TB-Profiler result

Run: ERR4819305
Summary

Run ID: ERR4819305

Sample name:

Date: 01-04-2023 16:02:09

Number of reads: 19367

Percentage reads mapped: 3.28

Strain: lineage4.9

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.9 Euro-American (H37Rv-like) T1 None 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 761127 p.Ser441Ala 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
rpoB 761051 c.1245G>C synonymous_variant 1.0
rpoB 761054 c.1248G>C synonymous_variant 1.0
rpoB 761057 c.1251G>C synonymous_variant 1.0
rpoB 761060 c.1254C>G synonymous_variant 1.0
rpoB 761066 c.1260G>C synonymous_variant 1.0
rpoB 761084 c.1278C>A synonymous_variant 0.9
rpoB 761088 c.1282_1283delAGinsTC synonymous_variant 0.9
rpoB 761096 c.1290G>C synonymous_variant 1.0
rpoB 761099 c.1293C>T synonymous_variant 0.9
rpoB 761102 c.1296A>G synonymous_variant 1.0
rpoB 761132 c.1326G>C synonymous_variant 0.8
rpoB 761133 c.1327T>C synonymous_variant 1.0
rpoB 761147 c.1341C>G synonymous_variant 0.67
rpoB 761150 c.1344A>C synonymous_variant 1.0
rpoB 761159 c.1353G>C synonymous_variant 1.0
rpoB 762185 c.2379G>C synonymous_variant 1.0
rpoB 762194 c.2388G>C synonymous_variant 1.0
rpoB 762212 c.2406G>C synonymous_variant 1.0
rpoB 762227 c.2421G>A synonymous_variant 1.0
rpoB 762233 c.2427G>C synonymous_variant 1.0
rpoB 762234 p.Pro810Ser missense_variant 1.0
rpoB 762245 c.2439G>C synonymous_variant 1.0
rpoB 762254 c.2448T>C synonymous_variant 1.0
rpoB 762293 c.2487T>C synonymous_variant 1.0
rpoC 763028 c.-342T>C upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763038 p.Thr1078Ala missense_variant 1.0
rpoC 763043 c.-327G>C upstream_gene_variant 1.0
rpoC 763053 c.-317T>C upstream_gene_variant 1.0
rpoC 763070 c.-300T>C upstream_gene_variant 1.0
rpoB 763077 p.Val1091Thr missense_variant 1.0
rpoC 763103 c.-267G>C upstream_gene_variant 1.0
rpoC 763115 c.-255T>C upstream_gene_variant 1.0
rpoB 763119 p.Asn1105Asp missense_variant 1.0
rpoC 763127 c.-243G>C upstream_gene_variant 1.0
rpoC 763133 c.-237G>C upstream_gene_variant 1.0
rpoC 763148 c.-222G>C upstream_gene_variant 1.0
rpoC 763511 p.Cys48Gly missense_variant 1.0
rpoC 763517 p.Lys50Gln missense_variant 1.0
rpoC 763528 c.159G>C synonymous_variant 1.0
rpoC 763531 c.162G>C synonymous_variant 1.0
rpoC 763534 c.165T>G synonymous_variant 1.0
rpoC 763550 p.Tyr61Ala missense_variant 0.83
rpoC 763570 c.201G>C synonymous_variant 1.0
rpoC 763578 p.Phe70Tyr missense_variant 0.8
rpoC 763598 p.Arg77Lys missense_variant 0.67
rpoC 763606 c.237C>A synonymous_variant 0.67
rpoC 763648 c.279C>G synonymous_variant 1.0
rpoC 763657 p.Glu96Asp missense_variant 1.0
rpoC 763660 c.291T>C synonymous_variant 1.0
rpoC 763675 c.306C>G synonymous_variant 1.0
rpoC 763696 c.327T>A synonymous_variant 1.0
rpoC 763699 c.330G>T synonymous_variant 1.0
rpoC 763708 c.339G>C synonymous_variant 1.0
rpoC 763714 c.345G>C synonymous_variant 1.0
rpoC 763717 c.348T>C synonymous_variant 1.0
rpoC 763718 p.Leu117Val missense_variant 1.0
rpoC 763723 c.354G>C synonymous_variant 1.0
rpoC 763724 p.Asp119Asn missense_variant 1.0
rpoC 763729 c.360G>C synonymous_variant 1.0
rpoC 763732 c.363C>G synonymous_variant 1.0
rpoC 763735 c.366G>C synonymous_variant 1.0
rpoC 763744 c.375G>C synonymous_variant 1.0
rpoC 763751 p.Ile128Val missense_variant 1.0
rpoC 763765 c.396T>G synonymous_variant 1.0
rpoC 763772 p.Val135Met missense_variant 1.0
rpoC 764485 c.1116G>C synonymous_variant 1.0
rpoC 764491 c.1122G>C synonymous_variant 1.0
rpoC 764503 c.1134G>T synonymous_variant 1.0
rpoC 764509 c.1140G>C synonymous_variant 1.0
rpoC 764512 c.1143G>C synonymous_variant 1.0
rpoC 764521 c.1152T>C synonymous_variant 1.0
rpoC 764527 c.1158C>A synonymous_variant 1.0
rpoC 764533 c.1164C>A synonymous_variant 1.0
rpoC 764536 c.1167G>C synonymous_variant 1.0
rpoC 764543 p.Thr392Ala missense_variant 1.0
rpoC 764548 c.1179G>A synonymous_variant 1.0
rpoC 764560 c.1191T>C synonymous_variant 1.0
rpoC 764573 p.Leu402Ile missense_variant 1.0
rpoC 764578 c.1209C>G synonymous_variant 1.0
rpoC 764581 c.1212T>C synonymous_variant 1.0
rpoC 764582 p.Leu405Met missense_variant 1.0
rpoC 764602 c.1233C>T synonymous_variant 1.0
rpoC 764605 c.1236G>T synonymous_variant 1.0
rpoC 764611 c.1242G>C synonymous_variant 1.0
rpoC 764623 c.1254C>G synonymous_variant 1.0
rpoC 764632 c.1263T>C synonymous_variant 1.0
rpoC 764644 c.1275G>C synonymous_variant 1.0
rpsL 781643 c.84G>C synonymous_variant 1.0
rpsL 781652 c.93T>C synonymous_variant 1.0
rpsL 781655 c.96T>C synonymous_variant 1.0
rpsL 781658 c.99A>G synonymous_variant 1.0
rpsL 781682 c.123T>G synonymous_variant 1.0
rpsL 781703 c.144G>T synonymous_variant 1.0
rpsL 781706 c.147T>G synonymous_variant 1.0
rpsL 781709 c.150G>A synonymous_variant 1.0
rpsL 781745 c.186G>A synonymous_variant 1.0
rpsL 781751 c.192G>C synonymous_variant 1.0
rpsL 781754 c.195G>A synonymous_variant 1.0
rpsL 781760 c.201T>C synonymous_variant 1.0
rpsL 781766 c.207C>T synonymous_variant 1.0
rpsL 781796 p.Met79Ile missense_variant 1.0
rpsL 781802 c.243G>C synonymous_variant 1.0
rpsL 781811 c.252C>T synonymous_variant 1.0
rpsL 781814 c.255C>T synonymous_variant 1.0
rpsL 781817 c.258G>T synonymous_variant 1.0
rpsL 781832 c.273T>C synonymous_variant 1.0
rpsL 781835 c.276T>C synonymous_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 1.0
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 1.0
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 1.0
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 1.0
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 1.0
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 1.0
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 1.0
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 1.0
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 1.0
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 1.0
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 1.0
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 1.0
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 1.0
rrs 1473122 n.1281delA non_coding_transcript_exon_variant 1.0
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 1.0
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 1.0
rrl 1473384 n.-274A>G upstream_gene_variant 1.0
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 1.0
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 1.0
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 1.0
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 1.0
rrl 1474200 n.545delT non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474271 n.614A>G non_coding_transcript_exon_variant 1.0
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 1.0
rrl 1474551 n.894G>A non_coding_transcript_exon_variant 1.0
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 1.0
rrl 1475760 n.2103C>A non_coding_transcript_exon_variant 1.0
rrl 1475762 n.2105G>C non_coding_transcript_exon_variant 1.0
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 1.0
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 1.0
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 1.0
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 1.0
rrl 1476420 n.2763G>A non_coding_transcript_exon_variant 0.33
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.8
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.67
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 1.0
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 1.0
rpsA 1833661 c.120A>G synonymous_variant 1.0
rpsA 1833667 c.126C>T synonymous_variant 1.0
rpsA 1833668 p.Ile43Val missense_variant 1.0
rpsA 1833676 c.135A>G synonymous_variant 1.0
rpsA 1833679 c.138G>C synonymous_variant 1.0
rpsA 1833684 p.Arg48His missense_variant 1.0
rpsA 1833694 c.153G>C synonymous_variant 1.0
rpsA 1833700 c.159C>T synonymous_variant 1.0
rpsA 1833721 c.180A>G synonymous_variant 1.0
rpsA 1833724 c.183C>T synonymous_variant 1.0
rpsA 1833727 c.186G>C synonymous_variant 1.0
rpsA 1833928 c.387G>C synonymous_variant 1.0
rpsA 1833949 c.408T>C synonymous_variant 1.0
rpsA 1833970 c.429G>T synonymous_variant 1.0
rpsA 1834435 c.894G>C synonymous_variant 1.0
rpsA 1834451 c.910_912delTTGinsCTC synonymous_variant 1.0
rpsA 1834456 c.915T>C synonymous_variant 1.0
rpsA 1834459 c.918G>C synonymous_variant 1.0
rpsA 1834465 c.924T>C synonymous_variant 1.0
rpsA 1834468 c.927A>G synonymous_variant 1.0
rpsA 1834474 c.933C>G synonymous_variant 1.0
rpsA 1834477 c.936C>A synonymous_variant 1.0
rpsA 1834486 p.Glu315Asp missense_variant 1.0
rpsA 1834489 c.948T>C synonymous_variant 1.0
rpsA 1834498 c.957C>T synonymous_variant 1.0
rpsA 1834501 c.960G>C synonymous_variant 1.0
rpsA 1834522 c.981C>T synonymous_variant 1.0
rpsA 1834523 p.Glu328Gln missense_variant 1.0
rpsA 1834538 p.Val333Leu missense_variant 1.0
fbiB 3642710 c.1176G>C synonymous_variant 1.0
fbiB 3642711 p.Leu393Val missense_variant 1.0
fbiB 3642719 c.1185T>C synonymous_variant 1.0
fbiB 3642731 c.1197C>G synonymous_variant 1.0
clpC1 4039898 c.807C>G synonymous_variant 1.0
clpC1 4039904 c.801A>G synonymous_variant 1.0
clpC1 4039981 p.Leu242Ile missense_variant 1.0