TB-Profiler result

Run: ERR4817540
Summary

Run ID: ERR4817540

Sample name:

Date: 01-04-2023 15:03:00

Number of reads: 2745301

Percentage reads mapped: 96.67

Strain: lineage4.3.4.2

Drug-resistance: Other

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.89 streptomycin
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 6140 p.Val301Leu missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620257 p.Ile123Val missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406615 c.725delT frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471724 n.-122T>C upstream_gene_variant 0.12
rrs 1472498 n.653C>A non_coding_transcript_exon_variant 0.67
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.6
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.67
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.67
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.83
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.85
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.88
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.88
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.9
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.91
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.89
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.88
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.88
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.88
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.8
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.75
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.8
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.8
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.84
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.84
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.86
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.11
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.84
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.83
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.67
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.25
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.25
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.2
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.2
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.2
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.2
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.17
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.17
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.15
rrl 1473441 n.-217T>C upstream_gene_variant 0.15
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.67
rrl 1474579 n.922A>G non_coding_transcript_exon_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.4
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.5
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 1.0
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.4
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.33
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.33
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.33
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.4
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.33
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2222709 p.Asn152Lys missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
fbiB 3642080 c.546A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0