TB-Profiler result

Run: ERR2179786
Summary

Run ID: ERR2179786

Sample name:

Date: 15-08-2022 11:58:26

Number of reads: 2708137

Percentage reads mapped: 87.8

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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 0.95
gyrA 8472 c.1171C>T synonymous_variant 0.96
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491358 p.Phe192Leu missense_variant 0.12
ccsA 620029 c.139C>T synonymous_variant 0.93
rpoC 764751 p.Val461Ala missense_variant 0.1
rpoC 765295 c.1926G>T synonymous_variant 0.15
rpoC 765866 p.Pro833Thr missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777219 p.Leu421Pro missense_variant 0.17
mmpL5 779280 c.-800G>A upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303933 p.Pro335Ser missense_variant 0.14
fbiC 1304399 p.Arg490His missense_variant 0.12
Rv1258c 1406101 p.Pro414Ser missense_variant 0.88
Rv1258c 1406931 p.Trp137* stop_gained 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472163 n.318G>T non_coding_transcript_exon_variant 0.12
rrl 1474236 n.579G>T non_coding_transcript_exon_variant 0.2
rrl 1475008 n.1351C>T non_coding_transcript_exon_variant 0.18
rrl 1475216 n.1559A>G non_coding_transcript_exon_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918684 c.745C>A synonymous_variant 0.16
ndh 2102925 p.Ile40Val missense_variant 0.88
PPE35 2170568 p.Ile15Met missense_variant 0.94
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747185 c.414G>A synonymous_variant 0.13
folC 2747387 p.Gly71Ala missense_variant 0.11
pepQ 2859561 p.Tyr286* stop_gained 0.12
pepQ 2859636 c.783G>A synonymous_variant 0.14
pepQ 2859725 c.693_694insA frameshift_variant 0.12
ribD 2986700 c.-139C>G upstream_gene_variant 0.69
ribD 2987570 c.732C>A synonymous_variant 0.13
Rv2752c 3066280 c.-89C>T upstream_gene_variant 0.12
thyX 3067364 p.His194Gln missense_variant 0.15
thyX 3067601 c.345G>C synonymous_variant 0.11
thyX 3067661 c.285C>G synonymous_variant 0.1
thyX 3067691 p.Ile85Met missense_variant 0.1
thyX 3067763 c.183C>T synonymous_variant 0.95
fbiD 3339672 c.555G>A synonymous_variant 0.15
Rv3083 3448667 p.Ser55Leu missense_variant 0.96
fprA 3473838 c.-169G>A upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640903 p.Ala121Thr missense_variant 0.12
fbiB 3641178 c.-357G>A upstream_gene_variant 0.18
fbiB 3642435 p.Gln301Lys missense_variant 0.14
rpoA 3877651 p.Ile286Thr missense_variant 0.11
rpoA 3878575 c.-68C>T upstream_gene_variant 0.94
clpC1 4038318 p.Pro796Leu missense_variant 0.8
clpC1 4040208 p.Ser166Tyr missense_variant 0.13
embC 4240498 c.636G>A synonymous_variant 0.13
embA 4245584 p.Asp784Glu missense_variant 0.17
embA 4245879 p.Asp883Asn missense_variant 0.12
embB 4245935 c.-579G>T upstream_gene_variant 0.12
embA 4245946 p.Ile905Thr missense_variant 0.12
embB 4249220 p.Ala903Thr missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338699 c.-179delT upstream_gene_variant 1.0