TB-Profiler result

Run: ERR4797494
Summary

Run ID: ERR4797494

Sample name:

Date: 01-04-2023 07:41:58

Number of reads: 3089078

Percentage reads mapped: 99.45

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 7271 c.-31A>T upstream_gene_variant 0.13
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
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 765569 c.2202delC frameshift_variant 0.11
rpoC 766242 p.Thr958Ile missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777820 c.661C>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474922 n.1265G>A non_coding_transcript_exon_variant 0.14
rrl 1475456 n.1799T>C non_coding_transcript_exon_variant 0.11
rrl 1475854 n.2197G>A non_coding_transcript_exon_variant 0.13
inhA 1674975 c.774C>A synonymous_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918335 c.396G>A synonymous_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168651 p.Leu654Phe missense_variant 1.0
Rv1979c 2223116 p.Cys17Ser missense_variant 0.11
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 2289470 c.-229C>A upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2747788 c.-190C>A upstream_gene_variant 0.11
pepQ 2860099 p.Leu107Pro missense_variant 0.13
pepQ 2860399 p.Arg7Gln missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448912 p.Ile137Val missense_variant 0.15
Rv3083 3449171 p.Val223Asp missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474948 c.942A>G synonymous_variant 0.17
alr 3841473 c.-53G>A upstream_gene_variant 1.0
rpoA 3878500 p.Ile3Thr missense_variant 0.14
clpC1 4039891 p.Val272Met missense_variant 0.11
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243362 p.Phe44Leu missense_variant 0.11
embA 4244550 p.Ala440Thr missense_variant 0.15
embB 4247123 p.Ala204Ser missense_variant 0.12
embB 4247427 p.Gly305Asp missense_variant 0.12
aftB 4267756 p.Lys361Glu missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0