TB-Profiler result

Run: ERR2513109
Summary

Run ID: ERR2513109

Sample name:

Date: 31-03-2023 19:28:06

Number of reads: 752027

Percentage reads mapped: 99.01

Strain: lineage3

Drug-resistance: Sensitive

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 East-African-Indian CAS 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
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 6666 p.Gln476Arg missense_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7504 p.Arg68His missense_variant 0.14
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9596 c.2295G>T synonymous_variant 1.0
fgd1 491438 p.Asp219Val missense_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576410 p.Phe355Leu missense_variant 0.4
ccsA 620784 c.894C>T synonymous_variant 0.2
rpoB 759718 c.-89A>G upstream_gene_variant 0.14
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
rpoB 763245 p.Glu1147Gln missense_variant 0.2
rpoC 764181 p.Asp271Gly missense_variant 1.0
rpoC 765550 p.Ser727Arg missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777692 c.789C>A synonymous_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 1.0
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.33
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.29
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.25
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.5
inhA 1674328 p.Arg43Trp missense_variant 0.14
rpsA 1833404 c.-138G>A upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154937 p.Arg392Pro missense_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.33
PPE35 2170206 p.Ala136Val missense_variant 0.11
PPE35 2170769 c.-157C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288975 c.267A>G synonymous_variant 0.13
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2715490 c.-159delG upstream_gene_variant 0.12
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
thyX 3067293 p.Gln218Arg missense_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087769 p.Thr317Met missense_variant 0.14
fbiD 3338939 c.-179C>T upstream_gene_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642691 p.Val386Asp missense_variant 0.12
clpC1 4039169 p.Glu512Asp missense_variant 0.11
clpC1 4039178 c.1527G>C synonymous_variant 0.1
clpC1 4040057 c.648C>T synonymous_variant 0.22
panD 4044066 c.216C>T synonymous_variant 0.12
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246573 c.60T>C synonymous_variant 0.12
embB 4247512 c.999T>C synonymous_variant 0.17
embB 4247516 p.Asn335Asp missense_variant 0.12
embB 4247696 p.Trp395Met missense_variant 0.15
aftB 4266998 p.Cys613* stop_gained 0.18
ubiA 4269038 p.Val266Ile missense_variant 0.12
ethR 4326901 c.-648C>A upstream_gene_variant 0.12
ethR 4326904 c.-645_-643delGAGinsCAA upstream_gene_variant 0.12
ethR 4326907 c.-642C>A upstream_gene_variant 0.12
ethR 4326925 c.-624A>G upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0