| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| trnK-UUU-rps16 | LSC | 1242 | 0.0076 | 0.95 | 62.1 | yes | View details |
| trnS-GCU-trnG-UCC | LSC | 973 | 0.0079 | 0.96 | 62.5 | yes | View details |
| trnT-GGU-psbD | LSC | 1500 | 0.0085 | 0.96 | 59.9 | yes | View details |
| psbZ-trnG-GCC | LSC | 501 | 0.0201 | 0.93 | 66.6 | yes | View details |
| ndhC-trnV-UAC | LSC | 994 | 0.0354 | 0.78 | 82.6 | yes | View details |
| trnN-GUU-ndhF | IRb | 1843 | 0.0192 | 0.90 | 56.6 | yes | View details |
| ndhF-rpl32 | SSC | 660 | 0.0121 | 0.97 | 64.2 | yes | View details |
| rpl32-trnL-UAG | SSC | 1376 | 0.0074 | 0.96 | 53.4 | yes | View details |
| rpl22-rps19 | LSC | 54 | 0.0422 | 0.96 | 58.6 | yes | View details |
| rps16-trnQ-UUG | LSC | 686 | 0.0037 | 0.94 | 58.4 | yes | View details |
| trnE-UUC-trnT-GGU | LSC | 998 | 0.0017 | 0.91 | 55.8 | yes | View details |
| petA-psbJ | LSC | 1097 | 0.0039 | 1.00 | 55.7 | yes | View details |
| trnR-UCU-atpA | LSC | 310 | 0.0103 | 1.00 | 52.1 | yes | View details |
| atpA-atpF | LSC | 55 | 0.0181 | 1.00 | 51.9 | yes | View details |
| trnG-UCC-trnR-UCU | LSC | 363 | 0.0092 | 0.92 | 51.2 | yes | View details |
| trnM-CAU-atpE | LSC | 219 | 0.0078 | 1.00 | 51.0 | yes | View details |
| trnP-UGG-psaJ | LSC | 446 | 0.0039 | 0.98 | 50.6 | yes | View details |
| psaA-ycf3 | LSC | 774 | 0.0007 | 0.99 | 49.8 | 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
21
Genome length
160–161 kb
Candidate markers
267
Primer pairs
90
Genome-wide nucleotide diversity
Candidate markers
8 hotspot labels from the diversity plot in genomic order, plus the top 10 remaining regions by MarkerSeek score (out of 267 candidates).
Primer pairs
Showing the top 30 of 90 primer pairs (ranked by primer score).
| Primer ID | Label | Forward | Reverse | Amplicon (bp) | Cross-species rate | Score |
|---|---|---|---|---|---|---|
| trnK-UUU-rps16_p1 | trnK-UUU-rps16 | AGTCGCGGTCTTACAAACTC |
ACATTTCAAAGAAGGCGGGA |
1360–1497 | 1.000 | 83.4 |
| trnK-UUU-rps16_p2 | trnK-UUU-rps16 | GTCGCGGTCTTACAAACTCT |
ACATTTCAAAGAAGGCGGGA |
1359–1496 | 1.000 | 83.4 |
| trnK-UUU-rps16_p3 | trnK-UUU-rps16 | GTCGCGGTCTTACAAACTCT |
TCAAAGAAGGCGGGAGTTTT |
1354–1491 | 1.000 | 82.9 |
| trnK-UUU-rps16_p4 | trnK-UUU-rps16 | GTCGCGGTCTTACAAACTCT |
TTCAAAGAAGGCGGGAGTTT |
1355–1492 | 1.000 | 82.9 |
| trnK-UUU-rps16_p5 | trnK-UUU-rps16 | GTCGCGGTCTTACAAACTCT |
TTTCAAAGAAGGCGGGAGTT |
1356–1493 | 1.000 | 82.9 |
| rps16-trnQ-UUG_p1 | rps16-trnQ-UUG | CACAGCCGACCATATCCTTC |
GAGGTTCGAATCCTTCCGTC |
679–985 | 1.000 | 83.7 |
| rps16-trnQ-UUG_p2 | rps16-trnQ-UUG | AAGTCGCACGTTGCTTTCTA |
GAGGTTCGAATCCTTCCGTC |
659–965 | 1.000 | 83.7 |
| rps16-trnQ-UUG_p3 | rps16-trnQ-UUG | GTAAGAATCCACAGCCGACC |
GAGGTTCGAATCCTTCCGTC |
688–994 | 1.000 | 82.0 |
| rps16-trnQ-UUG_p4 | rps16-trnQ-UUG | TGTAAGAATCCACAGCCGAC |
GAGGTTCGAATCCTTCCGTC |
689–995 | 1.000 | 81.7 |
| rps16-trnQ-UUG_p5 | rps16-trnQ-UUG | ACAGCCGACCATATCCTTCA |
GAGGTTCGAATCCTTCCGTC |
678–984 | 1.000 | 80.7 |
| trnS-GCU-trnG-UCC_p1 | trnS-GCU-trnG-UCC | CAATCCGACGCTTTAGTCCA |
AGGGATTAACAGAACGAATCACA |
991–1069 | 1.000 | 60.8 |
| trnS-GCU-trnG-UCC_p2 | trnS-GCU-trnG-UCC | AATCCGACGCTTTAGTCCAC |
AGGGATTAACAGAACGAATCACA |
990–1068 | 1.000 | 60.8 |
| trnS-GCU-trnG-UCC_p3 | trnS-GCU-trnG-UCC | CAATCCGACGCTTTAGTCCA |
GGGATTAACAGAACGAATCACAC |
990–1068 | 1.000 | 60.4 |
| trnS-GCU-trnG-UCC_p4 | trnS-GCU-trnG-UCC | AATCCGACGCTTTAGTCCAC |
GGGATTAACAGAACGAATCACAC |
989–1067 | 1.000 | 60.4 |
| trnS-GCU-trnG-UCC_p5 | trnS-GCU-trnG-UCC | ACAAAAGCGGAAAGAGAGGG |
AGGGATTAACAGAACGAATCACA |
1051–1129 | 1.000 | 59.9 |
| trnG-UCC-trnR-UCU_p1 | trnG-UCC-trnR-UCU | AGCCTTCCAAGCTAACGATG |
AGAAGACCTCTGTCCTATCCA |
413–471 | 1.000 | 69.9 |
| trnG-UCC-trnR-UCU_p2 | trnG-UCC-trnR-UCU | CCTAGCCTTCCAAGCTAACG |
AGAAGACCTCTGTCCTATCCA |
416–474 | 1.000 | 69.6 |
| trnG-UCC-trnR-UCU_p3 | trnG-UCC-trnR-UCU | AGCCTTCCAAGCTAACGATG |
AGGTTTAGAAGACCTCTGTCCT |
419–477 | 1.000 | 69.2 |
| trnG-UCC-trnR-UCU_p4 | trnG-UCC-trnR-UCU | CCTAGCCTTCCAAGCTAACG |
AGGTTTAGAAGACCTCTGTCCT |
422–480 | 1.000 | 68.9 |
| trnG-UCC-trnR-UCU_p5 | trnG-UCC-trnR-UCU | ACCAAAGTTTCACGTTCGGT |
AGAAGACCTCTGTCCTATCCA |
483–541 | 1.000 | 67.7 |
| trnR-UCU-atpA_p1 | trnR-UCU-atpA | GGTTCAAATCCTATTGGACGC |
GAGGAAGCAGAAGCCCTTTT |
407–432 | 1.000 | 71.5 |
| trnR-UCU-atpA_p2 | trnR-UCU-atpA | GGTTCAAATCCTATTGGACGC |
TTCACTGAGGAAGCAGAAGC |
413–438 | 1.000 | 70.6 |
| trnR-UCU-atpA_p3 | trnR-UCU-atpA | GGTTCAAATCCTATTGGACGC |
AGGAAGCAGAAGCCCTTTTG |
406–431 | 1.000 | 69.1 |
| trnR-UCU-atpA_p4 | trnR-UCU-atpA | GGTTCAAATCCTATTGGACGC |
GGAAGCAGAAGCCCTTTTGA |
405–430 | 1.000 | 69.1 |
| trnR-UCU-atpA_p5 | trnR-UCU-atpA | TGGATAGGACAGAGGTCTTCT |
GAGGAAGCAGAAGCCCTTTT |
442–467 | 1.000 | 68.2 |
| atpA-atpF_p1 | atpA-atpF | CCGTCGCCTACTTGAAGTAC |
TGTTTGGGACGCTGAAAGAA |
200–205 | 1.000 | 80.9 |
| atpA-atpF_p2 | atpA-atpF | CCGTCGCCTACTTGAAGTAC |
ATGTTTGGGACGCTGAAAGA |
201–206 | 1.000 | 79.0 |
| atpA-atpF_p3 | atpA-atpF | ACTTGAAGTACGGTACCGGT |
TGTTTGGGACGCTGAAAGAA |
191–196 | 1.000 | 78.7 |
| atpA-atpF_p4 | atpA-atpF | GTCGCCTACTTGAAGTACGG |
TGTTTGGGACGCTGAAAGAA |
198–203 | 0.952 | 78.2 |
| atpA-atpF_p5 | atpA-atpF | GTCGCCTACTTGAAGTACGG |
ATGTTTGGGACGCTGAAAGA |
199–204 | 0.952 | 76.4 |
Result downloads
Reference species (21)
One GenBank record per species. Use the NCBI button to open the Nucleotide entry for the listed accession.
| Species | Accession | Length (bp) | Link |
|---|---|---|---|
| Betula alnoides | MK610319.1 | 161022 | View on NCBI ↗ |
| Betula chichibuensis | NC_047177.1 | 160791 | View on NCBI ↗ |
| Betula cordifolia | NC_037473.1 | 160771 | View on NCBI ↗ |
| Betula costata | MN830400.1 | 160547 | View on NCBI ↗ |
| Betula davurica | NC_064121.1 | 160486 | View on NCBI ↗ |
| Betula ermanii | NC_064120.1 | 160500 | View on NCBI ↗ |
| Betula fruticosa | NC_064122.1 | 160455 | View on NCBI ↗ |
| Betula hainanensis | NC_058835.1 | 161189 | View on NCBI ↗ |
| Betula halophila | MG674393.1 | 160648 | View on NCBI ↗ |
| Betula lenta | NC_039992.1 | 160618 | View on NCBI ↗ |
| Betula luminifera | NC_068733.1 | 160757 | View on NCBI ↗ |
| Betula microphylla | NC_057498.1 | 160489 | View on NCBI ↗ |
| Betula nana | NC_033978.1 | 160579 | View on NCBI ↗ |
| Betula nigra | OK509161.1 | 160804 | View on NCBI ↗ |
| Betula occidentalis | NC_039993.1 | 160309 | View on NCBI ↗ |
| Betula ovalifolia | NC_064119.1 | 160430 | View on NCBI ↗ |
| Betula pendula | NC_072281.1 | 160552 | View on NCBI ↗ |
| Betula platyphylla | NC_039994.1 | 161349 | View on NCBI ↗ |
| Betula populifolia | NC_039995.1 | 160263 | View on NCBI ↗ |
| Betula utilis | NC_069292.1 | 160701 | View on NCBI ↗ |
| Betula utilis subsp. albosinensis | ON059925.1 | 160683 | View on NCBI ↗ |