TB-Profiler result

Run: ERR11050282
Summary

Run ID: ERR11050282

Sample name:

Date: 02-04-2023 20:48:25

Number of reads: 427690

Percentage reads mapped: 99.53

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.Ser450Trp missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4248003 p.Gln497Arg missense_variant 1.0 ethambutol
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 6953 p.Lys572Glu missense_variant 0.17
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
mshA 575420 p.Thr25Pro missense_variant 0.29
mshA 575949 p.Val201Gly missense_variant 0.14
ccsA 620029 c.139C>T synonymous_variant 1.0
ccsA 620282 p.Arg131Pro missense_variant 0.33
rpoB 761707 p.Asp634Ala missense_variant 0.29
rpoC 764337 p.Glu323Ala missense_variant 0.25
rpoC 764367 p.Gly333Ala missense_variant 0.21
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776086 p.Val799Ile missense_variant 0.13
mmpL5 777541 p.Gly314Ser missense_variant 0.15
mmpL5 777883 p.Gly200Arg missense_variant 0.5
mmpR5 779378 p.Pro130Arg missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801145 p.Asp113Tyr missense_variant 0.17
fbiC 1304939 p.Glu670Val missense_variant 0.29
Rv1258c 1406101 p.Pro414Ser missense_variant 1.0
embR 1416432 p.Ala306Pro missense_variant 0.4
atpE 1461091 p.Ile16Ser missense_variant 0.15
atpE 1461104 c.60C>G synonymous_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473412 n.-246T>G upstream_gene_variant 0.26
rrl 1475016 n.1359C>G non_coding_transcript_exon_variant 0.23
rrl 1475484 n.1827A>C non_coding_transcript_exon_variant 0.2
rrl 1475692 n.2035G>C non_coding_transcript_exon_variant 0.25
rrl 1475749 n.2093delA non_coding_transcript_exon_variant 0.67
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.22
fabG1 1673564 p.Val42Gly missense_variant 0.75
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918618 p.Ala227Pro missense_variant 0.5
katG 2155820 p.Tyr98Asn missense_variant 0.29
PPE35 2167906 p.Ile903Phe missense_variant 0.33
PPE35 2168386 p.Glu743* stop_gained 0.5
PPE35 2169813 p.Phe267Tyr missense_variant 0.33
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714687 p.Ala216Thr missense_variant 0.4
folC 2746654 c.945C>G synonymous_variant 0.33
ribD 2986921 c.88delC frameshift_variant 0.18
Rv2752c 3064823 p.Val457Leu missense_variant 0.38
Rv2752c 3065103 c.1089C>G synonymous_variant 0.4
ald 3086867 c.48G>C synonymous_variant 0.1
ald 3087816 p.Cys333Gly missense_variant 0.2
fbiD 3339053 c.-65G>C upstream_gene_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475247 p.Gln414Pro missense_variant 0.17
whiB7 3568676 p.Ser2Ala missense_variant 0.18
fbiA 3640583 p.Arg14Pro missense_variant 0.33
alr 3841384 p.Asp13His missense_variant 0.25
alr 3841551 c.-131G>C upstream_gene_variant 0.2
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
clpC1 4039114 p.Ala531Thr missense_variant 0.2
clpC1 4039946 c.759A>G synonymous_variant 0.18
clpC1 4040020 p.Leu229Val missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244173 p.Leu314Pro missense_variant 0.2
embB 4246527 p.Ala5Gly missense_variant 0.67
embB 4249356 p.Val948Gly missense_variant 0.2
aftB 4268623 p.Trp72Gly missense_variant 0.22
aftB 4269498 c.-662A>T upstream_gene_variant 0.18
ethR 4328039 p.Arg164Pro missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407857 p.Arg116Trp missense_variant 1.0