TB-Profiler result

Run: ERR2229620
Summary

Run ID: ERR2229620

Sample name:

Date: 31-03-2023 17:21:51

Number of reads: 1091209

Percentage reads mapped: 99.02

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 491295 c.513C>T synonymous_variant 0.13
mshA 576457 c.1110G>T synonymous_variant 0.13
mshA 576471 p.Gly375Val missense_variant 0.13
rpoC 765719 p.Glu784* stop_gained 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775851 p.Ser877Thr missense_variant 0.2
mmpL5 775857 p.Gly875Ala missense_variant 0.13
mmpL5 775862 c.2619G>C synonymous_variant 0.13
mmpL5 775871 c.2610C>T synonymous_variant 0.12
mmpL5 776150 p.Met777Ile missense_variant 0.14
mmpL5 777157 c.1324C>A synonymous_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304200 p.Leu424Met missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.27
inhA 1674532 p.Ala111Ser missense_variant 0.17
inhA 1674823 p.Gly208Ser missense_variant 0.13
rpsA 1834079 p.Arg180Cys missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168278 p.Ile779Phe missense_variant 0.17
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169287 c.1326T>C synonymous_variant 0.12
PPE35 2169725 c.888T>C synonymous_variant 0.13
PPE35 2169879 p.Phe245Ser missense_variant 0.14
PPE35 2169882 p.Ser244Asn missense_variant 0.14
PPE35 2169890 c.723C>T synonymous_variant 0.26
PPE35 2169893 c.720C>A synonymous_variant 0.26
PPE35 2169902 p.Leu237Phe missense_variant 0.22
PPE35 2170035 p.Val193Ala missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.36
PPE35 2170053 p.Thr187Ser missense_variant 0.33
PPE35 2170159 p.Ala152Ser missense_variant 0.17
PPE35 2170392 p.Gly74Ala missense_variant 0.12
PPE35 2170545 p.Pro23Leu missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518451 p.Gly113Ser missense_variant 0.12
kasA 2518606 c.492G>C synonymous_variant 0.31
kasA 2518609 p.Met165Ile missense_variant 0.27
kasA 2519153 p.Ile347Val missense_variant 0.13
eis 2714857 p.Gly159Val missense_variant 0.17
pepQ 2860612 c.-194A>G upstream_gene_variant 0.17
ribD 2987145 p.Arg103Ser missense_variant 0.14
Rv2752c 3065557 p.Gly212Val missense_variant 0.15
Rv2752c 3065605 p.Val196Ala missense_variant 0.13
fbiD 3339609 c.492G>C synonymous_variant 0.11
fprA 3474123 c.117G>T synonymous_variant 0.15
fprA 3474393 c.387C>A synonymous_variant 0.12
fprA 3474689 p.Ala228Glu missense_variant 0.14
Rv3236c 3612849 p.Leu90Met missense_variant 0.25
Rv3236c 3613025 p.Ser31Leu missense_variant 0.15
fbiA 3640957 p.Gly139Cys missense_variant 0.12
fbiB 3641970 p.Val146Met missense_variant 0.12
fbiB 3642418 p.Thr295Asn missense_variant 0.12
alr 3840464 p.Phe319Leu missense_variant 0.18
clpC1 4038638 p.Asp689Gly missense_variant 0.12
clpC1 4039730 c.975C>G synonymous_variant 0.18
embC 4240758 p.Thr299Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244946 p.Val572Leu missense_variant 0.15
embB 4246544 p.Thr11Pro missense_variant 0.33
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.25
embB 4246556 p.Ala15Pro missense_variant 0.25
embB 4246563 p.Leu17Trp missense_variant 0.25
embB 4246567 c.54G>T synonymous_variant 0.29
aftB 4266983 c.1854C>T synonymous_variant 0.18
aftB 4267011 p.Glu609Gly missense_variant 0.14
ethA 4327541 c.-68G>A upstream_gene_variant 0.13
whiB6 4338261 c.261G>C synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448499 c.-4_*1408del transcript_ablation 1.0