TB-Profiler result

Run: SRR1723770
Summary

Run ID: SRR1723770

Sample name:

Date: 18-08-2022 08:16:18

Number of reads: 2242078

Percentage reads mapped: 98.72

Strain: lineage2.2.1

Drug-resistance: RR-TB

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
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 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 761155 p.Ser450Phe 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
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 767314 p.Tyr1315* stop_gained 0.41
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 0.13
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.1
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.11
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.13
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.11
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.11
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.17
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.2
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.29
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.11
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.11
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.15
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.24
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.24
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.24
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.23
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.44
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.51
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.53
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.57
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.51
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.51
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.23
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.49
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.49
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.36
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.17
rpsA 1834177 c.636A>C synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155819 p.Tyr98Cys missense_variant 0.83
katG 2156120 c.-9A>T upstream_gene_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0
gid 4408390 c.-188C>A upstream_gene_variant 1.0