TB-Profiler result

Run: SRR21277499

Summary

Run ID: SRR21277499

Sample name:

Date: 04-04-2023 01:17:19

Number of reads: 12530256

Percentage reads mapped: 98.97

Strain: lineage2.2.1.1

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
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 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 8400 p.Asp367Asn 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
mshA 576560 c.1214delT frameshift_variant 0.12
ccsA 619733 c.-158G>A upstream_gene_variant 0.1
ccsA 620015 p.Arg42His missense_variant 0.17
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 777330 p.Ala384Val missense_variant 0.13
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303113 p.Ser61Arg missense_variant 0.21
fbiC 1303123 p.Val65Leu missense_variant 0.12
fbiC 1304183 p.Ala418Glu missense_variant 0.17
fbiC 1304232 c.1302G>T synonymous_variant 0.11
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
tlyA 1918074 c.135C>T synonymous_variant 0.12
tlyA 1918566 c.627C>A synonymous_variant 0.11
tlyA 1918580 p.Arg214Leu missense_variant 0.13
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170086 p.Ala176Glu missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518871 p.His253Tyr missense_variant 1.0
eis 2714846 p.Val163Ile missense_variant 1.0
eis 2715037 p.Ala99Val missense_variant 0.13
folC 2746332 p.Glu423* stop_gained 0.12
pepQ 2859605 p.Gly272Trp missense_variant 0.11
pepQ 2859939 c.480C>A synonymous_variant 0.11
pepQ 2860153 p.Glu89Val missense_variant 0.11
Rv2752c 3065965 p.Ala76Glu missense_variant 1.0
thyX 3067279 p.Ala223Thr missense_variant 0.21
thyX 3067428 p.Ala173Val missense_variant 0.12
thyX 3067431 p.Arg172Leu missense_variant 0.15
thyX 3067463 c.483C>A synonymous_variant 0.14
thyX 3067872 p.Trp25Leu missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339570 c.453G>A synonymous_variant 0.11
fbiD 3339731 p.Pro205His missense_variant 0.12
fbiD 3339739 p.Ala208Ser missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474982 p.Gly326Trp missense_variant 0.1
Rv3236c 3612813 p.Thr102Ala missense_variant 0.99
clpC1 4038191 p.His838Gln missense_variant 0.11
embC 4242494 p.Asp878Tyr missense_variant 0.33
embC 4242547 p.Glu895Asp missense_variant 0.14
embC 4242585 p.Ala908Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243600 p.Ala123Val missense_variant 0.15
embA 4243609 p.Ala126Val missense_variant 0.1
embA 4244486 c.1254C>A synonymous_variant 0.15
embA 4244563 p.Arg444Gln missense_variant 0.22
embA 4244571 p.Arg447Trp missense_variant 0.21
embA 4244876 c.1644G>T synonymous_variant 0.12
embA 4244879 c.1647C>T synonymous_variant 0.12
embB 4246706 p.Gly65Ser missense_variant 0.13
embB 4246777 c.264G>T synonymous_variant 0.14
embB 4247639 p.Ala376Ser missense_variant 0.1
embB 4248115 c.1602C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4328296 c.-823C>T upstream_gene_variant 1.0
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