TB-Profiler result

Run: ERR9992658
Summary

Run ID: ERR9992658

Sample name:

Date: 02-04-2023 13:43:30

Number of reads: 513753

Percentage reads mapped: 15.31

Strain: lineage2.2.1

Drug-resistance: HR-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 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
gyrA 7570 p.Ala90Val missense_variant 0.13 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
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
mshA 576108 p.Ala254Gly missense_variant 0.23
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761112 c.1308_1310delGAA disruptive_inframe_deletion 1.0
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 1.0
mmpR5 779371 c.386delC frameshift_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472089 n.244C>T non_coding_transcript_exon_variant 0.5
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.72
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.87
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.85
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.84
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.82
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.88
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.86
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.85
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.82
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.82
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 0.82
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.8
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 0.8
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.8
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.77
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.33
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.29
rrs 1472253 n.408G>C non_coding_transcript_exon_variant 0.29
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.29
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 0.26
rrs 1472269 n.424G>A non_coding_transcript_exon_variant 0.2
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.44
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.44
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.42
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.44
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.47
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.42
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.42
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.4
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.38
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.38
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.45
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.57
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.64
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.64
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.64
rrs 1472669 n.824_825insTGG non_coding_transcript_exon_variant 0.59
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.59
rrs 1472678 n.833T>A non_coding_transcript_exon_variant 0.59
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.59
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.62
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.68
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.65
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.65
rrs 1472733 n.888G>C non_coding_transcript_exon_variant 0.67
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.67
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.67
rrs 1472742 n.897C>G non_coding_transcript_exon_variant 0.64
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.65
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.4
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.38
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.33
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.15
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.7
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.7
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.7
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.7
rrs 1472969 n.1125_1126delCG non_coding_transcript_exon_variant 0.72
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.72
rrs 1472974 n.1129A>C non_coding_transcript_exon_variant 0.72
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.72
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.72
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.72
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.72
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.72
rrs 1473001 n.1156G>T non_coding_transcript_exon_variant 0.7
rrs 1473002 n.1157G>C non_coding_transcript_exon_variant 0.7
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.72
rrs 1473008 n.1163C>G non_coding_transcript_exon_variant 0.72
rrs 1473009 n.1164T>A non_coding_transcript_exon_variant 0.72
rrs 1473020 n.1175T>C non_coding_transcript_exon_variant 0.59
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.64
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.47
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.39
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.32
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.5
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.4
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.4
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.4
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.33
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.33
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.33
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.22
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.22
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.22
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.2
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.2
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.2
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.33
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.25
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
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086963 c.144G>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
clpC1 4038664 p.Phe681Leu missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>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 4407620 p.Tyr195His missense_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0