TB-Profiler result

Run: SRR6045759
Summary

Run ID: SRR6045759

Sample name:

Date: 04-04-2023 12:04:56

Number of reads: 2337111

Percentage reads mapped: 96.51

Strain: lineage2.2.1

Drug-resistance: RR-TB

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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
rpoB 761161 p.Leu452Pro missense_variant 1.0 rifampicin
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 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472141 n.296G>A non_coding_transcript_exon_variant 0.11
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.1
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.11
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.14
rrs 1472412 n.567A>G non_coding_transcript_exon_variant 0.15
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.15
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.15
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.11
rrs 1472436 n.591G>T non_coding_transcript_exon_variant 0.11
rrs 1472437 n.592T>G non_coding_transcript_exon_variant 0.11
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.11
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.12
rrs 1472449 n.604C>T non_coding_transcript_exon_variant 0.12
rrs 1472450 n.605A>C non_coding_transcript_exon_variant 0.12
rrs 1472451 n.606C>T non_coding_transcript_exon_variant 0.11
rrs 1472462 n.617T>G non_coding_transcript_exon_variant 0.12
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.12
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.14
rrs 1472474 n.629C>G non_coding_transcript_exon_variant 0.14
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.15
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.12
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.13
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.13
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.13
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.13
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.13
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.13
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.19
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.17
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.18
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.18
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.18
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.17
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.17
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.13
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.18
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.19
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.19
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.2
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.12
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.12
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.12
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.12
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.12
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.15
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.11
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.11
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.12
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.1
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.12
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.13
rrl 1473942 n.285G>T non_coding_transcript_exon_variant 0.5
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.15
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.15
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.1
rrl 1474896 n.1239A>T non_coding_transcript_exon_variant 0.11
rrl 1474901 n.1244A>T non_coding_transcript_exon_variant 0.12
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.12
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.13
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.19
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.18
rrl 1474938 n.1281G>A non_coding_transcript_exon_variant 0.13
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.11
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.11
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.1
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.1
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.12
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.2
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.17
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.13
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.17
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.1
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.19
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.2
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.17
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.12
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.14
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
alr 3840255 p.Glu389Gly missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
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