TB-Profiler result

Run: ERR2512500
Summary

Run ID: ERR2512500

Sample name:

Date: 31-03-2023 19:04:32

Number of reads: 490629

Percentage reads mapped: 79.12

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
gyrB 5249 p.Gln4* stop_gained 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7961 p.Met220Ile missense_variant 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620258 p.Ile123Asn missense_variant 0.12
ccsA 620557 p.Gln223Glu missense_variant 0.17
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 759901 p.Arg32Leu missense_variant 0.29
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoB 762757 p.Ser984Leu missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763182 p.Cys1126Arg missense_variant 0.13
rpoC 763790 p.Glu141Lys missense_variant 0.14
rpoC 764868 p.Arg500His missense_variant 0.17
rpoC 766284 p.Thr972Ile missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776284 p.Ala733Pro missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304479 p.Leu517Ile missense_variant 0.11
Rv1258c 1407528 c.-188C>T upstream_gene_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102371 p.Met224Ile missense_variant 0.2
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169342 p.Ile424Arg missense_variant 0.2
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
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841473 c.-53G>A upstream_gene_variant 1.0
clpC1 4039871 c.834C>T synonymous_variant 0.33
clpC1 4040412 p.Leu98Pro missense_variant 0.2
embC 4241813 p.Ser651Pro missense_variant 0.22
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244838 p.Leu536Met missense_variant 0.25
embB 4246521 p.Gln3Pro missense_variant 0.15
embB 4248041 p.Ala510Thr missense_variant 0.12
ubiA 4268971 p.Ala288Val missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0