TB-Profiler result

Run: ERR5336163
Summary

Run ID: ERR5336163

Sample name:

Date: 01-04-2023 22:32:45

Number of reads: 1174409

Percentage reads mapped: 99.01

Strain: lineage6.1.3

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
lineage6 West-Africa 2 AFRI_1 RD702 1.0
lineage6.1.3 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
embC 4240781 p.Ala307Thr missense_variant 1.0 ethambutol
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
gyrB 6629 p.Gly464Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8493 p.Leu398Phe missense_variant 1.0
gyrA 8806 p.Asp502Gly missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491319 c.537G>A synonymous_variant 0.25
fgd1 491668 p.Lys296Glu missense_variant 0.99
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576274 c.927G>C synonymous_variant 0.17
rpoB 760855 p.Thr350Ile missense_variant 1.0
rpoB 760969 p.Ser388Leu missense_variant 0.97
rpoB 761701 p.Ala632Val missense_variant 0.25
rpoB 761710 p.Val635Asp missense_variant 0.25
rpoB 761713 p.Val636Asp missense_variant 0.25
rpoB 761723 p.Glu639Asp missense_variant 1.0
rpoB 762696 p.Ala964Thr missense_variant 0.22
rpoB 762795 p.Asp997Asn missense_variant 0.17
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766152 p.Asp928Gly missense_variant 0.15
rpoC 766231 c.2862T>C 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
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.23
fbiC 1303155 c.225G>A synonymous_variant 0.12
Rv1258c 1406685 p.Val219Ala missense_variant 1.0
Rv1258c 1406921 c.420C>T synonymous_variant 0.14
Rv1258c 1407508 c.-168G>A upstream_gene_variant 1.0
embR 1416633 p.Leu239Val missense_variant 1.0
atpE 1461251 c.207G>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471670 n.-176G>A upstream_gene_variant 1.0
inhA 1674434 p.Val78Ala missense_variant 1.0
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 0.98
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518972 c.858T>C synonymous_variant 0.22
folC 2746387 c.1212C>G synonymous_variant 0.18
pepQ 2859623 p.Pro266Thr missense_variant 0.18
pepQ 2859665 c.754C>T synonymous_variant 0.13
Rv2752c 3065834 p.Arg120Cys missense_variant 1.0
Rv2752c 3067133 c.-943delC upstream_gene_variant 0.13
thyX 3067886 c.58_59delCC frameshift_variant 0.2
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.99
ald 3087084 c.266delA frameshift_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.33
fbiD 3339507 c.390G>A synonymous_variant 0.2
Rv3083 3448886 p.Thr128Ser missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474887 p.Leu294Pro missense_variant 0.15
fprA 3475159 p.Asn385Asp missense_variant 1.0
Rv3236c 3612143 p.Arg325His missense_variant 1.0
fbiA 3641219 c.681delC frameshift_variant 0.17
embC 4240655 p.Ala265Pro missense_variant 0.29
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4240769 p.Val303Leu missense_variant 1.0
embC 4241843 p.Leu661Ile missense_variant 1.0
embC 4242144 p.Pro761Leu missense_variant 0.12
embC 4243077 p.Pro1072Arg missense_variant 0.1
embA 4243357 p.Thr42Ile missense_variant 0.12
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244375 c.1143C>A synonymous_variant 0.25
embA 4244379 p.Pro383Ser missense_variant 1.0
embB 4245743 c.-771C>T upstream_gene_variant 0.4
embA 4245975 p.Asp915Asn missense_variant 0.12
embB 4246555 c.42G>C synonymous_variant 0.1
embB 4246563 p.Leu17Trp missense_variant 0.12
embB 4246624 c.111C>T synonymous_variant 0.12
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4246924 c.411C>T synonymous_variant 0.13
embB 4247646 p.Glu378Ala missense_variant 1.0
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
ethA 4326465 p.Ile337Val missense_variant 1.0
whiB6 4338217 p.Asn102Thr missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338602 c.-81A>C upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.97
gid 4408034 p.Glu57Lys missense_variant 1.0