TB-Profiler result

Run: DRR034407
Summary

Run ID: DRR034407

Sample name:

Date: 31-03-2023 06:57:47

Number of reads: 201207

Percentage reads mapped: 99.47

Strain: lineage2.2.1

Drug-resistance: Sensitive

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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 0.98
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
gyrA 6973 c.-329G>A upstream_gene_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
gyrA 9749 c.2448G>C synonymous_variant 0.15
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575576 c.229C>T synonymous_variant 0.88
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620370 c.480C>A synonymous_variant 0.18
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759732 c.-75C>T upstream_gene_variant 0.33
rpoB 759820 p.Arg5Leu missense_variant 0.29
rpoB 762655 p.Ala950Asp missense_variant 0.29
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 777512 p.Cys323Trp missense_variant 0.33
mmpS5 778866 p.Ile14Val missense_variant 0.22
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303208 p.Pro93Leu missense_variant 0.25
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1416391 c.957C>A synonymous_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472471 n.626G>T non_coding_transcript_exon_variant 0.2
rrs 1472712 n.867G>T non_coding_transcript_exon_variant 0.18
rrl 1473632 n.-26G>A upstream_gene_variant 1.0
rrl 1474789 n.1132G>A non_coding_transcript_exon_variant 0.14
rrl 1476383 n.2726T>C non_coding_transcript_exon_variant 0.2
inhA 1674693 c.492C>T synonymous_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Gly missense_variant 0.4
katG 2154645 c.1467C>T synonymous_variant 0.22
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167700 c.2913C>A synonymous_variant 0.4
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2221730 p.Ser479Gly missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987274 p.Thr146Ala missense_variant 0.33
ribD 2987390 c.552T>G synonymous_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087522 p.Val235Met missense_variant 0.11
fbiD 3339002 c.-116A>C upstream_gene_variant 0.4
fbiD 3339663 p.Trp182Cys missense_variant 0.4
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474211 p.Lys69Glu missense_variant 0.29
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641142 c.-393C>T upstream_gene_variant 0.29
alr 3841352 p.Leu23Phe missense_variant 0.18
alr 3841557 c.-137T>A upstream_gene_variant 0.18
panD 4043881 p.Pro134His missense_variant 0.25
embC 4240423 c.561G>A synonymous_variant 1.0
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 4407630 p.Cys191Trp missense_variant 0.33
gid 4407927 p.Glu92Asp missense_variant 1.0
gid 4408273 c.-71C>A upstream_gene_variant 0.22