TB-Profiler result

Run: ERR4831890
Summary

Run ID: ERR4831890

Sample name:

Date: 01-04-2023 21:11:27

Number of reads: 935290

Percentage reads mapped: 99.66

Strain: lineage2.2.1

Drug-resistance: HR-TB

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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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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 5573 p.Asp112Tyr missense_variant 0.15
gyrA 6385 c.-917G>C upstream_gene_variant 0.13
gyrB 6521 p.Arg428Trp missense_variant 0.11
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
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759670 c.-137C>T upstream_gene_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763080 p.Gly1092Cys missense_variant 0.12
rpoC 764376 p.Ala336Gly missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpR5 778184 c.-806C>A upstream_gene_variant 0.11
mmpR5 779257 p.Arg90Cys missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303701 c.771C>A synonymous_variant 0.12
fbiC 1303748 p.Thr273Lys missense_variant 0.15
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1417239 p.Ala37Ser missense_variant 0.14
embR 1417276 c.72C>T synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.18
rrl 1475914 n.2257C>T non_coding_transcript_exon_variant 0.22
rrl 1476042 n.2387delT non_coding_transcript_exon_variant 0.22
rrl 1476712 n.3055C>A non_coding_transcript_exon_variant 0.18
rpsA 1833849 p.Ser103Tyr missense_variant 0.13
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103225 c.-183A>C upstream_gene_variant 0.29
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168618 c.1995G>A synonymous_variant 0.14
Rv1979c 2222692 p.Ala158Glu missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726341 p.Val50Gly missense_variant 0.29
thyA 3074105 p.Pro123Ser missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087675 p.Pro286Thr missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568503 c.177G>T synonymous_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3878255 p.Val85Met missense_variant 0.12
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
ethA 4326377 p.Thr366Met missense_variant 0.2
ethA 4326676 p.Ser266Arg missense_variant 1.0
ethA 4327094 p.Ser127Ile missense_variant 0.11
ethR 4327462 c.-87G>A upstream_gene_variant 0.15
ethA 4327644 c.-171G>T upstream_gene_variant 0.14
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