TB-Profiler result

Run: SRR1204000
Summary

Run ID: SRR1204000

Sample name:

Date: 03-04-2023 06:10:07

Number of reads: 1908423

Percentage reads mapped: 95.37

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 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.99
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 0.97
ccsA 620314 c.424C>T synonymous_variant 0.13
ccsA 620325 c.435G>T synonymous_variant 0.17
ccsA 620337 c.447C>G synonymous_variant 0.18
ccsA 620340 c.450C>G synonymous_variant 0.18
ccsA 620358 c.468C>G synonymous_variant 0.18
ccsA 620397 c.507C>G synonymous_variant 0.16
ccsA 620404 c.514C>T synonymous_variant 0.14
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766765 c.3396A>C synonymous_variant 0.13
rpoC 766774 c.3405T>C synonymous_variant 0.13
rpoC 766792 c.3423C>G synonymous_variant 0.17
rpoC 766795 c.3426C>T synonymous_variant 0.16
rpoC 766801 c.3432C>T synonymous_variant 0.16
rpoC 766804 c.3435A>G synonymous_variant 0.15
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 801297 c.489C>T synonymous_variant 0.12
rplC 801312 c.504G>C synonymous_variant 0.13
rplC 801339 c.531T>G synonymous_variant 0.12
rplC 801341 p.Leu178Gln missense_variant 0.12
rplC 801348 c.540T>G synonymous_variant 0.12
rplC 801357 c.549T>C synonymous_variant 0.12
rplC 801372 c.564G>A synonymous_variant 0.12
rplC 801385 c.577C>T synonymous_variant 0.12
fbiC 1304565 c.1635C>G synonymous_variant 0.11
fbiC 1304580 c.1650T>C synonymous_variant 0.15
fbiC 1304598 c.1668C>T synonymous_variant 0.14
fbiC 1304613 c.1683T>C synonymous_variant 0.14
fbiC 1304628 c.1698G>C synonymous_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_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
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyX 3067316 c.630A>G synonymous_variant 0.13
thyX 3067325 c.621A>G synonymous_variant 0.12
thyX 3067331 c.615C>T synonymous_variant 0.13
thyX 3067355 c.591A>C synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3877971 p.Asp179Glu missense_variant 0.12
panD 4044403 c.-125_-123dupCTG upstream_gene_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244783 c.1556_1562delTCGCGGT frameshift_variant 0.13
embB 4247608 c.1095G>C synonymous_variant 0.12
embB 4247611 c.1098G>C synonymous_variant 0.13
embB 4248409 c.1896A>G synonymous_variant 0.11
embB 4248424 c.1911G>A synonymous_variant 0.12
embB 4248430 c.1917T>C synonymous_variant 0.12
embB 4248448 c.1935C>T synonymous_variant 0.11
embB 4248457 c.1944T>C synonymous_variant 0.11
embB 4248697 c.2184A>C synonymous_variant 0.12
embB 4248706 c.2193G>C synonymous_variant 0.11
aftB 4267647 p.Asp397Gly missense_variant 1.0
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 4407927 p.Glu92Asp missense_variant 1.0