TB-Profiler result

Run: SRR6855708
Summary

Run ID: SRR6855708

Sample name:

Date: 04-04-2023 17:43:04

Number of reads: 267407

Percentage reads mapped: 96.38

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
gyrB 7206 p.Val656Ala missense_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8960 c.1659C>T synonymous_variant 0.2
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9809 c.2508G>T synonymous_variant 0.15
fgd1 491328 c.546C>G synonymous_variant 1.0
fgd1 491330 p.Lys183Met 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
rpoB 760900 c.1096delC frameshift_variant 0.25
rpoB 761387 c.1581C>G synonymous_variant 0.2
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764065 p.Lys232Asn missense_variant 0.13
rpoC 767083 c.3714C>T synonymous_variant 0.14
mmpL5 775592 c.2889G>A synonymous_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 1303374 c.444T>C synonymous_variant 0.15
fbiC 1305346 p.Asp806Tyr missense_variant 0.13
Rv1258c 1406506 p.Ala279Thr missense_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472103 n.258G>C non_coding_transcript_exon_variant 0.11
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.14
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.11
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.13
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.14
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.14
rrl 1474058 n.401C>T non_coding_transcript_exon_variant 0.18
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.22
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.2
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.25
rrl 1474182 n.525C>G non_coding_transcript_exon_variant 0.25
rrl 1474183 n.526T>G non_coding_transcript_exon_variant 0.25
rrl 1474185 n.529delA non_coding_transcript_exon_variant 0.25
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.25
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 0.2
rrl 1474200 n.543_544insG non_coding_transcript_exon_variant 0.2
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.18
rrl 1474453 n.796T>C non_coding_transcript_exon_variant 0.13
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.12
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.13
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.18
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.23
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.23
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.23
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.23
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.33
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.33
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.27
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.31
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.31
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.31
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.21
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.21
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.18
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154211 p.Leu634Pro missense_variant 0.14
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155995 p.Trp39Cys missense_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169732 p.Asn294Ser missense_variant 0.13
Rv1979c 2222949 c.216C>A synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086942 p.Glu41Asp missense_variant 0.11
fbiD 3339196 c.83delC frameshift_variant 0.14
Rv3083 3449105 p.Pro201His missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
alr 3841183 p.Thr80Ala missense_variant 0.12
embC 4239985 c.123T>G synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243559 c.327C>A synonymous_variant 0.22
embA 4245386 c.2154C>T synonymous_variant 0.11
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267757 c.1080T>A synonymous_variant 0.13
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 4407933 c.270C>T synonymous_variant 0.18