TB-Profiler result

Run: SRR11972224
Summary

Run ID: SRR11972224

Sample name:

Date: 03-04-2023 05:32:33

Number of reads: 248078

Percentage reads mapped: 99.48

Strain: lineage4

Drug-resistance: Sensitive

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
lineage4 Euro-American LAM;T;S;X;H None 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 5476 c.237C>T synonymous_variant 0.25
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7388 c.87C>A synonymous_variant 0.4
gyrA 7845 p.Ala182Pro missense_variant 0.29
gyrA 8194 p.Gly298Asp missense_variant 0.4
mshA 575615 c.271delC frameshift_variant 0.12
mshA 576394 c.1047G>A synonymous_variant 0.29
ccsA 620754 c.864G>T synonymous_variant 0.25
rpoB 759726 c.-81A>G upstream_gene_variant 0.33
rpoB 760056 p.Leu84Phe missense_variant 0.25
rpoB 760065 c.259C>T synonymous_variant 0.25
rpoB 761960 p.Met718Ile missense_variant 0.25
rpoB 762015 p.Glu737* stop_gained 0.22
rpoC 763369 c.-1C>T upstream_gene_variant 0.29
rpoC 764443 c.1074C>T synonymous_variant 0.2
rpoC 765934 c.2565C>T synonymous_variant 0.4
rpoC 766535 p.Glu1056Lys missense_variant 0.2
rpoC 766728 p.Glu1120Val missense_variant 0.18
rpoC 766747 c.3378C>A synonymous_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776238 p.Gly748Asp missense_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801245 p.Arg146His missense_variant 0.12
fbiC 1303208 p.Pro93Leu missense_variant 0.15
fbiC 1303540 p.Leu204Ile missense_variant 0.13
fbiC 1303873 p.Leu315Met missense_variant 0.12
fbiC 1304341 p.Gly471Ser missense_variant 0.14
embR 1416397 p.Asp317Glu missense_variant 0.22
embR 1416662 p.Arg229His missense_variant 0.5
atpE 1460849 c.-196G>A upstream_gene_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471825 n.-21T>A upstream_gene_variant 0.12
rrs 1472041 n.196C>A non_coding_transcript_exon_variant 0.2
rrs 1472533 n.688T>C non_coding_transcript_exon_variant 0.29
rrs 1472679 n.834T>A non_coding_transcript_exon_variant 0.25
rrl 1473648 n.-10T>C upstream_gene_variant 0.15
rrl 1473955 n.298G>T non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474752 n.1095T>C non_coding_transcript_exon_variant 0.12
rrl 1475859 n.2202G>C non_coding_transcript_exon_variant 0.12
rrl 1476496 n.2839C>A non_coding_transcript_exon_variant 0.22
rpsA 1834101 p.Arg187Leu missense_variant 0.29
rpsA 1834447 c.906C>A synonymous_variant 0.22
rpsA 1834599 p.Leu353Gln missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102561 p.Ser161Phe missense_variant 0.33
katG 2154258 c.1854G>T synonymous_variant 0.22
katG 2154917 p.Glu399* stop_gained 0.29
katG 2155749 c.363C>A synonymous_variant 0.4
katG 2156000 p.Trp38Arg missense_variant 0.2
PPE35 2168025 p.Ala863Glu missense_variant 0.15
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2168192 c.2421T>C synonymous_variant 0.17
PPE35 2169386 c.1227C>T synonymous_variant 0.14
PPE35 2169656 c.957C>T synonymous_variant 0.17
PPE35 2169902 p.Leu237Phe missense_variant 0.21
PPE35 2169910 p.Asn235Tyr missense_variant 0.19
PPE35 2170415 c.198A>G synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518758 p.Ala215Gly missense_variant 0.2
eis 2715169 p.Gly55Val missense_variant 0.12
folC 2747391 p.Ala70Thr missense_variant 0.25
pepQ 2860439 c.-21T>C upstream_gene_variant 0.12
ribD 2986825 c.-14C>A upstream_gene_variant 0.18
ribD 2987309 c.471G>A synonymous_variant 0.22
ribD 2987333 c.495C>T synonymous_variant 0.33
thyA 3073986 p.Gln162His missense_variant 0.17
ald 3087797 p.Asp326Glu missense_variant 0.22
fbiD 3339157 p.Ile14Val missense_variant 0.13
fbiD 3339355 p.Leu80Met missense_variant 0.12
fbiD 3339678 c.561C>T synonymous_variant 0.12
fbiA 3640991 p.Cys150Phe missense_variant 0.29
fbiB 3642360 p.Val276Ile missense_variant 0.18
fbiB 3642624 p.Ala364Thr missense_variant 0.2
alr 3840448 p.Arg325Trp missense_variant 0.15
alr 3840959 c.462G>T synonymous_variant 0.25
clpC1 4038230 p.Lys825Asn missense_variant 0.25
clpC1 4038274 p.Gly811Ser missense_variant 0.29
clpC1 4039042 p.Ser555Thr missense_variant 0.67
clpC1 4039729 p.Asp326Asn missense_variant 1.0
clpC1 4040144 c.561G>C synonymous_variant 1.0
clpC1 4040722 c.-18G>T upstream_gene_variant 0.17
panD 4044072 c.210C>T synonymous_variant 0.29
embC 4240339 c.477G>C synonymous_variant 0.15
embC 4240857 p.Ala332Val missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244661 p.Ala477Thr missense_variant 0.2
embA 4245625 p.Ser798Leu missense_variant 0.25
embB 4246343 c.-171G>C upstream_gene_variant 0.12
embA 4246367 p.Tyr1045* stop_gained 0.12
embB 4247335 c.822C>T synonymous_variant 0.22
embB 4247677 c.1164C>A synonymous_variant 0.22
embB 4249636 p.Asp1041Glu missense_variant 0.22
aftB 4267120 p.Ala573Ser missense_variant 0.25
aftB 4268361 p.Ser159* stop_gained 0.33
ubiA 4269381 p.Cys151* stop_gained 0.22
aftB 4269576 c.-740C>T upstream_gene_variant 0.2
whiB6 4338177 c.345G>T synonymous_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407833 p.Val124Leu missense_variant 0.33
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0