TB-Profiler result

Run: ERR8774141
Summary

Run ID: ERR8774141

Sample name:

Date: 02-04-2023 08:24:12

Number of reads: 747187

Percentage reads mapped: 99.59

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
gyrB 5511 p.Ser91Tyr missense_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 765738 p.Arg790Leu missense_variant 0.14
rpoC 767156 p.Gly1263Ser missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776353 p.Ser710Thr missense_variant 0.13
mmpL5 777497 c.984A>G synonymous_variant 1.0
mmpR5 779339 p.Leu117Arg missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416570 c.777delG frameshift_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472717 n.872C>A non_coding_transcript_exon_variant 0.12
rrs 1473361 n.1516G>C non_coding_transcript_exon_variant 0.15
rrl 1474282 n.625G>T non_coding_transcript_exon_variant 0.15
rrl 1475803 n.2148delG non_coding_transcript_exon_variant 0.13
rrl 1476630 n.2973A>C non_coding_transcript_exon_variant 0.2
rpsA 1833763 c.222C>T synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2155140 c.972C>A synonymous_variant 0.13
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.17
PPE35 2170053 p.Thr187Ser missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518223 c.109T>C synonymous_variant 1.0
folC 2747580 p.Gly7Cys missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
clpC1 4039303 p.Trp468Arg missense_variant 0.18
embC 4241684 p.Val608Leu missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246697 p.Gly62Trp missense_variant 0.2
embB 4246730 p.Ser73Ala missense_variant 0.17
ethA 4326187 c.1287G>A synonymous_variant 0.13
ethR 4327853 p.Met102Thr missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0