TB-Profiler result

Run: ERR970441
Summary

Run ID: ERR970441

Sample name:

Date: 02-04-2023 12:01:03

Number of reads: 1819391

Percentage reads mapped: 99.4

Strain: lineage2.2.1.1

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 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.99
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 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 761161 p.Leu452Pro missense_variant 1.0 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
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
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 0.97
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.96
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473696 n.39T>C non_coding_transcript_exon_variant 0.19
rrl 1473697 n.40C>T non_coding_transcript_exon_variant 0.19
rrl 1473699 n.42A>G non_coding_transcript_exon_variant 0.19
rrl 1473717 n.60G>A non_coding_transcript_exon_variant 0.21
rrl 1473731 n.74T>A non_coding_transcript_exon_variant 0.2
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.2
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.2
rrl 1473836 n.179A>G non_coding_transcript_exon_variant 0.12
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.2
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.22
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.18
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.19
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.22
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.13
rrl 1475062 n.1405A>T non_coding_transcript_exon_variant 0.13
rrl 1475199 n.1542G>A non_coding_transcript_exon_variant 0.11
rrl 1475202 n.1545G>T non_coding_transcript_exon_variant 0.11
rrl 1475206 n.1549C>T non_coding_transcript_exon_variant 0.11
rrl 1475209 n.1552G>A non_coding_transcript_exon_variant 0.1
rrl 1475213 n.1556C>T non_coding_transcript_exon_variant 0.11
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.16
rrl 1475430 n.1773T>G non_coding_transcript_exon_variant 0.16
rrl 1475452 n.1795C>A non_coding_transcript_exon_variant 0.23
rrl 1475460 n.1803A>G non_coding_transcript_exon_variant 0.22
rrl 1475479 n.1822C>G non_coding_transcript_exon_variant 0.26
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.26
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.34
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.22
rrl 1475531 n.1874C>T non_coding_transcript_exon_variant 0.22
rrl 1475544 n.1887A>T non_coding_transcript_exon_variant 0.15
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.14
rrl 1475760 n.2103C>T non_coding_transcript_exon_variant 0.13
rrl 1475762 n.2105G>C non_coding_transcript_exon_variant 0.14
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.15
rrl 1475991 n.2334T>C non_coding_transcript_exon_variant 0.15
rrl 1475995 n.2338G>A non_coding_transcript_exon_variant 0.13
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.13
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.1
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.1
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.11
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.16
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.32
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.33
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.37
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.35
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.32
rrl 1476256 n.2599A>T non_coding_transcript_exon_variant 0.33
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.36
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.3
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.26
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.27
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.17
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.12
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.1
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.16
rrl 1476665 n.3008T>C non_coding_transcript_exon_variant 0.14
rrl 1476666 n.3009C>T non_coding_transcript_exon_variant 0.13
rrl 1476674 n.3017T>C non_coding_transcript_exon_variant 0.14
rrl 1476679 n.3022T>C non_coding_transcript_exon_variant 0.15
rrl 1476689 n.3032A>T non_coding_transcript_exon_variant 0.23
rrl 1476692 n.3035T>A non_coding_transcript_exon_variant 0.22
rrl 1476695 n.3038T>A non_coding_transcript_exon_variant 0.22
rrl 1476716 n.3059A>C non_coding_transcript_exon_variant 0.19
rrl 1476723 n.3066T>A non_coding_transcript_exon_variant 0.15
rrl 1476725 n.3068C>T non_coding_transcript_exon_variant 0.15
rrl 1476726 n.3069A>G non_coding_transcript_exon_variant 0.16
rrl 1476731 n.3074G>A non_coding_transcript_exon_variant 0.17
rrl 1476732 n.3075T>C non_coding_transcript_exon_variant 0.17
rrl 1476746 n.3089T>C non_coding_transcript_exon_variant 0.15
rrl 1476747 n.3090C>T non_coding_transcript_exon_variant 0.17
rrl 1476754 n.3097G>A non_coding_transcript_exon_variant 0.15
rrl 1476759 n.3102T>C non_coding_transcript_exon_variant 0.15
rrl 1476770 n.3113T>C non_coding_transcript_exon_variant 0.14
rrl 1476771 n.3114G>A non_coding_transcript_exon_variant 0.13
rpsA 1834177 c.636A>C synonymous_variant 1.0
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 2169320 p.Leu431Phe missense_variant 0.23
PPE35 2169866 c.747G>C synonymous_variant 0.19
Rv1979c 2223014 p.Tyr51Asn missense_variant 0.98
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714846 p.Val163Ile missense_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.24
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.98
embB 4248115 c.1602C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
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