| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| ycf3-trnS-GGA | LSC | 869 | 0.0047 | 0.96 | 52.4 | yes | View details |
| ndhC-trnV-UAC | LSC | 454 | 0.0057 | 0.99 | 51.8 | yes | View details |
| rbcL-psaI | LSC | 1392 | 0.0041 | 0.96 | 42.1 | yes | View details |
| ycf4-cemA | LSC | 699 | 0.0071 | 0.97 | 55.3 | yes | View details |
| petA-psbJ | LSC | 554 | 0.0062 | 0.99 | 57.5 | yes | View details |
| ycf1 | IRb | 1101 | 0.0024 | 0.99 | 46.8 | no | View details |
| ndhF | SSC | 2214 | 0.0028 | 1.00 | 48.4 | yes | View details |
| ndhD | SSC | 1557 | 0.0024 | 1.00 | 29.9 | yes | View details |
| ndhA | SSC | 2116 | 0.0034 | 1.00 | 46.2 | yes | View details |
| ycf1 | SSC | 3786 | 0.0041 | 1.00 | 34.9 | yes | View details |
| ccsA-ndhD | SSC | 144 | 0.0458 | 1.00 | 55.9 | yes | View details |
| trnK-UUU-rps16 | LSC | 745 | 0.0048 | 1.00 | 55.1 | yes | View details |
| trnE-UUC-trnT-GGU | LSC | 711 | 0.0047 | 1.00 | 53.5 | yes | View details |
| psbE-petL | LSC | 1009 | 0.0022 | 0.98 | 52.0 | yes | View details |
| trnS-GCU-trnG-UCC | LSC | 536 | 0.0030 | 0.96 | 51.9 | yes | View details |
| psbB-psbT | LSC | 168 | 0.0061 | 0.97 | 51.9 | yes | View details |
| rpoB-trnC-GCA | LSC | 1207 | 0.0022 | 0.98 | 51.7 | yes | View details |
| ndhE-ndhG | SSC | 217 | 0.0074 | 1.00 | 51.6 | yes | View details |
| ndhF-rpl32 | SSC | 588 | 0.0025 | 1.00 | 51.5 | yes | View details |
| Candidate markers include all hotspot labels marked in the diversity plot, listed in genomic order, plus the top 10 remaining regions by MarkerSeek score. Primer design is attempted for every listed region. Primer available: yes means at least one valid primer pair was found; no means no valid pair passed screening; NA means primer design was skipped. | |||||||
Species
38
Genome length
146–148 kb
Candidate markers
266
Primer pairs
95
Genome-wide nucleotide diversity
Candidate markers
10 hotspot labels from the diversity plot in genomic order, plus the top 9 remaining regions by MarkerSeek score (out of 266 candidates).
Primer pairs
Showing the top 30 of 95 primer pairs (ranked by primer score).
| Primer ID | Label | Forward | Reverse | Amplicon (bp) | Cross-species rate | Score |
|---|---|---|---|---|---|---|
| trnK-UUU-rps16_p1 | trnK-UUU-rps16 | CCGATGGTATGGACGAATCC |
GGTGCTCAACCTACAGGAAC |
903–966 | 1.000 | 83.9 |
| trnK-UUU-rps16_p2 | trnK-UUU-rps16 | AAAGCCGAGTACTCTACCGT |
GGTGCTCAACCTACAGGAAC |
842–905 | 1.000 | 83.3 |
| trnK-UUU-rps16_p3 | trnK-UUU-rps16 | AAGCCGAGTACTCTACCGTT |
GGTGCTCAACCTACAGGAAC |
841–904 | 1.000 | 83.3 |
| trnK-UUU-rps16_p4 | trnK-UUU-rps16 | CCGCACTTAAAAGCCGAGTA |
GGTGCTCAACCTACAGGAAC |
851–914 | 1.000 | 82.4 |
| trnK-UUU-rps16_p5 | trnK-UUU-rps16 | TGGACGAATCCTTCCCTTCA |
GGTGCTCAACCTACAGGAAC |
894–957 | 1.000 | 81.7 |
| trnS-GCU-trnG-UCC_p1 | trnS-GCU-trnG-UCC | ATTAGCAATCCGCCGCTTTA |
TGAATCAAACCGAAAGACCCT |
480–837 | 1.000 | 73.5 |
| trnS-GCU-trnG-UCC_p2 | trnS-GCU-trnG-UCC | ACGGAAAGAGAGGGATTCGA |
TGAATCAAACCGAAAGACCCT |
529–886 | 1.000 | 72.5 |
| trnS-GCU-trnG-UCC_p3 | trnS-GCU-trnG-UCC | ACAACAACGGAAAGAGAGGG |
TGAATCAAACCGAAAGACCCT |
535–892 | 1.000 | 71.7 |
| trnS-GCU-trnG-UCC_p4 | trnS-GCU-trnG-UCC | GCTTTAGTCCACTCAGCCAT |
TGAATCAAACCGAAAGACCCT |
466–823 | 1.000 | 70.6 |
| trnS-GCU-trnG-UCC_p5 | trnS-GCU-trnG-UCC | AGTCCACTCAGCCATCTCTC |
TGAATCAAACCGAAAGACCCT |
461–818 | 1.000 | 69.8 |
| rpoB-trnC-GCA_p1 | rpoB-trnC-GCA | CCTCATTTCCATTACCGAGCA |
CCGGATTTGAACTGGGGAAA |
1264–1303 | 1.000 | 76.0 |
| rpoB-trnC-GCA_p2 | rpoB-trnC-GCA | CCTCATTTCCATTACCGAGCA |
AAAAGGATTTGCAGTCCCCC |
1246–1285 | 1.000 | 73.9 |
| rpoB-trnC-GCA_p3 | rpoB-trnC-GCA | CCTCATTTCCATTACCGAGC |
CCGGATTTGAACTGGGGAAA |
1264–1303 | 1.000 | 71.0 |
| rpoB-trnC-GCA_p4 | rpoB-trnC-GCA | CCTCATTTCCATTACCGAGCA |
TTTGTTGATCAGGCGACACC |
1283–1322 | 1.000 | 70.6 |
| rpoB-trnC-GCA_p5 | rpoB-trnC-GCA | CCCTCATTTCCATTACCGAGC |
CCGGATTTGAACTGGGGAAA |
1265–1304 | 1.000 | 70.5 |
| trnE-UUC-trnT-GGU_p1 | trnE-UUC-trnT-GGU | AGAGATGTCCTGAACCGCTA |
GAACCGATGACTTACGCCTT |
752–825 | 1.000 | 84.5 |
| trnE-UUC-trnT-GGU_p2 | trnE-UUC-trnT-GGU | AGATGTCCTGAACCGCTAGA |
GAACCGATGACTTACGCCTT |
750–823 | 1.000 | 84.5 |
| trnE-UUC-trnT-GGU_p3 | trnE-UUC-trnT-GGU | TTTCGTAGTACCCTACCCCC |
GAACCGATGACTTACGCCTT |
806–879 | 1.000 | 84.3 |
| trnE-UUC-trnT-GGU_p4 | trnE-UUC-trnT-GGU | AGAGATGTCCTGAACCGCTA |
CCATGGCGTTACTCTACCAC |
731–804 | 1.000 | 84.1 |
| trnE-UUC-trnT-GGU_p5 | trnE-UUC-trnT-GGU | AGATGTCCTGAACCGCTAGA |
CCATGGCGTTACTCTACCAC |
729–802 | 1.000 | 84.1 |
| ycf3-trnS-GGA_p1 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
CCCTCGGTAAACAAAAGCCT |
565–975 | 1.000 | 77.4 |
| ycf3-trnS-GGA_p2 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
TCGGAAAGAGAGGGATTCGA |
586–996 | 1.000 | 77.0 |
| ycf3-trnS-GGA_p3 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
TTCCAATGCTACGCCTTGAA |
536–946 | 1.000 | 76.7 |
| ycf3-trnS-GGA_p4 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
ACCCTCGGTAAACAAAAGCC |
566–976 | 1.000 | 75.1 |
| ycf3-trnS-GGA_p5 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
GGTTGTTCGGAAAGAGAGGG |
592–1002 | 0.974 | 74.1 |
| ndhC-trnV-UAC_p1 | ndhC-trnV-UAC | CGGGGCTAAAACTCCTGAAA |
CCGAGAAAGTCTACGGTTCG |
589–727 | 1.000 | 84.2 |
| ndhC-trnV-UAC_p2 | ndhC-trnV-UAC | CCTTTGCTAATCGGGGCTAA |
CCGAGAAAGTCTACGGTTCG |
600–738 | 1.000 | 82.9 |
| ndhC-trnV-UAC_p3 | ndhC-trnV-UAC | ATCGGGGCTAAAACTCCTGA |
CCGAGAAAGTCTACGGTTCG |
591–729 | 1.000 | 82.4 |
| ndhC-trnV-UAC_p4 | ndhC-trnV-UAC | AATCGGGGCTAAAACTCCTG |
CCGAGAAAGTCTACGGTTCG |
592–730 | 1.000 | 82.4 |
| ndhC-trnV-UAC_p5 | ndhC-trnV-UAC | CGGGGCTAAAACTCCTGAAA |
AGTGCATGTTGGGTCTTTGA |
653–791 | 1.000 | 81.7 |
Result downloads
Reference species (38)
One GenBank record per species. Use the NCBI button to open the Nucleotide entry for the listed accession.
| Species | Accession | Length (bp) | Link |
|---|---|---|---|
| Lappula anocarpa | PQ585762.1 | 146538 | View on NCBI ↗ |
| Lappula balchaschensis | NC_077517.1 | 147561 | View on NCBI ↗ |
| Lappula brachycentra | PQ585769.1 | 147556 | View on NCBI ↗ |
| Lappula caespitosa | PV548680.1 | 146051 | View on NCBI ↗ |
| Lappula consanguinea | PQ585772.1 | 146504 | View on NCBI ↗ |
| Lappula coronifera | PV548679.1 | 146084 | View on NCBI ↗ |
| Lappula deserticola | PV548694.1 | 147837 | View on NCBI ↗ |
| Lappula drobovii | PQ585779.1 | 147275 | View on NCBI ↗ |
| Lappula duplicicarpa | PQ585771.1 | 147547 | View on NCBI ↗ |
| Lappula duplicicarpa var. brevispinula | PQ571327.1 | 147547 | View on NCBI ↗ |
| Lappula effusa | PV548706.1 | 147590 | View on NCBI ↗ |
| Lappula granulata | PV534068.1 | 146286 | View on NCBI ↗ |
| Lappula heteracantha | PQ585767.1 | 146063 | View on NCBI ↗ |
| Lappula heteromorpha | PV548685.1 | 146056 | View on NCBI ↗ |
| Lappula himalayensis | PV548687.1 | 147603 | View on NCBI ↗ |
| Lappula krylovii | PV548707.1 | 147760 | View on NCBI ↗ |
| Lappula lasiocarpa | NC_077516.1 | 147578 | View on NCBI ↗ |
| Lappula lipschitzii | PQ585773.1 | 147335 | View on NCBI ↗ |
| Lappula macrantha | PQ571329.1 | 147564 | View on NCBI ↗ |
| Lappula microcarpa | PQ585777.1 | 147568 | View on NCBI ↗ |
| Lappula mogoltavica | PV548695.1 | 147362 | View on NCBI ↗ |
| Lappula monocarpa | NC_077515.1 | 147558 | View on NCBI ↗ |
| Lappula myosotis | NC_060614.1 | 146668 | View on NCBI ↗ |
| Lappula nevskii | PV548703.1 | 147601 | View on NCBI ↗ |
| Lappula nuratavica | PV548704.1 | 147600 | View on NCBI ↗ |
| Lappula patula | NC_077514.1 | 147558 | View on NCBI ↗ |
| Lappula pavlovii | PV548684.1 | 147534 | View on NCBI ↗ |
| Lappula pratensis | PV548688.1 | 147629 | View on NCBI ↗ |
| Lappula ramulosa | NC_077513.1 | 146049 | View on NCBI ↗ |
| Lappula redowskii | PQ580734.1 | 146286 | View on NCBI ↗ |
| Lappula semialata | PV548702.1 | 147291 | View on NCBI ↗ |
| Lappula semiglabra | PQ585763.1 | 147576 | View on NCBI ↗ |
| Lappula sericata | PV548681.1 | 147567 | View on NCBI ↗ |
| Lappula shanhsiensis | PQ580735.1 | 146519 | View on NCBI ↗ |
| Lappula spinocarpos | NC_077512.1 | 147758 | View on NCBI ↗ |
| Lappula stricta | NC_077511.1 | 147634 | View on NCBI ↗ |
| Lappula tianschanica | PQ580733.1 | 147617 | View on NCBI ↗ |
| Lappula transalaica | PV548686.1 | 147555 | View on NCBI ↗ |