TB-Profiler result

Run: ERR4815001
Summary

Run ID: ERR4815001

Sample name:

Date: 01-04-2023 13:36:56

Number of reads: 1210926

Percentage reads mapped: 99.22

Strain: lineage3.1.3

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
lineage3.1.3 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 576488 p.Val381His missense_variant 0.22
rpoB 761152 p.Leu449Gln missense_variant 0.14
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoB 762733 p.Glu976Gly missense_variant 0.14
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764541 p.Val391Gly missense_variant 0.11
rpoC 764543 p.Thr392Asp missense_variant 0.11
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.11
rpsA 1834159 c.618G>A synonymous_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
PPE35 2169169 c.1444T>C synonymous_variant 0.13
PPE35 2169170 c.1443C>G synonymous_variant 0.13
PPE35 2169176 c.1437G>A synonymous_variant 0.12
PPE35 2169179 c.1434C>G synonymous_variant 0.12
PPE35 2169902 c.711G>A synonymous_variant 1.0
PPE35 2170147 p.Ser156Ala missense_variant 0.18
PPE35 2170392 p.Gly74Ala missense_variant 0.16
PPE35 2170400 c.213G>C synonymous_variant 0.15
Rv1979c 2222732 c.432delT frameshift_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2518683 p.Ala190Val missense_variant 0.14
kasA 2518686 p.Asp191Gly missense_variant 0.14
kasA 2518975 c.861C>T synonymous_variant 0.12
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
Rv2752c 3064549 p.Gln548Arg missense_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339744 c.627A>C synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.97
clpC1 4039530 p.Asp392Ala missense_variant 0.1
embC 4240648 c.786C>T synonymous_variant 0.14
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249195 c.2682C>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408175 p.Ala10Pro missense_variant 1.0