TB-Profiler result

Run: ERR2229644
Summary

Run ID: ERR2229644

Sample name:

Date: 31-03-2023 17:23:21

Number of reads: 1028166

Percentage reads mapped: 99.3

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 6343 c.-959G>A upstream_gene_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576317 p.Arg324Trp missense_variant 0.12
rpoB 759669 c.-138G>T upstream_gene_variant 0.14
rpoB 760809 p.Thr335Ala missense_variant 0.11
rpoC 766999 c.3630C>A synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778829 p.Gln26Leu missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800920 p.Arg38Ser missense_variant 0.16
fbiC 1303686 c.756C>A synonymous_variant 0.12
fbiC 1303708 p.Leu260Val missense_variant 0.11
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406723 p.Gln206His missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472220 n.375G>T non_coding_transcript_exon_variant 0.17
rrs 1472223 n.378C>T non_coding_transcript_exon_variant 0.14
rrl 1473566 n.-92G>T upstream_gene_variant 0.17
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474687 n.1030C>A non_coding_transcript_exon_variant 0.2
rrl 1475398 n.1741C>A non_coding_transcript_exon_variant 0.21
rrl 1475551 n.1894T>C non_coding_transcript_exon_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155007 p.Gly369Cys missense_variant 0.15
PPE35 2168108 c.2505C>A synonymous_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169482 c.1131G>C synonymous_variant 0.1
PPE35 2170048 p.Leu189Val missense_variant 0.17
PPE35 2170053 p.Thr187Ser missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290042 c.-801T>C upstream_gene_variant 0.12
folC 2746993 c.606C>T synonymous_variant 0.11
Rv2752c 3064579 p.Gly538Val missense_variant 0.12
thyA 3074324 p.Val50Phe missense_variant 0.14
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3236c 3612577 p.Glu180Asp missense_variant 0.29
alr 3840282 c.1138delG frameshift_variant 0.11
embC 4241746 c.1884C>T synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244968 p.Gly579Val missense_variant 0.12
embB 4246563 p.Leu17Trp missense_variant 0.12
embB 4246567 c.54G>T synonymous_variant 0.12
embB 4249726 c.3213C>A synonymous_variant 0.25
ethA 4327353 p.Met41Leu missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0