TB-Profiler result

Run: SRR4037932
Summary

Run ID: SRR4037932

Sample name:

Date: 04-04-2023 07:46:42

Number of reads: 624053

Percentage reads mapped: 99.61

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 620198 p.Gln103Arg missense_variant 0.14
ccsA 620625 p.Ile245Met missense_variant 0.89
rpoB 759712 c.-95G>A upstream_gene_variant 0.22
rpoB 761030 c.1224G>A synonymous_variant 0.29
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766111 c.2742G>A synonymous_variant 0.25
rpoC 767281 c.3912C>A synonymous_variant 0.22
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 801157 c.351delC frameshift_variant 0.12
fbiC 1303675 p.Gly249Ser missense_variant 0.18
fbiC 1303877 p.Ala316Val missense_variant 0.14
fbiC 1303968 c.1038G>T synonymous_variant 0.18
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406982 p.Gly120Asp missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 0.82
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
eis 2714816 p.Gly173Ser missense_variant 0.12
ahpC 2726338 p.Val49Gly missense_variant 0.4
pepQ 2859531 c.888C>T synonymous_variant 0.15
ribD 2986962 p.Arg42Trp missense_variant 0.13
Rv2752c 3065834 p.Arg120Ser missense_variant 0.15
Rv2752c 3065978 p.Asp72Tyr missense_variant 0.2
thyX 3067221 p.Ala242Val missense_variant 0.25
ald 3086691 c.-129C>T upstream_gene_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568626 c.53delT frameshift_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3642695 c.1161G>A synonymous_variant 0.12
rpoA 3878256 c.252G>A synonymous_variant 0.5
clpC1 4038857 c.1848C>A synonymous_variant 0.3
embC 4240344 p.Ala161Val missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243139 p.Arg1093Cys missense_variant 0.14
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245561 p.Val777Met missense_variant 0.17
embB 4247565 p.Arg351His missense_variant 0.17
embB 4247605 c.1092G>A synonymous_variant 0.18
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethR 4327582 p.Pro12Ser missense_variant 0.33
whiB6 4338260 p.Arg88Trp 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