TB-Profiler result

Run: ERR4817076
Summary

Run ID: ERR4817076

Sample name:

Date: 01-04-2023 14:47:18

Number of reads: 694453

Percentage reads mapped: 99.26

Strain: lineage3

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
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
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 5720 p.Gly161Arg missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8955 p.Asp552Tyr missense_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490966 p.Gly62Ser missense_variant 0.17
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576751 p.Lys468Asn missense_variant 0.29
ccsA 619759 c.-132C>T upstream_gene_variant 0.15
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 763799 p.Arg144Cys missense_variant 0.11
rpoC 765273 p.Val635Glu missense_variant 0.13
rpoC 766582 c.3213C>A synonymous_variant 1.0
rpoC 767151 p.Gly1261Asp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777164 c.1317C>T synonymous_variant 0.12
mmpL5 777173 c.1308C>T synonymous_variant 0.11
mmpL5 777176 p.Glu435Asp missense_variant 0.11
mmpL5 777445 p.Val346Ile missense_variant 0.13
mmpS5 778754 c.150_151delGT frameshift_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305147 c.2217C>T synonymous_variant 0.12
Rv1258c 1406666 c.675G>A synonymous_variant 0.15
Rv1258c 1406860 p.Gly161Cys missense_variant 0.11
Rv1258c 1407271 p.Gly24Cys missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 1.0
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 1.0
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102336 p.Leu236Ser missense_variant 0.22
ndh 2103147 c.-105G>T upstream_gene_variant 0.14
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156111 p.Val1Met missense_variant 0.15
PPE35 2167745 p.Thr956Arg missense_variant 0.22
PPE35 2167760 c.2853G>A synonymous_variant 0.25
PPE35 2167763 p.Ile950Val missense_variant 0.25
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169623 c.990T>C 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
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2747485 p.Trp38* stop_gained 0.14
Rv2752c 3065591 p.Cys201Gly missense_variant 0.29
Rv2752c 3066070 p.Leu41Ser missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086998 p.Thr60Asn missense_variant 0.13
Rv3083 3448954 p.Pro151Ser missense_variant 0.14
Rv3083 3449139 c.636A>T synonymous_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474600 c.594G>T synonymous_variant 0.14
fprA 3474696 c.690G>A synonymous_variant 0.11
alr 3841473 c.-53G>A upstream_gene_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 0.14
panD 4044470 c.-189C>T upstream_gene_variant 1.0
embC 4241489 p.Ala543Thr missense_variant 0.15
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242571 c.-662C>T upstream_gene_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269062 p.Ala258Thr missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0