TB-Profiler result

Run: SRR21279417
Summary

Run ID: SRR21279417

Sample name:

Date: 04-04-2023 01:56:58

Number of reads: 15120981

Percentage reads mapped: 98.46

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
lineage2.2 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
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 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 620625 p.Ile245Met missense_variant 1.0
rpoB 761621 p.Met605Ile missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 0.99
rpoC 766967 p.Pro1200Thr missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
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
rplC 801257 p.Ser150Phe missense_variant 0.13
fbiC 1303169 p.Gly80Asp missense_variant 1.0
fbiC 1304395 p.Glu489Lys missense_variant 0.33
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.1
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 2155766 p.His116Asn missense_variant 0.22
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170032 p.Gly194Val missense_variant 0.3
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518801 c.687G>A synonymous_variant 0.11
eis 2714846 p.Val163Ile missense_variant 0.4
pepQ 2859978 p.Cys147* stop_gained 0.29
pepQ 2860101 c.318C>T synonymous_variant 0.14
pepQ 2860229 p.Ala64Thr missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339552 c.435G>A synonymous_variant 0.14
fbiD 3339751 p.Ala212Ser missense_variant 0.55
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474997 p.Gly331Trp missense_variant 0.4
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3642376 p.Ala281Val missense_variant 0.2
clpC1 4038202 p.Ala835Ser missense_variant 0.29
embC 4241633 p.Gly591Arg missense_variant 0.14
embC 4242202 c.2340C>T synonymous_variant 0.14
embC 4242335 p.Gly825Ser missense_variant 0.16
embC 4242344 p.Ala828Thr missense_variant 0.12
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244856 p.Ala542Thr missense_variant 0.2
embA 4244894 c.1662C>T synonymous_variant 0.25
embB 4247015 p.Ser168Thr missense_variant 0.2
embB 4247934 p.Gly474Val missense_variant 0.16
embB 4248584 p.Arg691Ser missense_variant 0.22
embB 4249200 p.Gln896Leu missense_variant 0.12
embB 4249230 p.Gly906Glu missense_variant 0.11
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267936 p.Val301Met missense_variant 0.13
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