TB-Profiler result

Run: SRR19406438
Summary

Run ID: SRR19406438

Sample name:

Date: 03-04-2023 21:37:08

Number of reads: 1513234

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 491742 c.960T>C synonymous_variant 1.0
mshA 576781 c.1434G>A synonymous_variant 0.17
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 0.99
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 1.0
fbiC 1303147 p.Ala73Thr missense_variant 0.14
Rv1258c 1406349 p.Ile331Ser missense_variant 0.97
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917971 p.Leu11Pro missense_variant 0.4
tlyA 1918530 c.591G>T synonymous_variant 0.12
ndh 2102231 p.Ser271Leu missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170182 p.Trp144* stop_gained 0.18
PPE35 2170461 p.Gly51Glu missense_variant 1.0
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
kasA 2518755 p.Arg214Leu missense_variant 0.4
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2746606 c.993C>T synonymous_variant 0.67
folC 2746849 c.750G>A synonymous_variant 0.12
pepQ 2859884 p.Leu179Met missense_variant 0.25
ribD 2986690 c.-149C>A upstream_gene_variant 0.12
ribD 2987409 p.Leu191Ile missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3338960 c.-158C>A upstream_gene_variant 0.12
fbiD 3339234 c.117G>T synonymous_variant 0.12
fbiD 3339270 c.153G>T synonymous_variant 0.15
fbiD 3339452 p.Val112Glu missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474990 c.984C>T synonymous_variant 0.2
fbiA 3641462 p.Pro307Gln missense_variant 0.15
fbiB 3641546 c.12C>A synonymous_variant 0.2
fbiB 3642745 p.Ala404Val missense_variant 0.12
embC 4241128 c.1266G>T synonymous_variant 0.15
embC 4241240 p.Leu460Val missense_variant 0.11
embC 4241554 c.1692G>A synonymous_variant 0.11
embC 4241562 p.Arg567His missense_variant 0.89
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242325 c.-908C>A upstream_gene_variant 0.17
embC 4242686 p.Gln942Lys missense_variant 1.0
embA 4244133 p.Glu301Gln missense_variant 0.13
embA 4244398 p.Val389Ala missense_variant 0.25
embA 4244472 p.Val414Leu missense_variant 0.5
embA 4244899 p.Thr556Met missense_variant 0.12
embB 4245590 c.-924G>T upstream_gene_variant 0.17
embA 4245656 p.Asp808Glu missense_variant 0.25
embA 4245816 p.Arg862Ser missense_variant 0.25
embB 4247201 p.Val230Phe missense_variant 0.2
aftB 4267793 c.1044C>A synonymous_variant 0.14
aftB 4268300 c.537C>G synonymous_variant 0.14
aftB 4268476 p.Gly121Trp missense_variant 0.15
whiB6 4338269 p.Gly85Arg missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0