TB-Profiler result

Run: ERR2229407
Summary

Run ID: ERR2229407

Sample name:

Date: 31-03-2023 17:09:49

Number of reads: 262219

Percentage reads mapped: 99.41

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 6630 p.Gly464Val missense_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 490721 c.-62C>T upstream_gene_variant 0.25
mshA 576532 c.1185C>G synonymous_variant 0.4
rpoB 761591 c.1785C>T synonymous_variant 0.25
rpoC 764619 p.Leu417Arg missense_variant 0.67
rpoC 764806 p.Gln479His missense_variant 0.18
rpoC 767010 p.Ser1214* stop_gained 0.67
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776049 p.Ser811* stop_gained 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781404 c.-156G>T upstream_gene_variant 0.25
rpsL 781563 p.Pro2Ser missense_variant 0.12
fbiC 1303326 c.396C>T synonymous_variant 0.33
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305445 p.Gly839Cys missense_variant 0.22
atpE 1461162 p.Ala40Ser missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474878 n.1221C>A non_coding_transcript_exon_variant 0.5
rrl 1475359 n.1702G>T non_coding_transcript_exon_variant 0.4
fabG1 1673380 c.-60C>G upstream_gene_variant 0.38
rpsA 1834161 p.Gln207Arg missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1917980 p.Arg14Gln missense_variant 0.4
PPE35 2167678 p.Gly979Cys missense_variant 0.15
PPE35 2167865 c.2748G>C synonymous_variant 0.22
PPE35 2167868 c.2745A>C synonymous_variant 0.2
PPE35 2168051 c.2562G>A synonymous_variant 0.5
PPE35 2168487 p.Ile709Asn missense_variant 0.2
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.43
PPE35 2170053 p.Thr187Ser missense_variant 0.43
PPE35 2170232 c.381T>C synonymous_variant 0.14
PPE35 2170235 c.378T>C synonymous_variant 0.14
PPE35 2170238 c.375T>G synonymous_variant 0.14
PPE35 2170244 c.369G>A synonymous_variant 0.15
Rv1979c 2222316 c.849C>A synonymous_variant 0.2
Rv1979c 2222388 c.777G>T synonymous_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288860 p.Val128Phe missense_variant 0.12
eis 2714149 p.Pro395His missense_variant 0.29
pepQ 2860131 c.288C>G synonymous_variant 0.33
thyX 3067695 p.Gly84Glu missense_variant 0.22
fbiA 3640623 p.Gln27His missense_variant 0.33
fbiB 3641567 c.33C>A synonymous_variant 0.15
clpC1 4038709 p.Ser666Pro missense_variant 0.33
clpC1 4040241 p.Thr155Phe missense_variant 0.29
clpC1 4040249 p.Glu152Gly missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243284 p.Val18Phe missense_variant 0.18
embB 4248219 p.Gly569Glu missense_variant 0.22
embB 4248639 p.Ile709Ser missense_variant 0.29
embB 4248812 p.Leu767Met missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0