TB-Profiler result

Run: ERR4814656
Summary

Run ID: ERR4814656

Sample name:

Date: 01-04-2023 13:25:07

Number of reads: 237628

Percentage reads mapped: 81.98

Strain:

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
lineage3.1.2 East-African-Indian CAS;CAS2 RD750 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 0.42 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7727 c.426G>T synonymous_variant 0.5
gyrA 8802 p.Ala501Thr missense_variant 0.4
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9389 c.2088C>A synonymous_variant 0.4
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763464 p.Glu32Val missense_variant 0.67
rpoC 763660 c.291T>G synonymous_variant 0.5
rpoC 763696 c.327T>C synonymous_variant 0.67
rpoC 763699 c.330G>T synonymous_variant 0.67
rpoC 763708 c.339G>C synonymous_variant 0.67
rpoC 763714 c.345G>C synonymous_variant 0.67
rpoC 763717 c.348T>C synonymous_variant 0.67
rpoC 763723 c.354G>C synonymous_variant 0.67
rpoC 763724 p.Asp119Asn missense_variant 0.67
rpoC 763729 c.360G>C synonymous_variant 0.67
rpoC 763732 c.363C>G synonymous_variant 0.67
rpoC 763735 c.366G>C synonymous_variant 0.67
rpoC 763751 p.Ile128Val missense_variant 0.67
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777572 p.Phe303Leu missense_variant 0.4
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416563 p.Ala262Asp missense_variant 0.5
rrs 1472108 n.263C>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 0.67
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 1.0
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.4
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 1.0
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.5
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 1.0
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 1.0
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.33
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.57
rrs 1472570 n.726G>C non_coding_transcript_exon_variant 0.67
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.71
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.88
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.75
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.25
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.5
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.33
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.5
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.33
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.14
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.13
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.38
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.33
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.15
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.14
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.36
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.46
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.54
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.58
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.75
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.33
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.33
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.33
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 1.0
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.67
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.33
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.5
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.4
rrs 1472979 n.1134G>C non_coding_transcript_exon_variant 0.18
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.27
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.27
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.27
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 1.0
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.27
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.53
rrs 1473017 n.1172A>G non_coding_transcript_exon_variant 0.15
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.7
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.64
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.71
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.67
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.15
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.15
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.67
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.62
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.43
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.29
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.71
rrs 1473109 n.1264T>C non_coding_transcript_exon_variant 0.29
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.71
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.71
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.67
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.5
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.4
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.29
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.71
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.57
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.86
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.86
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.83
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 1.0
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 1.0
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 1.0
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 1.0
rrl 1474476 n.819C>T non_coding_transcript_exon_variant 1.0
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 1.0
rrl 1474497 n.840G>A non_coding_transcript_exon_variant 1.0
rrl 1474506 n.849C>T non_coding_transcript_exon_variant 1.0
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 1.0
rrl 1474523 n.866C>T non_coding_transcript_exon_variant 0.6
rrl 1474529 n.872A>G non_coding_transcript_exon_variant 0.6
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.67
rrl 1474540 n.883T>C non_coding_transcript_exon_variant 0.67
rrl 1474545 n.888G>A non_coding_transcript_exon_variant 0.6
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.5
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 1.0
rrl 1476363 n.2706A>G non_coding_transcript_exon_variant 0.4
rrl 1476366 n.2709A>C non_coding_transcript_exon_variant 0.33
rrl 1476374 n.2717T>G non_coding_transcript_exon_variant 0.25
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.78
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.9
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.86
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.75
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.75
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 1.0
rpsA 1834234 c.693G>C synonymous_variant 0.5
rpsA 1834240 c.699T>C synonymous_variant 0.29
rpsA 1834246 c.705G>T synonymous_variant 0.25
rpsA 1834249 c.708T>C synonymous_variant 0.29
rpsA 1834261 c.720A>G synonymous_variant 0.25
rpsA 1834264 c.723G>C synonymous_variant 0.25
rpsA 1834294 c.753G>C synonymous_variant 0.29
rpsA 1834298 p.Gln253Glu missense_variant 0.29
rpsA 1834306 c.765T>C synonymous_variant 0.29
rpsA 1834307 p.Asp256Gln missense_variant 0.29
rpsA 1834312 c.771G>A synonymous_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918104 c.165G>A synonymous_variant 1.0
tlyA 1918573 p.Ala212Thr missense_variant 0.29
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168604 p.Pro670Leu missense_variant 1.0
Rv1979c 2223115 p.Cys17Tyr missense_variant 0.33
pncA 2289047 c.195C>T synonymous_variant 1.0
kasA 2518874 p.Ala254Thr missense_variant 0.13
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726383 p.Glu64Gly missense_variant 0.33
pepQ 2859531 p.His296Gln missense_variant 0.22
ribD 2986978 p.Ser47Ile missense_variant 0.25
fprA 3474050 p.Ala15Val missense_variant 0.4
alr 3840964 p.Thr153Ser missense_variant 0.14
clpC1 4040078 p.Lys209Asn missense_variant 0.4
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246469 c.-45C>T upstream_gene_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407714 c.489A>G synonymous_variant 0.33