TB-Profiler result

Run: ERR4818944
Summary

Run ID: ERR4818944

Sample name:

Date: 01-04-2023 15:50:21

Number of reads: 494533

Percentage reads mapped: 99.39

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 6689 p.Lys484Glu missense_variant 0.4
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490745 c.-38G>A upstream_gene_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 760082 c.276C>T synonymous_variant 0.11
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764058 p.Ala230Val missense_variant 1.0
rpoC 766582 c.3213C>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776673 p.Val603Gly missense_variant 0.18
mmpL5 777119 p.His454Gln missense_variant 0.18
mmpL5 777122 c.1359C>T synonymous_variant 0.24
mmpL5 777128 c.1353A>G synonymous_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302959 p.Thr10Ile missense_variant 0.12
fbiC 1305188 p.Leu753Pro missense_variant 0.13
Rv1258c 1407098 c.243G>A synonymous_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673349 c.-91G>C upstream_gene_variant 0.11
fabG1 1673357 c.-83G>A upstream_gene_variant 0.11
fabG1 1673359 c.-81T>C upstream_gene_variant 0.11
fabG1 1673361 c.-79C>G upstream_gene_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.12
rpsA 1833491 c.-51A>T upstream_gene_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103097 c.-55C>A upstream_gene_variant 0.2
ndh 2103113 c.-71C>T upstream_gene_variant 0.29
katG 2154667 p.Ser482Leu missense_variant 0.22
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155624 p.Asp163Gly missense_variant 0.12
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.11
PPE35 2168059 p.Gln852Glu missense_variant 0.15
PPE35 2168068 p.Phe849Leu missense_variant 0.12
PPE35 2168070 p.Glu848Pro missense_variant 0.12
PPE35 2168860 p.Ser585Gly missense_variant 0.2
PPE35 2169125 p.Val496Ile missense_variant 0.22
PPE35 2169581 c.1032C>G synonymous_variant 0.4
PPE35 2169587 c.1026G>A synonymous_variant 0.29
PPE35 2169902 p.Leu237Phe missense_variant 0.19
PPE35 2169910 p.Asn235Tyr missense_variant 0.21
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
pncA 2289510 c.-269G>C upstream_gene_variant 0.33
kasA 2519321 p.Gly403Arg missense_variant 0.4
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
pepQ 2860294 p.Ala42Glu missense_variant 0.2
Rv2752c 3065078 p.Val372Ile missense_variant 0.14
thyX 3067964 c.-19C>T upstream_gene_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449492 p.Leu330Pro missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840576 p.Ala282Glu missense_variant 0.15
alr 3841473 c.-53G>A upstream_gene_variant 1.0
clpC1 4038773 p.Asp644Glu missense_variant 0.2
clpC1 4038776 p.Glu643Asp missense_variant 0.2
clpC1 4039018 p.Ser563Ala missense_variant 0.12
clpC1 4039022 c.1683A>G synonymous_variant 0.13
clpC1 4039570 p.Met379Leu missense_variant 0.17
clpC1 4039576 p.Ala377Ser missense_variant 0.15
clpC1 4039577 c.1128T>C synonymous_variant 0.15
clpC1 4040144 c.561G>C synonymous_variant 0.25
clpC1 4040494 p.Gln71Lys missense_variant 0.25
embC 4242075 p.Arg738Gln missense_variant 0.91
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244659 p.Leu476Pro missense_variant 0.17
embA 4244666 c.1434G>C synonymous_variant 0.13
ethR 4327324 c.-225A>G upstream_gene_variant 0.2
ethR 4327327 c.-222A>G upstream_gene_variant 0.2
ethR 4327336 c.-213A>G upstream_gene_variant 0.18
whiB6 4338424 p.Val33Ala missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408059 c.144T>C synonymous_variant 0.13