TB-Profiler result

Run: ERR11049039
Summary

Run ID: ERR11049039

Sample name:

Date: 31-03-2023 07:17:21

Number of reads: 553801

Percentage reads mapped: 99.66

Strain: lineage4.7

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
lineage4.7 Euro-American (mainly T) T1;T5 None 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
gyrA 7568 p.Asp89Glu missense_variant 0.11
gyrA 9647 c.2346C>G synonymous_variant 0.33
mshA 576310 c.963C>T synonymous_variant 0.29
rpoB 759714 c.-93C>A upstream_gene_variant 0.18
rpoB 761484 p.Gly560Arg missense_variant 0.15
rpoC 764535 p.Arg389Pro missense_variant 0.5
rpoC 765486 p.Met706Thr missense_variant 0.12
rpoC 765565 c.2196G>A synonymous_variant 0.11
rpoC 766966 p.Glu1199Asp missense_variant 0.15
rpoC 766988 p.Leu1207Val missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775767 p.Gln905Leu missense_variant 0.12
mmpL5 775994 c.2487C>A synonymous_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.44
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302913 c.-18C>T upstream_gene_variant 0.11
fbiC 1304123 p.Tyr398Phe missense_variant 0.12
Rv1258c 1407045 p.Asp99Ala missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472199 n.354C>T non_coding_transcript_exon_variant 0.12
rrs 1472371 n.526A>T non_coding_transcript_exon_variant 0.12
rrl 1474294 n.637C>G non_coding_transcript_exon_variant 1.0
rrl 1475783 n.2126T>A non_coding_transcript_exon_variant 0.25
rrl 1475795 n.2138A>C non_coding_transcript_exon_variant 0.2
fabG1 1673388 c.-52T>C upstream_gene_variant 0.11
fabG1 1673553 p.Asp38Glu missense_variant 0.29
fabG1 1673564 p.Val42Gly missense_variant 0.29
rpsA 1834161 p.Gln207Arg missense_variant 0.11
rpsA 1834448 p.Lys303Glu missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155070 p.Ala348Thr missense_variant 0.13
katG 2156393 c.-282G>A upstream_gene_variant 0.13
PPE35 2167793 c.2820C>A synonymous_variant 0.18
PPE35 2168587 p.Ile676Val missense_variant 1.0
PPE35 2169766 p.Gly283Ser missense_variant 0.15
Rv1979c 2222524 p.Gly214Asp missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288813 c.429C>A synonymous_variant 0.15
kasA 2519071 p.Asp319Glu missense_variant 0.29
eis 2714676 p.His219Gln missense_variant 0.11
folC 2747581 c.18C>T synonymous_variant 0.22
pepQ 2860116 c.303G>T synonymous_variant 0.2
Rv2752c 3065381 p.Arg271Cys missense_variant 0.15
Rv2752c 3065599 p.Leu198Gln missense_variant 0.25
Rv2752c 3065602 p.Asp197Gly missense_variant 0.33
Rv2752c 3065740 p.Pro151Leu missense_variant 0.17
Rv2752c 3065781 c.411C>T synonymous_variant 0.22
thyX 3067958 c.-13T>G upstream_gene_variant 0.4
ald 3087816 p.Cys333Gly missense_variant 0.33
fprA 3474077 p.Lys24Thr missense_variant 0.17
fprA 3474108 p.Met34Ile missense_variant 0.14
fprA 3474277 p.Gly91Ser missense_variant 0.17
fprA 3475164 c.1158T>C synonymous_variant 0.15
fprA 3475228 p.Asp408Asn missense_variant 0.15
whiB7 3568417 p.Lys88Met missense_variant 0.25
whiB7 3568792 c.-113C>T upstream_gene_variant 0.12
Rv3236c 3612106 c.1011T>A synonymous_variant 0.22
alr 3840340 p.Asp361Asn missense_variant 0.14
clpC1 4038951 p.Phe585Ser missense_variant 0.25
embC 4240409 p.Pro183Ala missense_variant 0.67
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243638 p.Cys136Arg missense_variant 0.15
embA 4243682 c.450T>G synonymous_variant 0.25
embA 4245504 p.Phe758Leu missense_variant 0.14
embA 4245844 p.Val871Gly missense_variant 0.25
embB 4247126 p.Thr205Pro missense_variant 0.25
embB 4248922 c.2409G>A synonymous_variant 0.15
embB 4249732 c.3219C>G synonymous_variant 1.0
aftB 4267864 p.Tyr325His missense_variant 0.22
aftB 4268152 p.Met229Leu missense_variant 0.11
ethA 4328410 c.-937G>C upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407769 p.Leu145Ser missense_variant 0.14
gid 4407802 p.Ala134Val missense_variant 0.13
gid 4407924 c.279G>A synonymous_variant 0.12