TB-Profiler result

Run: SRR21277774
Summary

Run ID: SRR21277774

Sample name:

Date: 04-04-2023 01:41:35

Number of reads: 17857450

Percentage reads mapped: 97.89

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 1.0
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 575484 p.Arg46Leu missense_variant 0.17
mshA 575875 c.528C>A synonymous_variant 0.12
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576522 p.Gly392Val missense_variant 0.11
ccsA 619802 c.-89G>T upstream_gene_variant 0.13
ccsA 620625 p.Ile245Met missense_variant 0.99
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
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303924 p.Gln332Lys missense_variant 0.11
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407094 p.Gly83Cys missense_variant 0.18
Rv1258c 1407537 c.-197G>A upstream_gene_variant 0.11
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
tlyA 1917977 p.Arg13Gln missense_variant 0.16
tlyA 1918580 p.Arg214Leu missense_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170049 c.564G>T synonymous_variant 0.15
PPE35 2170089 p.Pro175Gln missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519048 p.Gly312Ser missense_variant 0.12
folC 2746332 p.Glu423* stop_gained 0.11
folC 2746342 c.1257G>A synonymous_variant 0.23
pepQ 2859605 p.Gly272Trp missense_variant 0.11
pepQ 2859606 c.813G>T synonymous_variant 0.1
pepQ 2859609 c.810G>A synonymous_variant 0.1
pepQ 2859937 p.Gly161Val missense_variant 0.2
pepQ 2860194 c.225C>A synonymous_variant 0.12
pepQ 2860589 c.-171G>T upstream_gene_variant 0.33
thyX 3067276 p.Pro224Thr missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087316 p.Val166Ala missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474949 p.Ala315Thr missense_variant 0.11
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
alr 3841060 p.Gly121Arg missense_variant 0.12
alr 3841176 p.Leu82Gln missense_variant 0.1
clpC1 4038497 c.2208C>T synonymous_variant 1.0
clpC1 4038541 c.2164C>T synonymous_variant 1.0
embA 4242415 c.-818G>A upstream_gene_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4247028 p.Leu172Arg missense_variant 0.24
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4270025 c.-198_-193delGCGGCC upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407927 p.Glu92Asp missense_variant 1.0