TB-Profiler result

Run: ERR2515800
Summary

Run ID: ERR2515800

Sample name:

Date: 31-03-2023 21:07:30

Number of reads: 414047

Percentage reads mapped: 99.6

Strain: lineage4.3.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5100 c.-140T>C upstream_gene_variant 1.0
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrA 6583 c.-719G>T upstream_gene_variant 0.1
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 9304 p.Gly668Asp missense_variant 1.0
ccsA 619730 c.-161A>G upstream_gene_variant 0.12
ccsA 620825 c.937delG frameshift_variant 0.12
rpoB 760819 p.Tyr338Ser missense_variant 0.1
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765950 p.Ala861Thr missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776579 c.1902G>T synonymous_variant 0.15
mmpL5 776890 p.Ser531Pro missense_variant 0.11
mmpL5 777332 c.1149G>T synonymous_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416885 p.Asp155His missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1475218 n.1561C>G non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518830 p.Phe239Tyr missense_variant 0.22
pepQ 2859488 p.Thr311Ser missense_variant 0.14
ribD 2987260 p.Leu141Ser missense_variant 0.15
Rv2752c 3064574 p.Trp540Gly missense_variant 0.12
thyX 3067605 p.Ser114Leu missense_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448956 c.453G>T synonymous_variant 0.18
fprA 3473819 c.-188A>T upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642331 p.Phe266Ser missense_variant 0.14
rpoA 3878157 c.351C>A synonymous_variant 0.13
rpoA 3878324 p.Glu62* stop_gained 0.17
ddn 3986815 c.-29G>A upstream_gene_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242319 c.-914A>G upstream_gene_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243171 c.-62C>T upstream_gene_variant 0.13
embA 4243757 c.525C>A synonymous_variant 0.11
embA 4245074 c.1842G>A synonymous_variant 0.13
embB 4247461 p.Met316Ile missense_variant 0.12
embB 4247777 p.Ser422Pro missense_variant 0.12
embB 4248239 p.Gly576Arg missense_variant 0.12
aftB 4268067 p.Val257Ala missense_variant 0.18
aftB 4268487 p.Met117Thr missense_variant 0.4
ethA 4328070 c.-597C>T upstream_gene_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0