TB-Profiler result

Run: ERR718384
Summary

Run ID: ERR718384

Sample name:

Date: 02-04-2023 04:02:13

Number of reads: 3280148

Percentage reads mapped: 95.75

Strain: lineage4.5

Drug-resistance: MDR-TB

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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
lineage4.5 Euro-American H;T RD122 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
rpoB 761155 p.Ser450Leu missense_variant 0.99 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.15
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.15
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.15
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.15
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.17
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.3
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.32
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.33
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.31
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.31
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.2
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.12
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.12
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.12
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.13
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.14
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.12
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.12
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.12
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.12
rrl 1474527 n.870T>G non_coding_transcript_exon_variant 0.1
rrl 1474528 n.871T>C non_coding_transcript_exon_variant 0.1
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.11
rrl 1474539 n.882C>A non_coding_transcript_exon_variant 0.11
rrl 1474542 n.885A>C non_coding_transcript_exon_variant 0.1
rrl 1474552 n.895C>G non_coding_transcript_exon_variant 0.11
rrl 1474555 n.898T>G non_coding_transcript_exon_variant 0.11
rrl 1474562 n.905G>C non_coding_transcript_exon_variant 0.11
rrl 1474565 n.908T>A non_coding_transcript_exon_variant 0.11
rrl 1474570 n.913G>T non_coding_transcript_exon_variant 0.12
rrl 1474571 n.914G>T non_coding_transcript_exon_variant 0.12
rrl 1474578 n.921A>G non_coding_transcript_exon_variant 0.11
rrl 1474584 n.927C>A non_coding_transcript_exon_variant 0.12
rrl 1474586 n.929T>A non_coding_transcript_exon_variant 0.12
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.11
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.19
rrl 1474798 n.1141C>T non_coding_transcript_exon_variant 0.26
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.29
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.37
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.37
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.39
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.4
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.38
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.26
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.21
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.2
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.17
rrl 1475092 n.1435A>C non_coding_transcript_exon_variant 0.13
rrl 1475106 n.1449G>A non_coding_transcript_exon_variant 0.14
rrl 1475108 n.1451C>G non_coding_transcript_exon_variant 0.14
rrl 1475109 n.1452C>A non_coding_transcript_exon_variant 0.13
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.13
rrl 1475115 n.1458A>C non_coding_transcript_exon_variant 0.12
rrl 1475120 n.1463G>A non_coding_transcript_exon_variant 0.14
rrl 1475122 n.1465C>T non_coding_transcript_exon_variant 0.13
rrl 1475129 n.1472G>A non_coding_transcript_exon_variant 0.13
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.31
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.36
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.39
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.45
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.5
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.5
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.51
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.55
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.55
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.54
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.39
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.3
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.14
inhA 1673505 c.-697A>C upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170568 p.Ile15Met missense_variant 1.0
PPE35 2170720 c.-108A>G upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289806 c.-565A>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877967 p.Thr181Ser missense_variant 0.91
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
rpoA 3878641 c.-134C>G upstream_gene_variant 0.2
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0