TB-Profiler result

Run: ERR9119417

Summary

Run ID: ERR9119417

Sample name:

Date: 02-04-2023 09:49:57

Number of reads: 1948790

Percentage reads mapped: 99.18

Strain: lineage2.2.1

Drug-resistance: Other


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
lineage2 East-Asian Beijing RD105 0.99
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 1472359 n.514A>C non_coding_transcript_exon_variant 1.0 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
gyrB 7245 p.Asp669Gly 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
gyrA 9666 p.Arg789Gly missense_variant 0.97
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
mmpL5 776630 c.1851C>T synonymous_variant 0.17
mmpL5 778717 c.-237C>A upstream_gene_variant 0.15
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 1471926 n.81C>G non_coding_transcript_exon_variant 0.12
rrs 1472085 n.240C>T non_coding_transcript_exon_variant 0.13
rrs 1472354 n.509C>A non_coding_transcript_exon_variant 0.13
rrs 1472479 n.637delG non_coding_transcript_exon_variant 0.15
rrs 1473238 n.1393C>G non_coding_transcript_exon_variant 0.17
rrl 1473751 n.94C>A non_coding_transcript_exon_variant 0.17
rrl 1473834 n.177G>A non_coding_transcript_exon_variant 0.17
rrl 1474115 n.458C>A non_coding_transcript_exon_variant 0.17
rrl 1475394 n.1737G>A non_coding_transcript_exon_variant 0.5
rrl 1475724 n.2067C>A non_coding_transcript_exon_variant 0.25
rrl 1475767 n.2110G>T non_coding_transcript_exon_variant 0.22
rrl 1476117 n.2460G>T non_coding_transcript_exon_variant 0.2
rrl 1476118 n.2461G>T non_coding_transcript_exon_variant 0.2
rrl 1476145 n.2488G>T non_coding_transcript_exon_variant 0.18
rrl 1476304 n.2647G>T non_coding_transcript_exon_variant 0.22
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 0.97
ndh 2103108 c.-66G>T upstream_gene_variant 0.15
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168558 c.2055C>T synonymous_variant 0.13
Rv1979c 2223127 p.Lys13Met missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2517980 c.-135C>A upstream_gene_variant 0.15
ahpC 2726479 p.Trp96Leu missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087560 c.741C>A synonymous_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_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
ethA 4326348 p.Gly376Ser missense_variant 0.15
ethA 4326391 c.1083G>T synonymous_variant 0.18
ethA 4326422 p.Gly351Val missense_variant 0.15
ethR 4327555 p.Thr3Ala missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338615 c.-94C>T upstream_gene_variant 0.15
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0