TB-Profiler result

Run: ERR4821980
Summary

Run ID: ERR4821980

Sample name:

Date: 01-04-2023 17:34:00

Number of reads: 737317

Percentage reads mapped: 99.53

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
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 491169 c.387C>T synonymous_variant 0.18
fgd1 491611 p.Ile277Val missense_variant 0.11
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575946 p.Thr200Met missense_variant 0.23
mshA 576001 p.Asp218Glu missense_variant 0.12
mshA 576008 p.Ala221Pro missense_variant 0.11
mshA 576687 p.Glu447Gly missense_variant 0.17
ccsA 620186 p.Gly99Asp missense_variant 0.25
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
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776029 c.2452C>T synonymous_variant 0.12
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 778278 p.Ala68Val missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801182 p.Gly125Asp missense_variant 0.12
Rv1258c 1406695 c.646C>T synonymous_variant 0.12
Rv1258c 1406754 p.Ala196Val missense_variant 0.12
Rv1258c 1407102 p.Ala80Val missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673560 p.Lys41Leu missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918130 p.Ser64Leu missense_variant 0.14
tlyA 1918532 p.Val198Ala missense_variant 0.14
tlyA 1918537 p.Asp200Asn missense_variant 0.15
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170533 p.Ala27Val missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
pncA 2289702 c.-461T>C upstream_gene_variant 0.11
pncA 2289898 c.-657C>T upstream_gene_variant 0.12
kasA 2518754 p.Arg214Trp missense_variant 0.2
eis 2714851 p.Ser161Asn missense_variant 0.13
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2746398 p.Val401Ile missense_variant 0.17
ribD 2987100 p.Val88Met missense_variant 0.15
Rv2752c 3066311 c.-120G>A upstream_gene_variant 0.13
thyX 3067799 c.147G>A synonymous_variant 0.11
thyX 3067996 c.-51G>C upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086987 p.Gln56His missense_variant 1.0
fbiD 3339355 c.238C>T synonymous_variant 0.18
Rv3083 3448839 c.336G>A synonymous_variant 0.14
Rv3083 3448958 p.Asp152Val missense_variant 0.17
Rv3083 3448993 p.Val164Met missense_variant 0.15
Rv3083 3449001 c.498G>A synonymous_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474322 p.Ala106Thr missense_variant 0.14
fprA 3474598 p.Gly198Arg missense_variant 0.13
fprA 3474796 p.His264Tyr missense_variant 0.14
fprA 3475110 c.1104C>T synonymous_variant 0.2
fprA 3475160 p.Asn385Ser missense_variant 0.2
Rv3236c 3612140 p.Ala326Val missense_variant 0.12
Rv3236c 3612176 p.Arg314Gln missense_variant 0.13
fbiB 3641508 c.-27C>T upstream_gene_variant 0.14
fbiB 3641730 p.Asp66Asn missense_variant 0.11
fbiB 3642877 p.Lys448Arg missense_variant 1.0
clpC1 4040317 p.Glu130Lys missense_variant 0.12
panD 4044228 c.54C>G synonymous_variant 0.11
embC 4240283 p.Thr141Ala missense_variant 0.11
embC 4240655 p.Ala265Pro missense_variant 0.25
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243699 p.Pro156Leu missense_variant 0.2
embA 4245427 p.Ser732Asn missense_variant 0.11
embB 4246738 c.225G>T synonymous_variant 0.12
aftB 4268848 c.-12C>T upstream_gene_variant 0.14
ubiA 4269268 p.Ala189Gly missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408319 c.-117G>A upstream_gene_variant 0.12
gid 4408460 c.-258G>A upstream_gene_variant 0.11