TB-Profiler result

Run: ERR4815265
Summary

Run ID: ERR4815265

Sample name:

Date: 01-04-2023 13:46:17

Number of reads: 5663402

Percentage reads mapped: 99.15

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 0.64 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
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_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
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.12
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.31
rrs 1472108 n.263C>A non_coding_transcript_exon_variant 0.18
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.13
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.13
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.12
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.11
rrs 1472130 n.285G>A non_coding_transcript_exon_variant 0.11
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.55
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.17
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.57
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.46
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.71
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.83
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.83
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.85
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.85
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.82
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.64
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 1.0
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 1.0
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.67
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.64
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.64
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.66
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.63
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.16
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.66
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.21
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.52
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.55
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.78
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.5
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.4
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.4
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.33
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.33
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.33
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.33
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.33
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.5
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.57
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.56
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.5
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.29
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.33
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.19
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.11
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.11
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.33
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.29
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.29
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.25
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.23
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.62
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.62
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.62
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.73
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.73
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.73
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.73
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.4
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.33
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.45
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.4
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.29
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.23
inhA 1674210 c.9A>C synonymous_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
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
Rv1979c 2222918 p.Thr83Ala missense_variant 1.0
Rv1979c 2223293 c.-129A>G 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
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3878533 c.-26G>T upstream_gene_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0