TB-Profiler result

Run: ERR2514977
Summary

Run ID: ERR2514977

Sample name:

Date: 31-03-2023 20:40:41

Number of reads: 850779

Percentage reads mapped: 99.43

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765155 p.Thr596Ser missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.96
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475895 n.2238C>G non_coding_transcript_exon_variant 0.67
rrl 1475897 n.2240T>G non_coding_transcript_exon_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103221 c.-179C>T upstream_gene_variant 1.0
katG 2154491 p.Ala541Thr missense_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169044 c.1569G>C synonymous_variant 0.6
PPE35 2169047 p.Ile522Val missense_variant 0.6
PPE35 2169053 c.1560T>C synonymous_variant 1.0
PPE35 2169056 c.1557A>G synonymous_variant 0.6
PPE35 2169059 c.1554G>A synonymous_variant 0.4
PPE35 2169063 p.Met517Thr missense_variant 1.0
PPE35 2169065 p.Ala516Ile missense_variant 0.4
PPE35 2169068 c.1545G>T synonymous_variant 0.5
PPE35 2169071 c.1542A>G synonymous_variant 0.43
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2519128 c.1014G>C synonymous_variant 0.18
kasA 2519131 c.1017G>C synonymous_variant 0.18
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
Rv2752c 3064994 p.Trp400Arg missense_variant 0.11
Rv2752c 3065461 p.Arg244Gln missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475036 c.1031delT frameshift_variant 0.11
rpoA 3878397 c.111G>A synonymous_variant 0.12
clpC1 4039691 c.1014G>C synonymous_variant 0.13
panD 4044203 p.Thr27Ser missense_variant 0.1
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246553 c.43delG frameshift_variant 0.1
embB 4247512 c.999T>C synonymous_variant 0.12
embB 4247516 p.Asn335Asp missense_variant 0.13
embB 4249647 p.Arg1045Pro missense_variant 0.12
embB 4249718 p.Thr1069Ala missense_variant 0.13
aftB 4267972 p.Phe289Leu missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0