TB-Profiler result

Run: ERR2228878
Summary

Run ID: ERR2228878

Sample name:

Date: 31-03-2023 16:24:26

Number of reads: 171821

Percentage reads mapped: 99.7

Strain: lineage4

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
lineage4 Euro-American LAM;T;S;X;H None 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 8322 p.Phe341Leu missense_variant 0.33
ccsA 619787 c.-104T>G upstream_gene_variant 0.27
ccsA 619958 p.Val23Gly missense_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778885 c.-405T>C upstream_gene_variant 0.5
mmpR5 779066 p.Tyr26Phe missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800740 c.-69A>C upstream_gene_variant 0.3
fbiC 1303689 c.759T>A synonymous_variant 0.33
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472504 n.659A>G non_coding_transcript_exon_variant 0.5
rrs 1473297 n.1452G>T non_coding_transcript_exon_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102653 p.His130Gln missense_variant 0.5
PPE35 2167891 p.Gly908Ser missense_variant 0.5
PPE35 2169287 c.1326T>C synonymous_variant 0.67
PPE35 2169293 c.1320T>C synonymous_variant 0.67
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290171 c.-930G>A upstream_gene_variant 0.5
kasA 2518163 p.Thr17Pro missense_variant 0.67
ahpC 2726571 p.Ala127Ser missense_variant 0.5
folC 2746745 p.Val285Asp missense_variant 0.5
pepQ 2860351 p.Leu23Pro missense_variant 0.2
thyA 3073757 p.Phe239Ile missense_variant 0.18
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3474106 p.Met34Leu missense_variant 0.2
fbiB 3642436 p.Gln301Arg missense_variant 0.33
alr 3840197 c.1224T>A synonymous_variant 0.22
alr 3841229 c.192G>T synonymous_variant 0.22
alr 3841546 c.-126C>A upstream_gene_variant 0.15
ddn 3986712 c.-132A>G upstream_gene_variant 0.4
ddn 3987022 p.Arg60Leu missense_variant 0.25
clpC1 4039588 p.Ser373Ala missense_variant 0.5
embC 4240212 p.Val117Gly missense_variant 0.5
embC 4241043 p.Asn394Thr missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243347 p.Thr39Pro missense_variant 0.2
embA 4243503 p.Ser91Ala missense_variant 0.5
embA 4245640 p.Asn803Thr missense_variant 0.67
embA 4245835 p.Leu868Gln missense_variant 0.25
embB 4246187 c.-327C>A upstream_gene_variant 0.4
aftB 4267842 p.Asp332Gly missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448498 c.-5_*1408del transcript_ablation 1.0