TB-Profiler result

Run: ERR2229135
Summary

Run ID: ERR2229135

Sample name:

Date: 31-03-2023 16:43:43

Number of reads: 791724

Percentage reads mapped: 99.08

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
gyrA 9724 p.Glu808Gly missense_variant 0.11
fgd1 491590 p.Lys270* stop_gained 0.12
fgd1 491657 p.Glu292Val missense_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.3
rpoC 763816 c.447C>A synonymous_variant 0.22
rpoC 764229 p.Gln287Arg missense_variant 0.33
rpoC 765693 p.Val775Ala missense_variant 0.11
rpoC 767194 c.3825C>T synonymous_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775715 c.2766G>A synonymous_variant 0.13
mmpL5 775718 c.2763C>G synonymous_variant 0.13
mmpL5 775727 c.2754C>G synonymous_variant 0.13
mmpL5 775981 p.Leu834Met missense_variant 0.29
mmpL5 775987 p.His832Tyr missense_variant 0.25
mmpL5 775990 c.2491C>T synonymous_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303144 p.Ser72Pro missense_variant 0.12
fbiC 1303155 c.225G>A synonymous_variant 0.11
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303933 p.Pro335Thr missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473797 n.140G>C non_coding_transcript_exon_variant 0.33
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475831 n.2174A>T non_coding_transcript_exon_variant 0.18
fabG1 1673380 c.-60C>G upstream_gene_variant 0.22
inhA 1674213 c.12G>T synonymous_variant 0.13
rpsA 1834349 p.Glu270Lys missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154667 p.Ser482* stop_gained 0.2
katG 2155872 c.240C>T synonymous_variant 0.15
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.17
PPE35 2169272 c.1341C>G synonymous_variant 0.17
PPE35 2169278 c.1335T>C synonymous_variant 0.15
PPE35 2169281 c.1332T>G synonymous_variant 0.17
PPE35 2169602 c.1011C>A synonymous_variant 0.19
PPE35 2170048 p.Leu189Val missense_variant 0.23
PPE35 2170053 p.Thr187Ser missense_variant 0.25
PPE35 2170147 p.Ser156Ala missense_variant 0.12
PPE35 2170159 p.Ala152Ser missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289614 c.-374delT upstream_gene_variant 0.12
pncA 2289798 c.-557G>T upstream_gene_variant 0.15
kasA 2518453 c.339C>T synonymous_variant 0.12
kasA 2518864 c.750G>C synonymous_variant 0.13
kasA 2519153 p.Ile347Val missense_variant 0.18
eis 2714245 p.Ala363Gly missense_variant 0.15
eis 2714846 p.Val163Phe missense_variant 0.12
pepQ 2859481 p.Ala313Asp missense_variant 0.17
pepQ 2860357 p.Ala21Val missense_variant 0.12
pepQ 2860516 c.-99delC upstream_gene_variant 0.15
ribD 2987029 p.Gly64Val missense_variant 0.22
fprA 3474699 c.693C>T synonymous_variant 0.14
fbiA 3640856 p.Gly105Val missense_variant 0.15
fbiA 3641423 p.Asp294Val missense_variant 0.14
fbiB 3642444 p.Ala304Ser missense_variant 0.17
fbiB 3642754 p.Leu407Pro missense_variant 0.17
alr 3840604 p.Pro273Ser missense_variant 0.18
alr 3840905 p.Phe172Leu missense_variant 0.13
alr 3841019 c.402G>A synonymous_variant 0.12
clpC1 4038425 c.2280C>T synonymous_variant 0.2
clpC1 4039645 p.His354Asp missense_variant 0.14
clpC1 4039654 p.Thr351Ser missense_variant 0.14
clpC1 4039714 p.Tyr331His missense_variant 0.11
clpC1 4040144 c.561G>C synonymous_variant 0.14
embC 4242074 c.2212C>A synonymous_variant 0.15
embC 4242590 p.His910Tyr missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242866 p.Gly1002Ser missense_variant 0.15
embA 4245663 p.Gly811Ser missense_variant 0.2
embB 4246544 p.Thr11Pro missense_variant 0.6
embB 4246548 p.Pro12Gln missense_variant 0.33
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246881 p.Val123Gly missense_variant 0.15
embB 4247512 c.999T>C synonymous_variant 0.12
embB 4247516 p.Asn335Asp missense_variant 0.12
ethA 4326422 p.Gly351Glu missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1407del transcript_ablation 1.0