TB-Profiler result

Run: ERR4817066

Summary

Run ID: ERR4817066

Sample name:

Date: 01-04-2023 14:47:00

Number of reads: 459812

Percentage reads mapped: 99.57

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 491277 c.498delC frameshift_variant 0.17
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575283 c.-65C>G upstream_gene_variant 1.0
mshA 575438 p.Ser31Thr missense_variant 0.17
ccsA 620025 c.135G>A synonymous_variant 0.2
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 764604 p.Arg412Gln missense_variant 0.25
rpoC 765209 c.1841delC frameshift_variant 0.2
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 1302957 c.27C>T synonymous_variant 0.17
fbiC 1305203 c.2277delC frameshift_variant 0.17
embR 1416814 c.534G>A synonymous_variant 1.0
embR 1417481 c.-134G>A upstream_gene_variant 0.14
atpE 1460944 c.-101T>C upstream_gene_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918635 c.696C>A synonymous_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
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
kasA 2519140 c.1026G>A synonymous_variant 0.13
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726111 c.-82T>A upstream_gene_variant 1.0
ahpC 2726440 p.Leu83Pro missense_variant 0.22
ribD 2987003 c.165C>T synonymous_variant 0.29
thyX 3067710 p.Ser79Leu missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568857 c.-178C>T upstream_gene_variant 1.0
Rv3236c 3612037 p.Phe360Leu missense_variant 0.13
Rv3236c 3612406 c.711C>T synonymous_variant 0.12
Rv3236c 3612761 p.Leu119Pro missense_variant 0.22
fbiB 3640833 c.-702G>C upstream_gene_variant 0.11
alr 3841474 c.-54T>C upstream_gene_variant 0.17
panD 4044023 c.259C>T synonymous_variant 1.0
embC 4241481 c.1621delG frameshift_variant 0.25
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244780 c.1548C>T synonymous_variant 0.12
embB 4248704 p.Pro731Ala missense_variant 0.11
ethR 4327664 p.Asp39Gly missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0