TB-Profiler result

Run: ERR161086
Summary

Run ID: ERR161086

Sample name:

Date: 31-03-2023 14:45:36

Number of reads: 3137529

Percentage reads mapped: 96.86

Strain: lineage3.1.2

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 0.98
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 0.97
lineage3.1.2 East-African-Indian CAS;CAS2 RD750 0.98
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 0.98
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 0.98
rpoC 763031 c.-339T>C upstream_gene_variant 0.98
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.21
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.21
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.19
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.19
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.16
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 0.14
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.11
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.12
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.11
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.11
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.11
rrs 1473262 n.1417T>A non_coding_transcript_exon_variant 0.11
rrl 1476251 n.2594T>A non_coding_transcript_exon_variant 0.13
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.15
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.2
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.19
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.23
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.22
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.23
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.22
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.22
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.22
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.22
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.25
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.25
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.26
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.23
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.23
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.23
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.3
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.34
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.34
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.33
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.24
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.22
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.2
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.99
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168604 p.Pro670Leu missense_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.3
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.98
pncA 2289365 c.-125delC upstream_gene_variant 0.95
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449864 p.Gln454Arg missense_variant 0.99
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.18
embC 4240199 p.Ala113Thr missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 0.95
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4327427 p.Gly16Ala missense_variant 0.98
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0