TB-Profiler result

Run: SRR18002949
Summary

Run ID: SRR18002949

Sample name:

Date: 03-04-2023 19:11:08

Number of reads: 1736415

Percentage reads mapped: 61.47

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 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 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
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.22
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.22
rrs 1472141 n.296G>A non_coding_transcript_exon_variant 0.25
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.38
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.29
rrs 1472178 n.333C>T non_coding_transcript_exon_variant 0.25
rrs 1472186 n.341C>T non_coding_transcript_exon_variant 0.18
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.12
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.18
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.18
rrl 1474832 n.1175A>G non_coding_transcript_exon_variant 0.18
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 0.17
rrl 1474862 n.1205C>T non_coding_transcript_exon_variant 0.17
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.17
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.15
rrl 1474896 n.1239A>T non_coding_transcript_exon_variant 0.15
rrl 1474901 n.1244A>T non_coding_transcript_exon_variant 0.15
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.17
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.18
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.18
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.17
rrl 1474938 n.1281G>A non_coding_transcript_exon_variant 0.18
rrl 1474999 n.1342C>G non_coding_transcript_exon_variant 1.0
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.4
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.4
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.4
rrl 1476187 n.2530T>C non_coding_transcript_exon_variant 0.33
rrl 1476189 n.2532C>G non_coding_transcript_exon_variant 0.33
rrl 1476197 n.2540T>C non_coding_transcript_exon_variant 0.33
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.29
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.29
rrl 1476209 n.2552A>G non_coding_transcript_exon_variant 0.29
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.29
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.29
rrl 1476224 n.2567A>T non_coding_transcript_exon_variant 0.29
rrl 1476225 n.2568T>C non_coding_transcript_exon_variant 0.25
rrl 1476226 n.2569G>A non_coding_transcript_exon_variant 0.25
rrl 1476233 n.2576G>C non_coding_transcript_exon_variant 0.25
rrl 1476235 n.2578A>G non_coding_transcript_exon_variant 0.25
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.43
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.57
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.33
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.62
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.22
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.22
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.3
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.22
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.2
rrl 1476300 n.2643G>A non_coding_transcript_exon_variant 0.18
rrl 1476301 n.2644A>G non_coding_transcript_exon_variant 0.2
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.17
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.31
rrl 1476331 n.2674G>A non_coding_transcript_exon_variant 0.12
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.24
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.22
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.17
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.2
rrl 1476381 n.2724G>A non_coding_transcript_exon_variant 0.25
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.26
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.29
rrl 1476411 n.2754G>T non_coding_transcript_exon_variant 0.23
rrl 1476428 n.2771C>A non_coding_transcript_exon_variant 0.25
rrl 1476463 n.2806C>A non_coding_transcript_exon_variant 0.17
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.21
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.12
rrl 1476676 n.3019A>G non_coding_transcript_exon_variant 0.17
rrl 1476704 n.3053delC non_coding_transcript_exon_variant 1.0
rpsA 1833410 c.-132G>A upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
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
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3878639 c.-132C>G upstream_gene_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.15
embB 4246555 c.42G>C synonymous_variant 0.15
embB 4246556 p.Ala15Pro missense_variant 0.15
embB 4246563 p.Leu17Trp missense_variant 0.23
embB 4246567 c.54G>T synonymous_variant 0.17
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