TB-Profiler result

Run: ERR2229564
Summary

Run ID: ERR2229564

Sample name:

Date: 31-03-2023 17:22:05

Number of reads: 1984562

Percentage reads mapped: 99.49

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 491404 p.Met208Leu missense_variant 0.19
mshA 576108 p.Ala254Gly missense_variant 0.56
ccsA 620346 c.456C>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777128 c.1353A>G synonymous_variant 0.12
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
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168140 p.Ala825Thr missense_variant 0.14
PPE35 2168143 p.Phe824Leu missense_variant 0.14
PPE35 2168150 c.2463T>C synonymous_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169602 c.1011C>A synonymous_variant 0.15
PPE35 2169902 p.Leu237Phe missense_variant 0.22
PPE35 2169910 p.Asn235Tyr missense_variant 0.18
PPE35 2170048 p.Leu189Val missense_variant 0.51
PPE35 2170053 p.Thr187Ser missense_variant 0.53
PPE35 2170392 p.Gly74Ala missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518864 c.750G>C synonymous_variant 0.15
kasA 2518879 c.765A>G synonymous_variant 0.15
kasA 2518882 c.768C>A synonymous_variant 0.14
kasA 2519128 c.1014G>C synonymous_variant 0.14
kasA 2519140 c.1026G>C synonymous_variant 0.2
kasA 2519143 c.1029G>C synonymous_variant 0.2
folC 2746646 p.Gln318Leu missense_variant 0.12
thyA 3074580 c.-109T>C upstream_gene_variant 0.14
alr 3841546 c.-126C>A upstream_gene_variant 0.16
alr 3841612 c.-193_-192insC upstream_gene_variant 0.14
clpC1 4039018 p.Ser563Ala missense_variant 0.13
clpC1 4039022 c.1683A>G synonymous_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.44
embB 4246555 c.42G>C synonymous_variant 0.67
embB 4246556 p.Ala15Pro missense_variant 0.67
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0