TB-Profiler result

Run: ERR10796608
Summary

Run ID: ERR10796608

Sample name:

Date: 31-03-2023 11:12:27

Number of reads: 1794712

Percentage reads mapped: 100.0

Strain: lineage6.3.1

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
lineage6 West-Africa 2 AFRI_1 RD702 1.0
lineage6.3 West-Africa 2 AFRI_1 RD702 1.0
lineage6.3.1 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491327 p.Ala182Asp missense_variant 0.12
fgd1 491668 p.Lys296Glu missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 619985 c.97delG frameshift_variant 0.5
ccsA 620122 c.232C>A synonymous_variant 0.17
ccsA 620616 c.726C>T synonymous_variant 0.12
rpoB 760969 p.Ser388Leu missense_variant 1.0
rpoB 761229 p.Gly475Ser missense_variant 0.15
rpoB 761723 p.Glu639Asp missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_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 0.98
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
atpE 1461251 c.207G>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475684 n.2027G>A non_coding_transcript_exon_variant 0.12
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.2
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.2
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.25
inhA 1674434 p.Val78Ala missense_variant 0.94
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102694 p.Val117Ile missense_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 2222852 p.Ala105Thr missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
folC 2746210 c.1389A>G synonymous_variant 0.17
folC 2747663 c.-65C>A upstream_gene_variant 0.13
Rv2752c 3064671 c.1521C>T synonymous_variant 1.0
ald 3086728 c.-92C>T upstream_gene_variant 0.99
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
fbiD 3339694 p.Ala193Thr missense_variant 0.4
Rv3083 3449781 c.1278G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
fbiB 3640704 c.-831C>T upstream_gene_variant 1.0
rpoA 3877696 p.Thr271Ile missense_variant 0.98
clpC1 4039147 p.Gly520Arg missense_variant 0.2
clpC1 4039181 p.Leu508Phe missense_variant 0.11
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241321 p.Ile487Phe missense_variant 0.13
embC 4241843 p.Leu661Ile missense_variant 1.0
embC 4242530 p.Arg890* stop_gained 0.5
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 4246017 p.Leu929Met missense_variant 0.12
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247257 c.744T>C synonymous_variant 0.17
embB 4247940 p.Leu476Trp missense_variant 0.1
aftB 4268477 c.360C>T synonymous_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
ubiA 4269910 c.-77C>G upstream_gene_variant 0.15
ethA 4326465 p.Ile337Val missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.95