TB-Profiler result

Run: ERR270658
Summary

Run ID: ERR270658

Sample name:

Date: 31-03-2023 23:07:25

Number of reads: 4029100

Percentage reads mapped: 99.27

Strain: lineage1.1.2

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
lineage1 Indo-Oceanic EAI RD239 0.99
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 0.98
lineage1.1.2 Indo-Oceanic EAI3;EAI5 RD239 0.99
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 6112 p.Met291Ile missense_variant 0.99
gyrB 6124 c.885C>T synonymous_variant 0.99
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 0.97
gyrA 9143 c.1842T>C synonymous_variant 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 0.97
rpoC 763886 c.517C>A synonymous_variant 0.97
rpoC 765171 p.Pro601Leu missense_variant 0.99
rpoC 767160 p.Ile1264Thr missense_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 0.96
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.99
fbiC 1304159 p.Val410Gly missense_variant 0.27
Rv1258c 1406894 c.447C>T synonymous_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 0.99
kasA 2518535 p.Ala141Thr missense_variant 0.97
ahpC 2726051 c.-142G>A upstream_gene_variant 0.98
folC 2746816 c.783C>A synonymous_variant 0.96
Rv2752c 3064632 c.1560C>T synonymous_variant 0.97
thyA 3073806 c.666C>G synonymous_variant 0.26
ald 3086788 c.-32T>C upstream_gene_variant 0.99
Rv3083 3448714 p.Asp71His missense_variant 0.99
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.99
fprA 3474597 c.591C>A synonymous_variant 0.99
fprA 3475159 p.Asn385Asp missense_variant 0.99
alr 3840738 p.Arg228Gln missense_variant 0.99
clpC1 4038857 c.1848C>A synonymous_variant 0.36
clpC1 4040517 p.Val63Ala missense_variant 0.96
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 0.93
embC 4242422 p.Trp854Gly missense_variant 0.29
embC 4242425 p.Arg855Gly missense_variant 0.31
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 0.96
ubiA 4269387 p.Glu149Asp missense_variant 0.97
aftB 4269606 c.-770T>C upstream_gene_variant 0.99
ethA 4327836 c.-363G>A upstream_gene_variant 0.98
whiB6 4338441 p.Tyr27* stop_gained 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.98
gid 4407868 p.Val112Gly missense_variant 0.99
gid 4407873 c.330G>T synonymous_variant 0.99