TB-Profiler result

Run: SRR6045022
Summary

Run ID: SRR6045022

Sample name:

Date: 04-04-2023 11:51:35

Number of reads: 1534902

Percentage reads mapped: 81.21

Strain: lineage3.1.1

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.1 East-African-Indian CAS1-Kili 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.3 streptomycin
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 491027 p.Asn82Thr missense_variant 0.14
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 765916 c.2547C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775647 p.Gln945Arg 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 1472150 n.305T>A non_coding_transcript_exon_variant 0.5
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.33
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.5
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.29
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.25
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.25
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.25
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.33
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.33
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.33
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.5
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.57
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.57
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.67
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.67
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.29
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.29
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.29
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.33
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.33
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.2
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.6
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.5
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.43
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.43
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.43
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.43
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.5
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.5
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.5
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.4
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.67
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.75
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 0.6
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.6
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.75
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.75
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.75
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.75
rrl 1474672 n.1015C>T non_coding_transcript_exon_variant 0.67
rrl 1474674 n.1017A>C non_coding_transcript_exon_variant 0.67
rrl 1474675 n.1018C>A non_coding_transcript_exon_variant 0.67
rrl 1474676 n.1019T>C non_coding_transcript_exon_variant 0.67
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.67
rrl 1474694 n.1037C>T non_coding_transcript_exon_variant 0.67
rrl 1475672 n.2015C>T non_coding_transcript_exon_variant 0.33
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.33
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.29
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.5
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.4
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.4
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.25
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.25
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.75
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.4
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.5
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.43
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.67
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.5
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.67
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.67
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.57
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.57
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.57
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.57
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.57
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.4
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.57
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.67
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.67
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.67
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.78
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.8
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.77
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.79
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.73
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.67
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.14
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.71
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.69
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.14
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.67
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.75
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.75
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.7
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.6
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
PPE35 2170461 p.Gly51Glu missense_variant 0.88
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
thyX 3067442 c.504C>G synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642772 p.Asp413Ala missense_variant 0.22
embC 4241562 p.Arg567His missense_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