TB-Profiler result

Run: ERR1949957
Summary

Run ID: ERR1949957

Sample name:

Date: 31-03-2023 15:35:43

Number of reads: 1011935

Percentage reads mapped: 99.31

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.99
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 8509 p.Glu403Ala missense_variant 0.17
gyrA 9106 p.Phe602Ser missense_variant 0.17
fgd1 491027 p.Asn82Ile missense_variant 0.2
fgd1 491362 p.Cys194Ser missense_variant 0.29
rpoC 763908 p.Asp180Ala missense_variant 0.15
rpoC 763974 p.Glu202Ala missense_variant 0.13
rpoC 764358 p.Leu330Arg missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777427 p.Thr352Ala missense_variant 0.15
mmpR5 779199 p.Asn70Lys missense_variant 0.17
mmpR5 779311 p.Ile108Val missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303945 p.Ser339Ala missense_variant 0.23
Rv1258c 1406382 p.Val320Gly missense_variant 0.5
Rv1258c 1407097 p.Ser82Ala missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476282 n.2625T>A non_coding_transcript_exon_variant 0.17
fabG1 1673749 p.Lys104Glu missense_variant 0.2
rpsA 1834969 p.Lys476Asn missense_variant 0.6
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918514 p.Val192Gly missense_variant 0.17
PPE35 2168555 p.Phe686Leu missense_variant 0.27
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169017 p.Leu532Phe missense_variant 0.25
PPE35 2169029 p.Asp528Glu missense_variant 0.4
PPE35 2169176 c.1437G>T synonymous_variant 0.67
PPE35 2169304 p.Met437Leu missense_variant 0.25
PPE35 2169629 p.Asn328Lys missense_variant 0.33
PPE35 2170608 p.His2Arg missense_variant 0.12
Rv1979c 2222221 p.Ile315Thr missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519012 p.Leu300Val missense_variant 0.16
eis 2714749 p.Val195Gly missense_variant 0.22
pepQ 2860144 p.Val92Gly missense_variant 0.41
ribD 2987182 p.Pro115Arg missense_variant 0.12
thyX 3067776 p.Asn57Thr missense_variant 0.33
thyA 3074191 p.Tyr94Cys missense_variant 0.17
thyA 3074318 p.Phe52Ile missense_variant 0.29
embC 4241661 p.Leu600Arg missense_variant 0.33
embC 4241685 p.Val608Gly missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246579 c.66T>G synonymous_variant 0.33
embB 4246582 c.69T>G synonymous_variant 0.22
embB 4246595 p.Trp28Gly missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0