TB-Profiler result

Run: ERR4821977
Summary

Run ID: ERR4821977

Sample name:

Date: 01-04-2023 17:33:48

Number of reads: 588465

Percentage reads mapped: 81.84

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 8827 c.1529delT frameshift_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.18
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 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777484 p.Gln333Glu missense_variant 1.0
mmpR5 779083 p.Leu32Val missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416794 p.Gly185Glu missense_variant 0.16
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 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2518151 p.Ser13Arg missense_variant 0.23
kasA 2519132 c.1018_1019insTCG disruptive_inframe_insertion 0.1
kasA 2519142 p.Leu343Gln missense_variant 0.11
kasA 2519150 c.1037_1039delCGA disruptive_inframe_deletion 0.11
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
pepQ 2859697 p.Lys241Thr missense_variant 0.1
thyA 3073991 p.Cys161Arg missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339741 c.624G>T synonymous_variant 0.12
fbiD 3339744 c.627A>C synonymous_variant 0.12
Rv3083 3448635 c.132C>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641280 p.Ile246Met missense_variant 0.1
fbiB 3642071 c.537C>A synonymous_variant 0.11
fbiB 3642877 p.Lys448Arg missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244988 p.Ala586Thr missense_variant 1.0
whiB6 4338218 p.Asn102Asp missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0