant 0.11
PPE35 2169732 p.Asn294Ser missense_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.29
PPE35 2170053 p.Thr187Ser missense_variant 0.26
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289919 c.-678C>A upstream_gene_variant 0.13
eis 2715014 p.Arg107Cys missense_variant 0.12
fprA 3474795 c.789A>T synonymous_variant 0.11
fbiA 3640612 p.Gly24Ser missense_variant 0.11
alr 3841114 p.Asp103Asn missense_variant 0.12
clpC1 4040002 p.His235Asp missense_variant 0.11
embC 4240911 p.Ala350Gly missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244220 p.Leu330Met missense_variant 0.12
embA 4244823 p.Val531Leu missense_variant 0.13
embB 4246151 c.-363A>G upstream_gene_variant 0.11
embB 4246544 p.Thr11Pro missense_variant 0.31
embB 4246856 p.Phe115Leu missense_variant 0.11
embB 4249765 c.3252C>G synonymous_variant 0.17
aftB 4267908 p.Ala310Val missense_variant 0.25
aftB 4268799 p.Val13Ala missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0