TB-Profiler result

Run: SRR2101407
Summary

Run ID: SRR2101407

Sample name:

Date: 03-04-2023 23:41:58

Number of reads: 460004

Percentage reads mapped: 99.56

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 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
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
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 8681 c.1380C>T synonymous_variant 0.11
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 619831 c.-60T>G upstream_gene_variant 0.2
ccsA 620625 p.Ile245Met missense_variant 0.94
rpoB 761122 p.Pro439Gln missense_variant 0.13
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764943 p.His525Pro missense_variant 0.12
rpoC 765035 p.Arg556Ser missense_variant 0.11
rpoC 765739 c.2370G>T synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775977 c.2503delG frameshift_variant 0.13
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
fbiC 1302874 c.-57G>A upstream_gene_variant 1.0
fbiC 1302875 c.-56C>T upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474010 n.353G>T non_coding_transcript_exon_variant 0.18
rpsA 1833646 c.105T>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
katG 2154982 p.Met377Thr missense_variant 0.12
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518299 p.Gly62Ala missense_variant 0.12
pepQ 2860518 c.-100C>A upstream_gene_variant 0.12
Rv2752c 3066091 p.Phe34Ser missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612472 c.645C>A synonymous_variant 0.2
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3642556 p.Leu341Arg missense_variant 0.25
ddn 3987126 p.Asn95Asp missense_variant 0.13
embC 4240748 p.Tyr296Asp missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243484 c.252C>A synonymous_variant 0.1
embB 4249614 p.Gly1034Asp missense_variant 0.18
aftB 4267076 p.Phe587Leu missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268102 c.735C>T synonymous_variant 0.22
aftB 4268799 p.Val13Ala missense_variant 0.13
whiB6 4338583 c.-62C>A upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407620 p.Tyr195His missense_variant 1.0
gid 4407844 p.Glu120Val missense_variant 0.14
gid 4407927 p.Glu92Asp missense_variant 1.0
gid 4407986 p.Gly73Trp missense_variant 0.13