TB-Profiler result

Run: ERR4821349

Summary

Run ID: ERR4821349

Sample name:

Date: 01-04-2023 17:12:15

Number of reads: 1176224

Percentage reads mapped: 99.44

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 6684 c.1446delC frameshift_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8736 p.Val479Leu missense_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576306 p.Gly320Val missense_variant 0.12
ccsA 620022 c.132C>A synonymous_variant 0.14
ccsA 620097 p.His69Gln missense_variant 0.13
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761365 p.Asp520Gly missense_variant 0.11
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766582 c.3213C>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406186 c.1155G>A synonymous_variant 0.13
Rv1258c 1407058 p.Gly95Arg missense_variant 0.12
Rv1258c 1407271 p.Gly24Cys missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475089 n.1432A>G non_coding_transcript_exon_variant 0.25
inhA 1674794 p.Ala198Val missense_variant 0.12
tlyA 1917901 c.-39T>A upstream_gene_variant 0.18
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 2170370 c.243C>G synonymous_variant 0.1
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 2518069 c.-46C>A upstream_gene_variant 0.12
kasA 2518569 p.Ala152Gly missense_variant 0.12
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
thyX 3068135 c.-190G>T upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339576 c.459G>A synonymous_variant 0.13
fbiD 3339629 p.Arg171His missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612005 p.Arg371His missense_variant 0.18
fbiB 3642560 c.1026T>C synonymous_variant 0.12
alr 3841473 c.-53G>A upstream_gene_variant 1.0
embC 4240471 p.Asp203Glu missense_variant 0.11
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243700 c.468C>T synonymous_variant 0.14
embA 4244148 p.Trp306Arg missense_variant 0.12
embA 4245249 p.His673Asn missense_variant 0.12
embA 4246090 p.Trp953Ser missense_variant 0.1
embB 4246943 p.Gln144Lys missense_variant 0.17
embB 4248631 c.2118G>A synonymous_variant 0.14
embB 4249654 p.His1047Gln missense_variant 0.12
ethR 4328000 p.Ala151Asp missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0