TB-Profiler result

Run: ERR2229743
Summary

Run ID: ERR2229743

Sample name:

Date: 31-03-2023 17:32:14

Number of reads: 755627

Percentage reads mapped: 99.51

Strain: lineage4

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
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
gyrB 6927 p.Leu563Trp missense_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9187 p.Asn629Ser missense_variant 0.12
gyrA 9298 p.Ser666* stop_gained 0.13
ccsA 620636 p.Ile249Thr missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778418 c.-572T>A upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781816 p.Arg86Leu missense_variant 0.12
rplC 800821 p.Gly5Cys missense_variant 0.22
rplC 801128 p.Ala107Asp missense_variant 0.2
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303857 c.927C>T synonymous_variant 0.2
fbiC 1304159 p.Val410Gly missense_variant 0.3
fbiC 1304166 c.1236A>G synonymous_variant 0.4
Rv1258c 1407235 c.104_105delTG frameshift_variant 0.19
Rv1258c 1407243 p.Leu33Gln missense_variant 0.16
embR 1417151 p.Ser66Leu missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473460 n.-198G>T upstream_gene_variant 0.2
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673349 c.-91G>C upstream_gene_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.19
fabG1 1673439 c.-1G>T upstream_gene_variant 0.12
inhA 1674670 p.Ala157Ser missense_variant 0.12
rpsA 1834099 c.558C>T synonymous_variant 0.17
rpsA 1834317 p.Thr259Ile missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.18
PPE35 2167967 c.2646A>C synonymous_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169725 c.888T>C synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.73
PPE35 2170053 p.Thr187Ser missense_variant 0.73
PPE35 2170189 p.Glu142Gln missense_variant 0.13
PPE35 2170190 c.423G>A synonymous_variant 0.13
PPE35 2170363 p.Glu84Gln missense_variant 0.22
PPE35 2170370 p.Thr81Ala missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518878 p.Lys255Arg missense_variant 0.11
kasA 2519140 c.1026G>C synonymous_variant 0.25
kasA 2519143 c.1029G>C synonymous_variant 0.25
eis 2715484 c.-152G>C upstream_gene_variant 0.15
ahpC 2726267 c.75G>A synonymous_variant 0.18
Rv3236c 3611995 c.1122C>A synonymous_variant 0.14
clpC1 4038492 p.Val738Ala missense_variant 0.18
clpC1 4039829 p.Leu292Ile missense_variant 0.18
embC 4240655 p.Ala265Pro missense_variant 0.33
embC 4241053 c.1191G>T synonymous_variant 0.15
embC 4242575 p.Gln905* stop_gained 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243360 p.Ile43Thr missense_variant 0.15
embA 4243880 c.648A>G synonymous_variant 0.18
embB 4246544 p.Thr11Pro missense_variant 0.19
embB 4246548 p.Pro12Gln missense_variant 0.14
embB 4246555 c.42G>C synonymous_variant 0.14
embB 4246556 p.Ala15Pro missense_variant 0.14
embB 4246747 p.Asp78Glu missense_variant 0.17
aftB 4268682 p.Gly52Asp missense_variant 0.2
ubiA 4269299 p.Ile179Val missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0