TB-Profiler result

Run: SRR6046076
Summary

Run ID: SRR6046076

Sample name:

Date: 04-04-2023 12:10:40

Number of reads: 821495

Percentage reads mapped: 99.37

Strain: lineage3

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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
ethA 4327411 p.Trp21* stop_gained 0.11 ethionamide
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 8337 p.Leu346Val missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576053 p.Asp236Tyr missense_variant 0.2
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 764017 c.648G>A synonymous_variant 0.11
rpoC 767166 p.Arg1266Leu missense_variant 0.17
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
fbiC 1303683 c.753G>A synonymous_variant 0.17
Rv1258c 1406620 p.Pro241Ser missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471914 n.69A>G non_coding_transcript_exon_variant 0.33
rrl 1473471 n.-187C>T upstream_gene_variant 0.12
inhA 1673541 c.-661G>T upstream_gene_variant 0.11
rpsA 1834921 c.1380G>T synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155324 p.Ala263Glu missense_variant 0.14
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168991 p.Ala541Asp missense_variant 0.13
PPE35 2170540 c.73C>T synonymous_variant 0.11
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 2518818 p.Asp235Gly missense_variant 0.13
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2747725 c.-127C>A upstream_gene_variant 0.11
pepQ 2860251 c.168C>T synonymous_variant 0.14
thyX 3067526 c.420C>G synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339254 p.Thr46Met missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474358 p.Asp118Asn missense_variant 0.12
fprA 3474797 p.His264Arg missense_variant 0.11
alr 3840891 p.Thr177Asn missense_variant 0.11
alr 3840894 p.Leu176Pro missense_variant 0.11
alr 3841473 c.-53G>A upstream_gene_variant 1.0
embC 4240088 p.Gly76Ser missense_variant 0.12
embC 4240479 p.Gly206Glu missense_variant 0.11
embC 4240627 p.Asp255Glu missense_variant 0.12
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242959 p.Leu1033Met missense_variant 0.17
embA 4246072 p.Asn947Ile missense_variant 0.11
aftB 4268794 p.Val15Met missense_variant 0.11
ethR 4327709 p.Ala54Val missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0