TB-Profiler result

Run: ERR4822133

Summary

Run ID: ERR4822133

Sample name:

Date: 01-04-2023 17:39:28

Number of reads: 3539487

Percentage reads mapped: 99.16

Strain: lineage3

Drug-resistance: MDR-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
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
rpoB 761139 p.His445Asn missense_variant 1.0 rifampicin
rrs 1472362 n.517C>T non_coding_transcript_exon_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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
rpoC 766582 c.3213C>A synonymous_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
Rv1258c 1407271 p.Gly24Cys missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 1.0
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.67
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.4
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.5
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.4
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.4
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.4
rrs 1472897 n.1052G>A non_coding_transcript_exon_variant 0.18
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.27
rrs 1472971 n.1126G>A non_coding_transcript_exon_variant 0.2
rrs 1472972 n.1127T>C non_coding_transcript_exon_variant 0.2
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.2
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.18
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.17
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.19
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.67
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.4
rrl 1475990 n.2333G>A non_coding_transcript_exon_variant 0.5
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.43
rrl 1476028 n.2372_2375delAACC non_coding_transcript_exon_variant 0.33
rrl 1476034 n.2377_2378insACAT non_coding_transcript_exon_variant 0.33
rrl 1476046 n.2389G>T non_coding_transcript_exon_variant 0.33
rrl 1476048 n.2391G>T non_coding_transcript_exon_variant 0.33
rrl 1476049 n.2392C>G non_coding_transcript_exon_variant 0.33
rrl 1476076 n.2419A>G non_coding_transcript_exon_variant 0.5
rrl 1476276 n.2619C>A non_coding_transcript_exon_variant 0.67
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.5
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.5
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.5
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.5
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.5
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.4
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.4
rrl 1476744 n.3087G>T non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
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
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841473 c.-53G>A upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0