TB-Profiler result

Run: ERR2229514
Summary

Run ID: ERR2229514

Sample name:

Date: 31-03-2023 17:16:42

Number of reads: 979418

Percentage reads mapped: 98.36

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
fgd1 491357 p.Phe192Ser missense_variant 0.11
mshA 576108 p.Ala254Gly missense_variant 0.18
mshA 576590 p.Arg415Gly missense_variant 0.29
mshA 576617 p.His424Asn missense_variant 0.22
ccsA 619816 c.-75G>C upstream_gene_variant 0.15
rpoB 759633 c.-174C>T upstream_gene_variant 0.12
rpoB 760461 p.Arg219Ser missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778137 p.Arg115Ile missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800942 p.Asp45Gly missense_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406108 c.1233C>T synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475151 n.1494C>T non_coding_transcript_exon_variant 0.18
rrl 1475601 n.1944C>G non_coding_transcript_exon_variant 0.17
rrl 1475812 n.2155T>C non_coding_transcript_exon_variant 0.25
fabG1 1673380 c.-60C>G upstream_gene_variant 0.15
fabG1 1673558 p.His40Pro missense_variant 0.15
inhA 1674828 p.Glu209Asp missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.13
PPE35 2169272 c.1341C>G synonymous_variant 0.12
PPE35 2169293 c.1320T>C synonymous_variant 0.11
PPE35 2169902 c.711G>C synonymous_variant 0.13
PPE35 2169910 p.Asn235Tyr missense_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.44
PPE35 2170053 p.Thr187Ser missense_variant 0.46
PPE35 2170147 p.Ser156Ala missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518934 p.Ala274Thr missense_variant 0.14
thyX 3067480 p.Asp156Tyr missense_variant 0.12
ald 3087308 c.489G>T synonymous_variant 0.12
ald 3087450 p.Phe211Leu missense_variant 0.17
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3236c 3613078 c.39C>T synonymous_variant 0.22
fbiA 3641499 p.Met319Ile missense_variant 0.11
alr 3840297 p.Thr375Met missense_variant 0.12
rpoA 3878115 p.Lys131Asn missense_variant 0.18
clpC1 4038590 p.Phe705Leu missense_variant 0.12
clpC1 4038956 c.1749T>C synonymous_variant 0.17
embA 4242391 c.-842G>C upstream_gene_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 1.0
embB 4246555 c.42G>C synonymous_variant 1.0
embB 4246556 p.Ala15Pro missense_variant 1.0
embB 4246880 p.Val123Met missense_variant 0.14
embB 4249499 p.Cys996Gly missense_variant 0.12
aftB 4267921 p.Gln306Glu missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0