TB-Profiler result

Run: ERR11067304
Summary

Run ID: ERR11067304

Sample name:

Date: 04-04-2023 14:02:02

Number of reads: 567431

Percentage reads mapped: 99.64

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 9050 c.1751delT frameshift_variant 0.17
gyrA 9765 p.Ser822Cys missense_variant 0.4
mshA 575559 p.Tyr71Cys missense_variant 0.12
mshA 576113 p.Arg256Gly missense_variant 0.33
mshA 576242 p.Gly299Ser missense_variant 0.14
mshA 576626 p.Thr427Pro missense_variant 0.4
ccsA 620117 p.Val76Gly missense_variant 0.27
rpoB 762555 p.Pro917Ser missense_variant 0.13
rpoC 764912 p.Met515Val missense_variant 0.11
rpoC 764941 c.1572G>A synonymous_variant 0.12
rpoC 765463 c.2094C>T synonymous_variant 0.2
rpoC 765875 p.Val836Ile missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 779520 c.-615C>T upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304425 p.Leu499Met missense_variant 0.11
Rv1258c 1407050 c.291C>T synonymous_variant 0.22
embR 1416227 p.His374Pro missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917915 c.-25T>G upstream_gene_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102975 p.Gly23Glu missense_variant 0.17
katG 2154396 c.1716G>A synonymous_variant 0.11
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518905 p.Arg264Gln missense_variant 0.11
eis 2714327 c.1005delC frameshift_variant 0.29
ribD 2986721 c.-118G>A upstream_gene_variant 0.11
Rv2752c 3065381 p.Arg271Cys missense_variant 0.29
Rv3083 3448322 c.-182G>A upstream_gene_variant 1.0
fprA 3474986 p.Val327Gly missense_variant 0.2
fbiB 3640791 c.-744C>T upstream_gene_variant 0.15
embC 4241238 p.Ile459Asn missense_variant 0.2
embC 4241651 p.Ala597Thr missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245583 p.Asp784Gly missense_variant 0.25
embB 4248328 c.1815G>C synonymous_variant 0.17
aftB 4268799 p.Val13Asp missense_variant 0.14
ethR 4327453 c.-96A>T upstream_gene_variant 0.12
ethR 4327840 p.Asp98Asn missense_variant 0.12
ethA 4328294 c.-821C>T upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407643 p.Arg187Lys missense_variant 0.17
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0