TB-Profiler result

Run: ERR4822110
Summary

Run ID: ERR4822110

Sample name:

Date: 01-04-2023 17:38:37

Number of reads: 1697152

Percentage reads mapped: 99.55

Strain: lineage3.1.2.1

Drug-resistance: Other

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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
lineage3 East-African-Indian CAS RD750 1.0
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.2 East-African-Indian CAS;CAS2 RD750 1.0
lineage3.1.2.1 East-African-Indian CAS2 RD750 0.99
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 1472644 n.799C>T non_coding_transcript_exon_variant 0.22 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.11
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.12
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.12
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.12
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.12
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.19
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.13
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.12
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.22
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.22
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.25
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.29
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.29
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.29
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.26
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.26
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.24
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.24
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.26
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.25
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.23
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.25
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.21
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.11
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.2
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.13
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.2
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.13
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.2
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.13
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.2
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.17
rrs 1473291 n.1446G>A non_coding_transcript_exon_variant 0.17
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.18
rrs 1473316 n.1471C>A non_coding_transcript_exon_variant 0.17
rrs 1473318 n.1473G>A non_coding_transcript_exon_variant 0.15
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.17
rrs 1473327 n.1482A>G non_coding_transcript_exon_variant 0.17
rrs 1473328 n.1483C>T non_coding_transcript_exon_variant 0.17
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.13
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.1
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
PPE35 2168604 p.Pro670Leu missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4245770 c.-744C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0