TB-Profiler result

Run: ERR2229082
Summary

Run ID: ERR2229082

Sample name:

Date: 31-03-2023 16:36:35

Number of reads: 473558

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
gyrA 9380 p.Met693Ile missense_variant 0.2
mshA 576108 p.Ala254Gly missense_variant 0.29
rpoB 760185 p.Leu127Met missense_variant 0.12
rpoC 764541 p.Val391Gly missense_variant 0.22
rpoC 764543 p.Thr392Asp missense_variant 0.22
rpoC 764870 p.Ala501Thr missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777553 p.Val310Leu missense_variant 0.2
mmpR5 779480 p.Asp164Ala missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406903 c.438C>T synonymous_variant 0.22
Rv1258c 1407401 c.-61G>T upstream_gene_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
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.25
fabG1 1673346 c.-94C>G upstream_gene_variant 0.12
fabG1 1673357 c.-83G>A upstream_gene_variant 0.18
fabG1 1673359 c.-81T>C upstream_gene_variant 0.19
fabG1 1673361 c.-79C>G upstream_gene_variant 0.19
fabG1 1673380 c.-60C>G upstream_gene_variant 0.38
inhA 1673487 c.-715T>A upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.15
PPE35 2167877 c.2736C>T synonymous_variant 0.22
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168739 p.Phe625Ser missense_variant 0.14
PPE35 2168912 c.1701G>T synonymous_variant 0.12
PPE35 2169269 c.1344A>G synonymous_variant 0.38
PPE35 2169272 c.1341C>G synonymous_variant 0.38
PPE35 2169278 c.1335T>C synonymous_variant 0.43
PPE35 2169281 c.1332T>G synonymous_variant 0.5
PPE35 2169308 c.1305C>T synonymous_variant 0.17
PPE35 2169910 p.Asn235Tyr missense_variant 0.19
PPE35 2170048 p.Leu189Val missense_variant 0.19
PPE35 2170053 p.Thr187Ser missense_variant 0.2
Rv1979c 2222560 p.Ala202Glu missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288908 p.Asn112Asp missense_variant 0.17
kasA 2518864 c.750G>C synonymous_variant 0.2
pepQ 2859453 c.966G>A synonymous_variant 0.25
pepQ 2859816 c.603G>A synonymous_variant 0.29
ribD 2987432 p.Leu198Phe missense_variant 0.5
thyX 3067340 c.606G>A synonymous_variant 0.33
ald 3086834 p.Ile5Met missense_variant 0.11
ald 3087814 p.Ala332Gly missense_variant 0.15
fbiB 3642353 c.819C>A synonymous_variant 0.33
fbiB 3642453 p.Ala307Ser missense_variant 0.22
alr 3841546 c.-126C>A upstream_gene_variant 0.19
clpC1 4038897 p.Gly603Val missense_variant 0.13
clpC1 4039730 c.975C>G synonymous_variant 0.16
clpC1 4039837 p.His290Tyr missense_variant 0.17
panD 4043893 p.Glu130Val missense_variant 0.18
embC 4240320 p.Gln153Leu missense_variant 0.12
embC 4241164 c.1302G>A synonymous_variant 0.25
embC 4241923 c.2061G>T synonymous_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243294 p.Gly21Glu missense_variant 0.18
embB 4247436 p.Arg308Leu missense_variant 0.18
embB 4249176 p.Val888Ala missense_variant 0.33
whiB6 4338261 c.261G>C synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0