TB-Profiler result

Run: ERR2229431
Summary

Run ID: ERR2229431

Sample name:

Date: 31-03-2023 17:10:43

Number of reads: 162620

Percentage reads mapped: 99.39

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
gyrB 5894 p.Val219Leu missense_variant 0.33
gyrB 7185 p.Ser649Phe missense_variant 0.22
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7788 p.Pro163Thr missense_variant 0.25
mshA 576108 p.Ala254Gly missense_variant 0.75
rpoB 760446 p.Asp214Asn missense_variant 0.67
rpoB 761981 c.2175C>T synonymous_variant 0.25
rpoC 764828 p.Leu487Ile missense_variant 0.29
mmpL5 775609 p.Ala958Ser missense_variant 0.67
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471981 n.136C>A non_coding_transcript_exon_variant 0.5
rrl 1473772 n.115C>G non_coding_transcript_exon_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918565 p.Leu209Pro missense_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169606 p.Asn336Thr missense_variant 0.33
PPE35 2170048 p.Leu189Val missense_variant 0.5
PPE35 2170053 p.Thr187Ser missense_variant 0.4
PPE35 2170220 c.393C>G synonymous_variant 0.25
PPE35 2170307 c.306G>T synonymous_variant 0.5
Rv1979c 2223209 c.-45A>T upstream_gene_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726183 c.-10G>T upstream_gene_variant 0.5
fprA 3473931 c.-76T>A upstream_gene_variant 0.29
alr 3841515 c.-95C>T upstream_gene_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242848 p.Pro996Thr missense_variant 0.25
embA 4245183 p.Leu651Met missense_variant 0.4
aftB 4266973 p.Gly622Ser missense_variant 0.4
whiB6 4338502 p.Ala7Glu missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0