TB-Profiler result

Run: ERR2229173
Summary

Run ID: ERR2229173

Sample name:

Date: 31-03-2023 16:46:34

Number of reads: 1180226

Percentage reads mapped: 99.26

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 491201 p.Arg140Gln missense_variant 0.12
mshA 576756 p.Arg470Leu missense_variant 0.2
ccsA 620062 p.Ser58Arg missense_variant 0.15
rpoB 761208 p.Asp468Asn missense_variant 0.12
rpoB 761709 p.Val635Ile missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777353 c.1128G>T synonymous_variant 0.12
mmpL5 777399 p.Thr361Met missense_variant 0.15
mmpL5 779259 c.-779G>T upstream_gene_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304912 p.Leu661Arg missense_variant 0.15
embR 1416971 p.Ala126Val 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 1673380 c.-60C>G upstream_gene_variant 0.19
fabG1 1674013 p.Arg192Gly missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167865 c.2748G>C synonymous_variant 0.13
PPE35 2167868 c.2745A>C synonymous_variant 0.14
PPE35 2167965 p.Ala883Gly missense_variant 0.14
PPE35 2167967 c.2646A>C synonymous_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169287 c.1326T>C synonymous_variant 0.14
PPE35 2169956 c.657T>C synonymous_variant 0.12
PPE35 2169964 p.Leu217Val missense_variant 0.13
PPE35 2169974 c.639T>C synonymous_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.49
PPE35 2170053 p.Thr187Ser missense_variant 0.54
PPE35 2170308 p.Leu102Ala missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.24
kasA 2518609 p.Met165Ile missense_variant 0.25
folC 2746431 p.Ile390Phe missense_variant 0.29
pepQ 2859830 p.Gly197Arg missense_variant 0.13
pepQ 2860002 p.Glu139Asp missense_variant 0.12
pepQ 2860108 p.Val104Glu missense_variant 0.14
ald 3087337 p.Val173Glu missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3474506 p.Leu167His missense_variant 0.13
fbiA 3640562 p.Ala7Asp missense_variant 0.17
fbiB 3642263 c.729C>T synonymous_variant 0.2
alr 3840958 p.Thr155Pro missense_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.19
rpoA 3878061 c.447G>T synonymous_variant 0.15
clpC1 4038284 p.Trp807Cys missense_variant 0.14
clpC1 4039018 p.Ser563Ala missense_variant 0.12
clpC1 4039022 c.1683A>G synonymous_variant 0.12
panD 4044341 c.-61delT upstream_gene_variant 0.12
embC 4241236 c.1374C>T synonymous_variant 0.13
embC 4241689 c.1827G>C synonymous_variant 0.13
embC 4241710 c.1848G>A synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.29
embB 4246548 p.Pro12Gln missense_variant 0.38
embB 4246555 c.42G>C synonymous_variant 0.43
embB 4246556 p.Ala15Pro missense_variant 0.43
embB 4246563 p.Leu17Trp missense_variant 0.3
embB 4248645 p.Ala711Asp missense_variant 0.17
aftB 4268618 c.219G>T synonymous_variant 0.18
ubiA 4270024 c.-191T>A upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0