TB-Profiler result

Run: ERR4831711
Summary

Run ID: ERR4831711

Sample name:

Date: 01-04-2023 21:04:28

Number of reads: 1713543

Percentage reads mapped: 68.98

Strain: lineage2.2.1.1

Drug-resistance: HR-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
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 0.76
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
rpsL 781687 p.Lys43Arg missense_variant 0.73 streptomycin
katG 2155168 p.Ser315Thr missense_variant 0.71 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
mshA 575907 p.Ala187Val missense_variant 0.94
ccsA 620625 p.Ile245Met missense_variant 0.96
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 0.99
mmpL5 777745 p.Gly246Ser missense_variant 0.13
mmpS5 779615 c.-710C>G upstream_gene_variant 0.98
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.96
embR 1416525 c.814_822delGGCACCGTC conservative_inframe_deletion 0.26
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.21
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.19
rrs 1472659 n.814G>A non_coding_transcript_exon_variant 0.17
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.18
rrs 1472669 n.824_825insTAG non_coding_transcript_exon_variant 0.19
rrs 1472677 n.832C>G non_coding_transcript_exon_variant 0.18
rrs 1472678 n.833T>A non_coding_transcript_exon_variant 0.18
rrs 1472679 n.834_835insAC non_coding_transcript_exon_variant 0.18
rrs 1472684 n.841_846delGATCCG non_coding_transcript_exon_variant 0.18
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.18
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.17
rrs 1472705 n.860G>A non_coding_transcript_exon_variant 0.16
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.16
rrs 1472715 n.870C>T non_coding_transcript_exon_variant 0.16
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.16
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.16
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.16
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.16
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.15
rrs 1472953 n.1108_1109insA non_coding_transcript_exon_variant 0.2
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.2
rrs 1472958 n.1114delT non_coding_transcript_exon_variant 0.2
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.2
rrs 1472975 n.1130T>G non_coding_transcript_exon_variant 0.2
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.2
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.21
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.21
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.21
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.21
rrs 1472991 n.1146G>A non_coding_transcript_exon_variant 0.22
rrs 1472992 n.1147A>T non_coding_transcript_exon_variant 0.21
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.21
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.21
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.22
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.22
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.23
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.16
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 2170066 p.Ala183Thr missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288857 p.Asp129Tyr missense_variant 0.8
eis 2714846 p.Val163Ile missense_variant 0.83
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
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4248115 c.1602C>T synonymous_variant 0.61
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