TB-Profiler result

Run: ERR4831633
Summary

Run ID: ERR4831633

Sample name:

Date: 01-04-2023 21:03:11

Number of reads: 116119

Percentage reads mapped: 8.34

Strain: lineage4.9;lineage2.2

Drug-resistance: RR-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
lineage2 East-Asian Beijing RD105 0.08
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.33
lineage4.9 Euro-American (H37Rv-like) T1 None 0.9
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 761161 p.Leu452Pro missense_variant 0.75 rifampicin
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766555 c.3188delA frameshift_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304235 p.Trp435Cys missense_variant 0.33
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 1.0
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 1.0
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 1.0
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 1.0
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 1.0
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 1.0
rrs 1472251 n.406G>T non_coding_transcript_exon_variant 0.89
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.88
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.88
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.88
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.8
rrs 1472279 n.434T>A non_coding_transcript_exon_variant 0.8
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.67
rrs 1472509 n.664G>A non_coding_transcript_exon_variant 1.0
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 1.0
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 1.0
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 1.0
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 1.0
rrs 1472553 n.708C>T non_coding_transcript_exon_variant 1.0
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 1.0
rrs 1472572 n.727T>C non_coding_transcript_exon_variant 1.0
rrs 1472574 n.729T>C non_coding_transcript_exon_variant 1.0
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 1.0
rrs 1472582 n.737G>A non_coding_transcript_exon_variant 0.94
rrs 1472583 n.738T>A non_coding_transcript_exon_variant 0.94
rrs 1472584 n.739A>G non_coding_transcript_exon_variant 0.94
rrs 1472594 n.749G>C non_coding_transcript_exon_variant 0.94
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.94
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.94
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.91
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 1.0
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.67
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.75
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834567 c.1026C>T synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155819 p.Tyr98Phe missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethR 4327918 p.Gly124Ser missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0