TB-Profiler result

Run: ERR495191
Summary

Run ID: ERR495191

Sample name:

Date: 01-04-2023 21:41:36

Number of reads: 390659

Percentage reads mapped: 98.87

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 5520 p.Pro94Leu missense_variant 1.0
gyrB 5581 p.Tyr114* stop_gained 0.14
gyrB 6077 p.Gly280Cys missense_variant 0.17
gyrB 6226 p.Asn329Lys missense_variant 0.18
gyrB 6833 p.Asp532Asn missense_variant 0.18
gyrB 7001 p.Asp588Asn missense_variant 0.17
gyrB 7201 p.Glu654Asp missense_variant 0.4
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7832 c.531G>A synonymous_variant 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491463 c.681G>A synonymous_variant 0.25
rpoB 762082 p.Gly759Asp missense_variant 0.4
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777396 p.Ser362Asn missense_variant 0.2
mmpL5 777797 c.684G>T synonymous_variant 0.4
mmpL5 778907 c.-427C>T upstream_gene_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781544 c.-16G>A upstream_gene_variant 0.25
fbiC 1302945 c.15A>G synonymous_variant 0.29
fbiC 1305211 p.Pro761Thr missense_variant 0.2
atpE 1461263 c.219G>T synonymous_variant 0.25
atpE 1461289 c.245A>T stop_lost&splice_region_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471780 n.-66G>T upstream_gene_variant 0.2
rrs 1471787 n.-59T>A upstream_gene_variant 0.22
rrs 1471869 n.24G>A non_coding_transcript_exon_variant 0.25
rrs 1472186 n.341C>T non_coding_transcript_exon_variant 0.2
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1474662 n.1005C>A non_coding_transcript_exon_variant 0.22
inhA 1674690 c.489C>T synonymous_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918560 c.621G>A synonymous_variant 0.33
tlyA 1918737 c.798G>A synonymous_variant 0.22
ndh 2101830 p.Ile405Phe missense_variant 0.33
katG 2155557 c.555C>T synonymous_variant 0.2
PPE35 2168407 c.2206C>T synonymous_variant 0.4
PPE35 2169428 c.1185C>T synonymous_variant 0.29
Rv1979c 2221726 p.Thr480Ile missense_variant 0.29
Rv1979c 2223264 c.-100C>T upstream_gene_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290062 c.-821G>T upstream_gene_variant 0.25
pncA 2290107 c.-866T>A upstream_gene_variant 1.0
pncA 2290113 c.-872G>T upstream_gene_variant 0.29
pncA 2290130 c.-889C>T upstream_gene_variant 0.29
eis 2714611 p.Leu241Pro missense_variant 0.2
folC 2746213 c.1386G>A synonymous_variant 0.33
folC 2746471 c.1128C>A synonymous_variant 0.29
pepQ 2859806 p.His205Asn missense_variant 0.15
ribD 2987295 p.Arg153Cys missense_variant 0.25
thyA 3073806 c.666C>G synonymous_variant 0.5
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086867 c.48G>T synonymous_variant 0.33
ald 3087615 p.Asp266Asn missense_variant 0.25
ald 3087811 p.Ala331Val missense_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568712 c.-33C>T upstream_gene_variant 0.4
whiB7 3568817 c.-138C>A upstream_gene_variant 0.4
Rv3236c 3613104 p.Arg5Trp missense_variant 0.2
fbiA 3640358 c.-184_-182delCAA upstream_gene_variant 0.4
fbiA 3640364 c.-179_-178insT upstream_gene_variant 0.4
fbiA 3640930 p.Glu130* stop_gained 0.2
fbiB 3640986 c.-549C>T upstream_gene_variant 0.29
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246755 p.Ala81Asp missense_variant 0.67
embB 4247350 c.837C>A synonymous_variant 0.33
embB 4248978 p.Thr822Lys missense_variant 0.18
embB 4249184 p.Gly891Arg missense_variant 0.33
ubiA 4269631 p.Ala68Val missense_variant 0.22
ethA 4326121 c.1353G>A synonymous_variant 0.29
whiB6 4338365 p.Cys53Arg missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408012 p.Arg64Gln missense_variant 0.22
gid 4408156 p.Leu16Arg missense_variant 1.0