TB-Profiler result

Run: ERR2514350
Summary

Run ID: ERR2514350

Sample name:

Date: 31-03-2023 20:17:04

Number of reads: 1181478

Percentage reads mapped: 99.1

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304442 c.1512T>C synonymous_variant 0.11
fbiC 1304752 p.Glu608Lys missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.11
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.12
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.15
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.14
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.38
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.38
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.38
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.43
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.32
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.12
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.19
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.19
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.18
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.18
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.19
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.19
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.15
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.11
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.13
rrl 1474958 n.1301A>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153897 p.Val739Met missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156448 c.-337C>A upstream_gene_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169281 c.1332T>G synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.11
PPE35 2170053 p.Thr187Ser missense_variant 0.13
PPE35 2170066 p.Ala183Thr missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.28
Rv2752c 3064917 c.1275C>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612151 c.966G>T synonymous_variant 0.12
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243702 c.473_489delGCGCCGGGACCCTGCCG frameshift_variant 0.15
embA 4245852 p.Ala874Ser missense_variant 0.11
embB 4247470 c.957T>C synonymous_variant 0.12
aftB 4268604 p.Arg78Leu missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0