TB-Profiler result

Run: ERR2229146
Summary

Run ID: ERR2229146

Sample name:

Date: 31-03-2023 16:44:28

Number of reads: 278930

Percentage reads mapped: 99.15

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
gyrB 6386 p.Phe383Val missense_variant 0.22
mshA 576108 p.Ala254Gly missense_variant 0.44
ccsA 620265 c.375C>G synonymous_variant 0.33
ccsA 620609 p.Phe240Ser missense_variant 0.33
rpoB 761810 c.2004G>A synonymous_variant 0.33
rpoC 765637 c.2269dupG frameshift_variant 0.22
rpoC 766614 p.Lys1082Thr missense_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776724 p.Tyr586Phe missense_variant 0.29
mmpL5 777571 p.Gly304Arg missense_variant 0.2
mmpL5 777573 p.Phe303Tyr missense_variant 0.2
mmpL5 777587 c.894G>C synonymous_variant 0.2
mmpL5 777681 p.Val267Ala missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781434 c.-126C>T upstream_gene_variant 0.18
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1417374 c.-27G>T upstream_gene_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rpsA 1834269 p.Lys243Arg missense_variant 0.22
rpsA 1834396 c.855G>A synonymous_variant 0.2
PPE35 2167865 c.2748G>C synonymous_variant 0.33
PPE35 2167868 c.2745A>C synonymous_variant 0.33
PPE35 2167997 c.2616G>C synonymous_variant 0.4
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169337 p.Asp426His missense_variant 0.4
PPE35 2169341 c.1272A>T synonymous_variant 0.29
PPE35 2169344 c.1269C>T synonymous_variant 0.2
PPE35 2169351 p.Ala421Gly missense_variant 0.2
PPE35 2169602 c.1011C>A synonymous_variant 0.18
PPE35 2169732 p.Asn294Ser missense_variant 0.17
PPE35 2169879 p.Phe245Ser missense_variant 0.17
PPE35 2169882 p.Ser244Asn missense_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.5
PPE35 2170053 p.Thr187Ser missense_variant 0.43
PPE35 2170232 c.381T>A synonymous_variant 0.18
PPE35 2170238 c.375T>G synonymous_variant 0.18
PPE35 2170247 p.Ile122Met missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519128 c.1014G>C synonymous_variant 0.5
kasA 2519131 c.1017G>C synonymous_variant 0.5
kasA 2519140 c.1026G>C synonymous_variant 0.67
kasA 2519143 c.1029G>C synonymous_variant 0.5
pepQ 2860331 p.Val30Leu missense_variant 0.29
thyX 3067340 c.606G>A synonymous_variant 0.67
ald 3087767 c.948G>A synonymous_variant 0.22
fbiB 3640557 c.-978T>G upstream_gene_variant 0.17
clpC1 4040144 c.561G>C synonymous_variant 0.75
embC 4240801 c.939C>T synonymous_variant 0.2
embC 4240803 p.Tyr314Phe missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243979 c.747C>T synonymous_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.38
embB 4246555 c.42G>C synonymous_variant 0.71
embB 4246556 p.Ala15Pro missense_variant 0.71
embB 4246563 p.Leu17Trp missense_variant 0.5
embB 4246567 c.54G>T synonymous_variant 0.5
aftB 4267129 p.Ala570Thr missense_variant 0.22
ubiA 4269591 p.Asp81Glu missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0