TB-Profiler result

Run: ERR2229445
Summary

Run ID: ERR2229445

Sample name:

Date: 31-03-2023 17:12:20

Number of reads: 1066044

Percentage reads mapped: 99.44

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
mshA 576108 p.Ala254Gly missense_variant 0.55
rpoC 765338 p.Gln657Lys missense_variant 0.13
rpoC 765610 p.Asp747Glu missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776745 p.Arg579Leu missense_variant 0.13
mmpL5 777164 c.1317C>T synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475083 n.1426C>A non_coding_transcript_exon_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.38
inhA 1674350 p.Ile50Thr missense_variant 0.29
rpsA 1833791 p.Asp84Tyr missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153891 c.2221T>G stop_lost&splice_region_variant 0.14
katG 2155141 p.Thr324Asn missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.17
PPE35 2169910 p.Asn235Tyr missense_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.32
PPE35 2170053 p.Thr187Ser missense_variant 0.3
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746488 p.Asp371Asn missense_variant 0.13
Rv2752c 3065749 p.His148Leu missense_variant 0.12
thyX 3067968 c.-23C>A upstream_gene_variant 0.13
whiB7 3568630 p.Val17Asp missense_variant 0.12
Rv3236c 3612401 p.Ser239* stop_gained 0.25
Rv3236c 3612468 p.Gln217Lys missense_variant 0.22
fbiA 3640848 p.Phe102Leu missense_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.17
clpC1 4038369 p.Arg779Leu missense_variant 0.12
panD 4044382 c.-101A>G upstream_gene_variant 0.12
embC 4241231 c.1369C>A synonymous_variant 0.12
embC 4242401 p.Arg847Ser missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244038 p.Ala269Asp missense_variant 0.15
embA 4244436 p.Leu402Ile missense_variant 0.13
embB 4246538 p.Lys9Gln missense_variant 0.33
embB 4248748 c.2235C>T synonymous_variant 0.15
aftB 4268136 p.Leu234Pro missense_variant 0.12
ubiA 4269041 p.Asp265Tyr missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0