TB-Profiler result

Run: ERR4828357
Summary

Run ID: ERR4828357

Sample name:

Date: 01-04-2023 18:50:02

Number of reads: 1424816

Percentage reads mapped: 99.44

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 5286 p.Ser16Phe missense_variant 0.12
gyrB 5730 p.Thr164Asn missense_variant 0.14
gyrB 5925 p.Ala229Val missense_variant 0.14
gyrB 5959 c.720C>T synonymous_variant 0.12
gyrB 6497 p.Ala420Thr missense_variant 0.13
gyrB 6635 p.Ser466Thr missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7949 c.648G>A synonymous_variant 0.13
gyrA 9065 c.1764C>A synonymous_variant 0.17
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491371 p.Gly197Cys missense_variant 0.2
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.55
mshA 576499 c.1152G>A synonymous_variant 0.15
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763174 p.Gln1123Arg missense_variant 0.1
rpoC 763657 p.Glu96Asp missense_variant 0.11
rpoC 764104 c.735C>T synonymous_variant 0.22
rpoC 764132 p.Ala255Ser missense_variant 0.25
rpoC 764497 c.1128A>G synonymous_variant 0.15
rpoC 765139 c.1770C>G synonymous_variant 0.11
rpoC 767284 c.3915C>A synonymous_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776806 p.Gly559Trp missense_variant 0.12
mmpL5 776964 p.Thr506Ile missense_variant 0.11
mmpL5 777542 c.939G>C synonymous_variant 0.11
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303283 p.Gly118Asp missense_variant 0.14
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
atpE 1461225 p.Glu61* stop_gained 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674571 p.Ala124Ser missense_variant 0.17
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101931 p.Ala371Val missense_variant 0.17
ndh 2103226 c.-184C>A upstream_gene_variant 0.12
katG 2154042 c.2070C>G synonymous_variant 0.14
katG 2154270 c.1842G>A synonymous_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156274 c.-163G>A upstream_gene_variant 0.13
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168975 c.1638C>T synonymous_variant 0.16
PPE35 2168985 p.Thr543Met missense_variant 0.19
PPE35 2168987 p.Thr542Ala missense_variant 0.11
PPE35 2168990 c.1623T>G synonymous_variant 0.1
PPE35 2169902 c.711G>C synonymous_variant 0.14
PPE35 2169939 p.Gly225Ala missense_variant 0.18
PPE35 2169941 c.672C>T synonymous_variant 0.12
PPE35 2169944 c.669G>C synonymous_variant 0.11
PPE35 2169947 c.666T>C synonymous_variant 0.11
Rv1979c 2222407 p.Pro253Leu missense_variant 0.13
Rv1979c 2223113 p.Ser18Gly missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223358 c.-194C>T upstream_gene_variant 0.11
eis 2714271 p.Asp354Glu missense_variant 0.12
eis 2714856 c.477T>C synonymous_variant 0.15
eis 2715237 c.96A>G synonymous_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086890 p.Ala24Val missense_variant 0.12
fbiD 3339678 c.561C>T synonymous_variant 1.0
Rv3083 3448905 c.402T>C synonymous_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640371 c.-172G>A upstream_gene_variant 0.12
rpoA 3877557 c.951C>A synonymous_variant 0.17
embC 4240607 p.His249Tyr missense_variant 0.18
embC 4241850 p.Thr663Ile missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4245911 c.-603A>G upstream_gene_variant 0.2
embB 4247033 p.Ser174Arg missense_variant 0.2
aftB 4267539 p.Pro433Gln missense_variant 0.14
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267695 p.Gly381Glu missense_variant 0.13
aftB 4267873 p.Gln322* stop_gained 0.12
ubiA 4268993 p.Asp281Tyr missense_variant 0.12
ubiA 4269854 c.-21G>T upstream_gene_variant 0.12
ethA 4326676 p.Ser266Arg missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0