TB-Profiler result

Run: ERR2509681
Summary

Run ID: ERR2509681

Sample name:

Date: 31-03-2023 18:32:24

Number of reads: 441758

Percentage reads mapped: 98.14

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 0.94
gyrA 8935 p.Gln545Pro missense_variant 0.12
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
ccsA 620748 c.858T>G synonymous_variant 0.36
rpoB 761152 p.Leu449Gln missense_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763337 c.-33A>T upstream_gene_variant 0.11
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 1304710 p.Ala594Ser missense_variant 0.13
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471677 n.-169A>C upstream_gene_variant 0.29
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103034 c.9C>T synonymous_variant 0.13
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168873 p.Asn580Lys missense_variant 0.29
PPE35 2169394 p.Ala407Thr missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2986758 c.-81A>C upstream_gene_variant 0.2
ald 3086747 c.-73A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473998 c.-9G>A upstream_gene_variant 1.0
fprA 3473998 c.-10_-9insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640814 p.Glu91Val missense_variant 0.12
clpC1 4038880 p.Gln609Lys missense_variant 0.25
clpC1 4039484 c.1221T>G synonymous_variant 0.31
embC 4239973 c.111T>G synonymous_variant 0.25
embC 4240643 c.783dupG frameshift_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245834 c.2603_2609delTGGTGGT frameshift_variant 0.18
embA 4245844 p.Val871Glu missense_variant 0.17
embA 4245846 p.Ser872Thr missense_variant 0.17
embA 4245848 c.2616_2617insACCACCA frameshift_variant 0.17
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268967 c.-131G>A upstream_gene_variant 0.5
ubiA 4269872 c.-39G>T upstream_gene_variant 0.12
whiB6 4338350 p.Arg58Gly missense_variant 0.12
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
gid 4408005 c.198G>T synonymous_variant 0.12