TB-Profiler result

Run: ERR4812293
Summary

Run ID: ERR4812293

Sample name:

Date: 01-04-2023 11:58:51

Number of reads: 851901

Percentage reads mapped: 99.62

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 0.99
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 5067 c.-173A>G upstream_gene_variant 1.0
gyrB 5300 p.Glu21Lys missense_variant 0.12
gyrB 5678 p.Ser147Pro missense_variant 0.1
gyrB 6036 p.Arg266Leu missense_variant 0.18
gyrB 6768 p.Gly510Asp missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9374 c.2073G>A synonymous_variant 0.11
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.36
mshA 576404 p.Glu353* stop_gained 0.22
ccsA 620664 c.774C>T synonymous_variant 0.11
rpoB 759623 c.-184C>A upstream_gene_variant 0.12
rpoB 759624 c.-182delC upstream_gene_variant 0.12
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760555 p.Glu250Gly missense_variant 1.0
rpoC 763913 p.Ala182Ser missense_variant 0.18
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777136 p.Met449Leu missense_variant 0.11
mmpL5 777519 p.Thr321Met missense_variant 0.12
mmpR5 778238 c.-752C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302920 c.-11G>A upstream_gene_variant 1.0
fbiC 1304250 c.1320C>T synonymous_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476284 n.2627G>T non_coding_transcript_exon_variant 0.29
rpsA 1834459 c.918G>A synonymous_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918106 p.Thr56Ile missense_variant 0.12
tlyA 1918581 c.642G>T synonymous_variant 0.12
PPE35 2169208 p.Gly469Arg missense_variant 0.11
PPE35 2170181 p.Trp144* stop_gained 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2517946 c.-169T>C upstream_gene_variant 0.12
kasA 2517978 c.-137G>T upstream_gene_variant 0.12
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746250 p.Ala450Asp missense_variant 0.17
folC 2746277 p.Asp441Gly missense_variant 1.0
pepQ 2859560 p.Gly287Ser missense_variant 0.11
pepQ 2860246 p.Gly58Val missense_variant 0.25
ribD 2987572 c.739_741delGAC conservative_inframe_deletion 0.12
Rv2752c 3065945 c.246delG frameshift_variant 0.11
Rv2752c 3065999 p.Arg65Ser missense_variant 0.12
thyX 3067402 p.Arg182Ser missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086812 c.-8G>T upstream_gene_variant 0.11
ald 3087372 p.Arg185Ser missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641878 p.Arg115Gln missense_variant 0.12
alr 3840953 c.468C>T synonymous_variant 0.14
ddn 3986766 c.-78G>C upstream_gene_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244573 c.1341G>T synonymous_variant 0.22
embA 4244648 c.1416G>A synonymous_variant 0.12
embB 4247028 p.Leu172Arg missense_variant 0.23
embB 4248338 c.1825C>T synonymous_variant 0.11
embB 4248804 p.Met764Thr missense_variant 0.14
aftB 4267084 p.His585Tyr missense_variant 0.11
ethA 4326538 c.936G>T synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0