TB-Profiler result

Run: ERR2229805
Summary

Run ID: ERR2229805

Sample name:

Date: 31-03-2023 17:36:42

Number of reads: 1217907

Percentage reads mapped: 99.15

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 491286 c.504G>T synonymous_variant 0.13
fgd1 491537 p.Leu252Pro missense_variant 0.11
mshA 575201 c.-147G>T upstream_gene_variant 0.12
mshA 575612 p.Phe89Leu missense_variant 0.11
mshA 576108 p.Ala254Gly missense_variant 0.19
mshA 576111 p.Ala255Gly missense_variant 0.27
mshA 576114 p.Arg256Pro missense_variant 0.14
mshA 576246 p.Gly300Val missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776597 c.1884C>T synonymous_variant 0.19
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304037 c.1107G>T synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473010 n.1165C>A non_coding_transcript_exon_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475278 n.1621G>T non_coding_transcript_exon_variant 0.14
rrl 1475992 n.2335T>A non_coding_transcript_exon_variant 0.2
rrl 1476363 n.2706A>T non_coding_transcript_exon_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.21
PPE35 2169910 p.Asn235Tyr missense_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.19
PPE35 2170053 p.Thr187Ser missense_variant 0.2
Rv1979c 2223021 c.144G>T synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3064598 p.Gly532Arg missense_variant 0.12
thyX 3067340 c.606G>A synonymous_variant 0.13
thyX 3067366 p.His194Asn missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
alr 3840397 p.Cys342Arg missense_variant 0.12
clpC1 4039691 c.1014G>C synonymous_variant 0.12
clpC1 4040250 p.Glu152Gly missense_variant 0.11
clpC1 4040329 p.Lys126Gln missense_variant 0.11
embC 4241642 p.Ala594Ser missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242706 p.Asp948Glu missense_variant 0.15
embA 4243522 p.Gly97Val missense_variant 0.17
embA 4244851 p.Arg540Leu missense_variant 0.25
embB 4247028 p.Leu172Arg missense_variant 0.43
aftB 4267982 c.855C>A synonymous_variant 0.2
ethA 4326044 p.Gly477Val missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0