TB-Profiler result

Run: ERR4814426
Summary

Run ID: ERR4814426

Sample name:

Date: 01-04-2023 13:17:17

Number of reads: 282026

Percentage reads mapped: 97.47

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 6507 p.Ala423Val missense_variant 0.18
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 575484 p.Arg46Leu missense_variant 0.4
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 764827 c.1458G>C synonymous_variant 0.33
rpoC 764858 c.1489T>C synonymous_variant 0.33
rpoC 764869 c.1500C>T synonymous_variant 0.4
rpoC 764875 c.1506C>A synonymous_variant 0.5
rpoC 764887 c.1518G>C synonymous_variant 0.4
rpoC 764888 c.1519T>C synonymous_variant 0.4
rpoC 764948 c.1579T>C synonymous_variant 0.29
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
rplC 800633 c.-176T>C upstream_gene_variant 0.18
fbiC 1303107 c.177C>T synonymous_variant 0.2
fbiC 1303165 p.Ser79Gly missense_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167913 p.Asn900Lys missense_variant 0.17
PPE35 2167926 p.Leu896Ser 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
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.22
Rv2752c 3067183 c.-992T>C upstream_gene_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473820 c.-187C>A upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568752 c.-73C>T upstream_gene_variant 0.22
alr 3841539 c.-119C>T upstream_gene_variant 0.13
alr 3841546 c.-126C>A upstream_gene_variant 0.25
clpC1 4040476 p.His77Tyr missense_variant 0.33
embC 4239880 c.18C>T synonymous_variant 0.14
embC 4239894 p.Ala11Val missense_variant 0.14
embC 4240009 c.147G>A synonymous_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245068 c.1836C>T synonymous_variant 0.22
embB 4248172 c.1659G>A synonymous_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0