TB-Profiler result

Run: ERR2229482
Summary

Run ID: ERR2229482

Sample name:

Date: 31-03-2023 17:14:18

Number of reads: 549398

Percentage reads mapped: 99.37

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 759625 c.-182C>A upstream_gene_variant 0.2
rpoB 761152 p.Leu449Gln missense_variant 0.33
mmpL5 776195 c.2286G>C synonymous_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781716 c.160dupC frameshift_variant 0.2
rplC 800922 c.114C>T synonymous_variant 0.13
fbiC 1303402 p.Ala158Ser missense_variant 0.14
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1416853 c.495G>A synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474417 n.760A>C non_coding_transcript_exon_variant 0.12
rrl 1476196 n.2540delT non_coding_transcript_exon_variant 0.2
fabG1 1673380 c.-60C>G upstream_gene_variant 0.4
fabG1 1673933 p.Arg165Leu missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155330 p.Glu261Gly missense_variant 0.14
katG 2156257 c.-146T>C upstream_gene_variant 0.18
PPE35 2167745 p.Thr956Arg missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169488 c.1125G>C synonymous_variant 0.12
PPE35 2169491 c.1122T>C synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.92
PPE35 2170053 p.Thr187Ser missense_variant 0.92
PPE35 2170229 c.384A>G synonymous_variant 0.27
PPE35 2170232 c.381T>A synonymous_variant 0.27
PPE35 2170238 c.375T>G synonymous_variant 0.29
PPE35 2170247 p.Ile122Met missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289694 c.-453G>T upstream_gene_variant 0.15
kasA 2518606 c.492G>C synonymous_variant 0.17
ahpC 2726371 c.180dupG frameshift_variant 0.2
ahpC 2726702 c.510C>A synonymous_variant 0.14
thyA 3074645 c.-174T>G upstream_gene_variant 0.27
fprA 3474162 c.156G>T synonymous_variant 0.15
fbiA 3640880 p.Leu113Arg missense_variant 0.2
fbiA 3640888 c.349delC frameshift_variant 0.17
rpoA 3877985 p.Thr175Ala missense_variant 0.11
rpoA 3878000 p.Pro170Ser missense_variant 0.12
clpC1 4039031 c.1674T>C synonymous_variant 0.12
clpC1 4039042 p.Ser555Thr missense_variant 0.14
clpC1 4039525 p.Phe394Leu missense_variant 0.29
clpC1 4039829 p.Leu292Ile missense_variant 0.27
embC 4240777 c.915G>A synonymous_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243069 p.Asp1069Glu missense_variant 0.17
embA 4244366 c.1134C>A synonymous_variant 0.5
embB 4246544 p.Thr11Pro missense_variant 0.24
embB 4246548 p.Pro12Gln missense_variant 0.21
embB 4246555 c.42G>C synonymous_variant 0.24
embB 4246556 p.Ala15Pro missense_variant 0.24
embB 4246563 p.Leu17Trp missense_variant 0.19
embB 4246567 c.54G>T synonymous_variant 0.18
embB 4248573 p.His687Pro missense_variant 0.22
embB 4249323 p.Ala937Glu missense_variant 0.29
aftB 4268044 p.Ala265Thr missense_variant 0.2
aftB 4268119 p.Ala240Ser missense_variant 0.18
ethA 4326229 p.Asp415Glu missense_variant 0.17
ethA 4326966 p.Asp170Tyr missense_variant 0.12
ethA 4327074 p.Leu134Val missense_variant 0.12
whiB6 4338275 p.Glu83* stop_gained 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0