TB-Profiler result

Run: ERR4814359
Summary

Run ID: ERR4814359

Sample name:

Date: 01-04-2023 13:14:55

Number of reads: 763706

Percentage reads mapped: 99.39

Strain: lineage6

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
lineage6 West-Africa 2 AFRI_1 RD702 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 6446 p.Ala403Ser missense_variant 1.0
gyrA 6934 c.-368A>G upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8188 p.Leu296Pro missense_variant 0.17
gyrA 8493 p.Leu398Phe missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9318 c.2017C>T synonymous_variant 0.25
gyrA 9722 c.2421C>A synonymous_variant 0.25
fgd1 491668 p.Lys296Glu missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576060 p.Val238Ala missense_variant 0.29
rpoB 760855 p.Thr350Ile missense_variant 1.0
rpoB 760969 p.Ser388Leu missense_variant 1.0
rpoB 761723 p.Glu639Asp missense_variant 1.0
rpoB 762908 p.Lys1034Asn missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763399 c.30C>A synonymous_variant 0.12
rpoC 766231 c.2862T>C synonymous_variant 1.0
rpoC 766952 p.Ala1195Pro missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775864 p.Ala873Ser missense_variant 0.12
mmpL5 775865 c.2616T>G synonymous_variant 0.12
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
fbiC 1303308 c.378C>T synonymous_variant 0.14
Rv1258c 1406685 p.Val219Ala missense_variant 1.0
Rv1258c 1407361 c.-21C>T upstream_gene_variant 0.18
Rv1258c 1407380 c.-40C>T upstream_gene_variant 0.15
embR 1416633 p.Leu239Val missense_variant 1.0
embR 1417498 c.-151G>T upstream_gene_variant 0.15
atpE 1461251 c.207G>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472055 n.210C>A non_coding_transcript_exon_variant 0.4
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 1.0
fabG1 1673219 c.-221C>A upstream_gene_variant 0.18
inhA 1674434 p.Val78Ala missense_variant 1.0
inhA 1674587 p.Ser129Leu missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289978 c.-737T>A upstream_gene_variant 0.13
kasA 2518132 c.18C>T synonymous_variant 1.0
pepQ 2859375 c.1044G>A synonymous_variant 0.12
Rv2752c 3066125 p.Gly23Ser missense_variant 0.12
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
Rv3083 3449396 p.Cys298Tyr missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474350 p.Pro115His missense_variant 0.17
fprA 3475159 p.Asn385Asp missense_variant 1.0
Rv3236c 3612143 p.Arg325His missense_variant 1.0
fbiA 3641089 p.His183Asn missense_variant 0.11
rpoA 3878120 p.Asp130His missense_variant 0.11
clpC1 4039628 c.1077C>T synonymous_variant 0.12
panD 4044432 c.-151T>G upstream_gene_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241843 p.Leu661Ile missense_variant 1.0
embA 4242427 c.-806A>G upstream_gene_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244379 p.Pro383Ser missense_variant 1.0
embA 4246386 p.Arg1052Cys missense_variant 0.14
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4247677 c.1164C>T synonymous_variant 0.15
embB 4249552 c.3039C>G synonymous_variant 0.14
aftB 4267013 p.Tyr608* stop_gained 0.12
aftB 4267934 c.903G>A synonymous_variant 0.18
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269522 c.-686C>T upstream_gene_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
aftB 4269693 c.-857C>T upstream_gene_variant 1.0
ethA 4326264 p.Arg404Gly missense_variant 0.11
ethA 4326465 p.Ile337Val missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408034 p.Glu57Lys missense_variant 1.0