TB-Profiler result

Run: ERR4820387
Summary

Run ID: ERR4820387

Sample name:

Date: 01-04-2023 16:39:18

Number of reads: 392585

Percentage reads mapped: 99.17

Strain: lineage3

Drug-resistance: Other

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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
gid 4407618 p.Tyr195* stop_gained 1.0 streptomycin
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 7060 c.-242T>C upstream_gene_variant 0.25
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8223 p.Asp308His missense_variant 0.18
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
rpoB 763093 p.Val1096Ala missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 778429 p.His18Asn missense_variant 0.4
mmpS5 778770 p.Asp46Asn missense_variant 0.33
mmpR5 779339 p.Leu117Arg missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305199 p.Ala757Ser missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673534 p.Ala32Glu missense_variant 0.17
inhA 1674690 c.489C>A synonymous_variant 0.25
rpsA 1834062 p.Ile174Thr missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155005 c.1107C>G synonymous_variant 0.14
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169896 c.717C>T synonymous_variant 0.5
Rv1979c 2223157 p.Gly3Asp missense_variant 0.15
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
pncA 2289645 c.-405delA upstream_gene_variant 0.25
kasA 2519209 c.1095C>T synonymous_variant 0.2
kasA 2519258 p.Leu382Ile missense_variant 0.22
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
Rv2752c 3065301 c.891C>A synonymous_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449202 p.Phe233Leu missense_variant 0.14
fprA 3473899 c.-108C>A upstream_gene_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474447 c.441C>A synonymous_variant 0.25
whiB7 3568829 c.-150A>G upstream_gene_variant 0.22
Rv3236c 3612869 p.Ala83Val missense_variant 0.2
fbiA 3640373 c.-170C>A upstream_gene_variant 1.0
alr 3840444 p.Leu326Pro missense_variant 0.14
clpC1 4038964 p.Asp581Tyr missense_variant 0.22
clpC1 4039588 p.Ser373Thr missense_variant 0.29
embC 4242075 p.Arg738Gln missense_variant 1.0
embC 4242231 p.Ile790Thr missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4246363 p.Thr1044Lys missense_variant 0.15
ethR 4328159 p.Val204Ala missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0