TB-Profiler result

Run: SRR21277807
Summary

Run ID: SRR21277807

Sample name:

Date: 04-04-2023 01:44:39

Number of reads: 14091991

Percentage reads mapped: 97.71

Strain: lineage2.2.1

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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
embB 4247894 p.Pro461Ser missense_variant 0.13 ethambutol
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 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575406 p.Arg20His missense_variant 0.1
mshA 575411 p.Glu22Lys missense_variant 0.1
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576451 c.1104G>A synonymous_variant 0.11
mshA 576502 c.1155C>T synonymous_variant 0.22
mshA 576573 p.Cys409Phe missense_variant 0.11
mshA 576621 p.Ala425Val missense_variant 0.11
ccsA 619776 c.-115A>G upstream_gene_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 0.99
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763926 p.Ala186Asp missense_variant 0.1
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 1303122 c.192G>T synonymous_variant 0.13
fbiC 1304036 p.Arg369Gln missense_variant 0.1
fbiC 1304190 c.1260G>A synonymous_variant 0.18
fbiC 1304191 p.Ala421Ser missense_variant 0.18
fbiC 1304247 c.1317C>T synonymous_variant 0.12
fbiC 1304432 p.Ser501* stop_gained 0.16
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406997 p.Ala115Val missense_variant 0.18
Rv1258c 1407158 c.183C>A synonymous_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 0.99
tlyA 1917972 c.33A>G synonymous_variant 0.97
tlyA 1918579 c.640C>A synonymous_variant 0.13
tlyA 1918588 p.Glu217* stop_gained 0.1
katG 2154724 p.Arg463Leu missense_variant 0.99
katG 2155743 p.Gly123Val missense_variant 0.15
katG 2155760 p.Gly118Ser missense_variant 0.14
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170088 c.525G>A synonymous_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519037 p.Val308Asp missense_variant 0.11
eis 2715038 p.Ala99Ser missense_variant 0.15
eis 2715044 p.Leu97Met missense_variant 0.12
eis 2715050 p.Gly95Cys missense_variant 0.1
eis 2715052 p.Arg94Leu missense_variant 0.12
eis 2715059 p.Arg92Ser missense_variant 0.11
folC 2746312 c.1287G>T synonymous_variant 0.14
folC 2746345 c.1254G>A synonymous_variant 0.21
pepQ 2859941 p.Arg160Ser missense_variant 0.12
pepQ 2859942 c.477C>A synonymous_variant 0.11
pepQ 2860206 c.213C>A synonymous_variant 0.12
pepQ 2860589 c.-171G>T upstream_gene_variant 0.33
ribD 2987317 p.Ala160Asp missense_variant 0.13
ribD 2987339 c.501C>T synonymous_variant 0.1
thyX 3067289 c.657C>A synonymous_variant 0.18
thyX 3067428 p.Ala173Val missense_variant 0.18
thyX 3067442 c.504C>A synonymous_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339743 p.Arg209Leu missense_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474934 p.Arg310Ser missense_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641928 p.Leu132Met missense_variant 0.13
fbiB 3641942 c.408G>A synonymous_variant 0.33
fbiB 3642008 c.474C>T synonymous_variant 0.12
fbiB 3642173 c.639G>A synonymous_variant 0.11
fbiB 3642217 p.Thr228Ile missense_variant 0.12
alr 3841029 p.Ala131Val missense_variant 0.1
alr 3841037 c.384G>T synonymous_variant 0.22
alr 3841177 p.Leu82Met missense_variant 0.18
embC 4242383 p.Tyr841Asn missense_variant 0.11
embC 4242395 p.Pro845Thr missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243899 p.Ala223Thr missense_variant 0.11
embA 4243904 c.672G>A synonymous_variant 0.12
embA 4244225 c.993C>A synonymous_variant 0.1
embA 4244270 c.1038G>T synonymous_variant 0.17
embA 4244505 p.Gly425Arg missense_variant 0.16
embA 4244856 p.Ala542Thr missense_variant 0.11
embA 4244864 c.1632G>A synonymous_variant 0.11
embA 4244882 p.Trp550Cys missense_variant 0.12
embA 4244885 c.1653A>T synonymous_variant 0.1
embB 4247859 p.Leu449Gln missense_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 4407927 p.Glu92Asp missense_variant 1.0