TB-Profiler result

Run: ERR2229197
Summary

Run ID: ERR2229197

Sample name:

Date: 31-03-2023 16:47:43

Number of reads: 230769

Percentage reads mapped: 69.65

Strain: lineage4

Drug-resistance: Sensitive

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
lineage4 Euro-American LAM;T;S;X;H 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
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
gyrB 6082 c.843G>A synonymous_variant 0.22
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8281 p.Val327Ala missense_variant 0.22
rpoB 760197 p.Ala131Thr missense_variant 0.29
rpoB 762233 c.2427G>C synonymous_variant 0.18
rpoB 762236 c.2430G>C synonymous_variant 0.18
rpoC 763103 c.-267G>C upstream_gene_variant 0.25
rpoC 763115 c.-255T>C upstream_gene_variant 0.22
rpoC 763127 c.-243G>C upstream_gene_variant 0.22
rpoC 764387 c.1018T>C synonymous_variant 0.22
rpoC 764405 c.1036A>C synonymous_variant 0.29
rpoC 764410 c.1041G>C synonymous_variant 0.29
rpoC 764431 c.1062G>C synonymous_variant 0.29
rpoC 764434 c.1065A>G synonymous_variant 0.29
rpoC 764435 c.1066_1068delAGGinsCGC synonymous_variant 0.29
rpoC 764441 p.Ile358Leu missense_variant 0.29
rpoC 764446 c.1077T>C synonymous_variant 0.29
rpoC 764449 c.1080G>T synonymous_variant 0.29
rpoC 764452 c.1083T>C synonymous_variant 0.33
rpoC 764458 c.1089G>C synonymous_variant 0.29
rpoC 764461 c.1092A>G synonymous_variant 0.29
rpoC 764650 c.1281G>T synonymous_variant 0.4
rpoC 764662 c.1293G>C synonymous_variant 0.25
rpoC 764677 c.1308C>G synonymous_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800860 p.Asp18Tyr missense_variant 0.25
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1407235 c.104_105delTG frameshift_variant 0.33
Rv1258c 1407243 p.Leu33Gln missense_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.5
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.4
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.33
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.29
rrs 1472888 n.1043T>C non_coding_transcript_exon_variant 0.2
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.33
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.33
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.33
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.33
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.33
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.4
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.33
rrl 1473871 n.214T>C non_coding_transcript_exon_variant 0.25
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.25
rrl 1473888 n.231T>A non_coding_transcript_exon_variant 0.25
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.4
rrl 1473899 n.242A>G non_coding_transcript_exon_variant 0.4
rrl 1473908 n.251C>T non_coding_transcript_exon_variant 0.33
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.44
rrl 1474679 n.1022G>T non_coding_transcript_exon_variant 0.17
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.14
rrl 1474754 n.1097C>G non_coding_transcript_exon_variant 0.14
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.2
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.2
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.2
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.25
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.25
rrl 1474830 n.1173A>C non_coding_transcript_exon_variant 0.25
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.29
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 0.29
rrl 1475108 n.1451C>G non_coding_transcript_exon_variant 0.2
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.2
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.2
rrl 1475129 n.1472G>A non_coding_transcript_exon_variant 0.29
rrl 1475508 n.1851A>T non_coding_transcript_exon_variant 0.5
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.4
rrl 1475538 n.1881T>A non_coding_transcript_exon_variant 0.29
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.29
rrl 1475542 n.1885A>G non_coding_transcript_exon_variant 0.29
rrl 1475544 n.1887A>T non_coding_transcript_exon_variant 0.29
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.29
rrl 1475550 n.1893A>G non_coding_transcript_exon_variant 0.22
rrl 1475571 n.1914A>T non_coding_transcript_exon_variant 0.22
rrl 1475586 n.1929C>T non_coding_transcript_exon_variant 0.22
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.4
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.4
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.4
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.4
rrl 1475983 n.2326T>C non_coding_transcript_exon_variant 0.33
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.33
rrl 1475989 n.2332T>C non_coding_transcript_exon_variant 0.33
rrl 1475991 n.2334T>C non_coding_transcript_exon_variant 0.33
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.33
rrl 1475996 n.2339T>A non_coding_transcript_exon_variant 0.33
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.33
rrl 1476000 n.2343G>T non_coding_transcript_exon_variant 0.33
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.33
rrl 1476491 n.2834T>C non_coding_transcript_exon_variant 0.33
rrl 1476573 n.2916A>G non_coding_transcript_exon_variant 0.13
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.29
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.29
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.12
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.12
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.12
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.12
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155473 p.Lys213Asn missense_variant 0.33
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170222 p.Pro131Thr missense_variant 0.5
Rv1979c 2223180 c.-17_-16insGCT upstream_gene_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518383 p.Leu90Pro missense_variant 0.4
pepQ 2859524 p.Gly299Cys missense_variant 0.22
pepQ 2860420 c.-2T>C upstream_gene_variant 0.2
pepQ 2860455 c.-37T>A upstream_gene_variant 0.29
alr 3841577 c.-157C>A upstream_gene_variant 0.4
clpC1 4040487 p.Ala73Val missense_variant 0.33
clpC1 4040511 p.Glu65Ala missense_variant 0.33
embC 4239896 p.Val12Phe missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243046 p.Arg1062Gly missense_variant 0.25
embA 4245859 p.Ala876Asp missense_variant 0.33
embB 4246548 p.Pro12Gln missense_variant 0.6
embB 4246555 c.42G>C synonymous_variant 0.6
embB 4246556 p.Ala15Pro missense_variant 0.6
embB 4247512 c.999T>C synonymous_variant 0.4
embB 4247516 p.Asn335Asp missense_variant 0.4
ubiA 4269889 c.-56C>A upstream_gene_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0