| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| trnK-UUU-rps16 | LSC | 571 | 0.0191 | 0.98 | 64.7 | yes | View details |
| atpF-atpH | LSC | 455 | 0.0246 | 1.00 | 67.8 | yes | View details |
| petN-psbM | LSC | 1205 | 0.0139 | 0.99 | 75.5 | yes | View details |
| trnT-UGU-trnL-UAA | LSC | 693 | 0.0181 | 0.99 | 73.9 | yes | View details |
| ndhC-trnV-UAC | LSC | 944 | 0.0230 | 0.98 | 80.7 | yes | View details |
| trnP-UGG-psaJ | LSC | 443 | 0.0224 | 0.96 | 64.3 | yes | View details |
| ndhF-trnL-UAG | SSC | 741 | 0.0331 | 0.96 | 81.3 | yes | View details |
| ndhG-ndhI | SSC | 409 | 0.0273 | 0.98 | 73.4 | yes | View details |
| ycf1 | SSC | 5571 | 0.0135 | 1.00 | 57.8 | yes | View details |
| ccsA-ndhD | SSC | 236 | 0.0354 | 0.92 | 73.2 | yes | View details |
| psbA-trnK-UUU | LSC | 247 | 0.0264 | 1.00 | 73.1 | yes | View details |
| trnS-UGA-psbZ | LSC | 354 | 0.0223 | 1.00 | 71.7 | yes | View details |
| rps16-trnQ-UUG | LSC | 1030 | 0.0147 | 0.99 | 71.3 | yes | View details |
| psbM-trnD-GUC | LSC | 1141 | 0.0095 | 0.99 | 70.5 | yes | View details |
| psbE-petL | LSC | 1080 | 0.0082 | 0.99 | 69.5 | yes | View details |
| trnT-GGU-psbD | LSC | 1228 | 0.0092 | 0.98 | 68.4 | yes | View details |
| trnW-CCA-trnP-UGG | LSC | 192 | 0.0191 | 1.00 | 66.8 | yes | View details |
| ycf3-trnS-GGA | LSC | 566 | 0.0097 | 0.98 | 65.8 | yes | View details |
| rps4-trnT-UGU | LSC | 384 | 0.0153 | 1.00 | 65.7 | 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
23
Genome length
155–156 kb
Candidate markers
271
Primer pairs
100
Genome-wide nucleotide diversity
Candidate markers
9 hotspot labels from the diversity plot in genomic order, plus the top 10 remaining regions by MarkerSeek score (out of 271 candidates).
Primer pairs
Showing the top 30 of 100 primer pairs (ranked by primer score).
| Primer ID | Label | Forward | Reverse | Amplicon (bp) | Cross-species rate | Score |
|---|---|---|---|---|---|---|
| psbA-trnK-UUU_p1 | psbA-trnK-UUU | AACACCGAACCATCCAATGT |
ACTCCATCCGACTAGTTCCG |
329–414 | 1.000 | 83.3 |
| psbA-trnK-UUU_p2 | psbA-trnK-UUU | ACGGTTTTCAGTGCTGGTTA |
ACTCCATCCGACTAGTTCCG |
305–390 | 1.000 | 83.3 |
| psbA-trnK-UUU_p3 | psbA-trnK-UUU | TCAAAACACCGAACCATCCA |
ACTCCATCCGACTAGTTCCG |
333–418 | 1.000 | 82.7 |
| psbA-trnK-UUU_p4 | psbA-trnK-UUU | AACACCGAACCATCCAATGT |
ACTAGTTCCGGGTTCGAGTC |
319–404 | 1.000 | 81.7 |
| psbA-trnK-UUU_p5 | psbA-trnK-UUU | AACACCGAACCATCCAATGT |
GACTAGTTCCGGGTTCGAGT |
320–405 | 1.000 | 81.7 |
| trnK-UUU_p1 | trnK-UUU | GCTCGTGTCAACCGATATCA |
TGGGACCAGTCTCTCTTGTT |
2731–2816 | 1.000 | 85.7 |
| trnK-UUU_p2 | trnK-UUU | GGACTCCCAAGCACACAAAT |
TGGGACCAGTCTCTCTTGTT |
2813–2898 | 1.000 | 84.1 |
| trnK-UUU_p3 | trnK-UUU | TTATACGCTCGTGTCAACCG |
TGGGACCAGTCTCTCTTGTT |
2770–2822 | 0.913 | 80.2 |
| trnK-UUU_p4 | trnK-UUU | ACGGTTTTCAGTGCTGGTTA |
TGGGACCAGTCTCTCTTGTT |
2923–2997 | 0.522 | 63.9 |
| trnK-UUU_p5 | trnK-UUU | TTATACGCTCGTGTCAACCG |
ATACCCGCCCCAATAAGTTG |
2904 | 0.043 | 38.1 |
| trnK-UUU-rps16_p1 | trnK-UUU-rps16 | CACATTCGTCTCCACTCAGG |
TCGATCCCGAAGAGAAGGAA |
1245–1437 | 1.000 | 87.4 |
| trnK-UUU-rps16_p2 | trnK-UUU-rps16 | TCAGGATCAGTCGTGGTCTT |
TCGATCCCGAAGAGAAGGAA |
873–1066 | 1.000 | 87.2 |
| trnK-UUU-rps16_p3 | trnK-UUU-rps16 | CACATTCGTCTCCACTCAGG |
ATTCTTTCTCGAGCCGTACG |
1358–1549 | 1.000 | 86.8 |
| trnK-UUU-rps16_p4 | trnK-UUU-rps16 | AGGATAGGGGATTTCTCGGG |
TCGATCCCGAAGAGAAGGAA |
1510–1679 | 0.913 | 81.2 |
| trnK-UUU-rps16_p5 | trnK-UUU-rps16 | CACATTCGTCTCCACTCAGG |
TGAAATGCCAAGGACTCAGG |
1559–1737 | 0.783 | 74.4 |
| rps16-trnQ-UUG_p1 | rps16-trnQ-UUG | CCACAACCGATCATGTCCTT |
GAGGTTCGAATCCTTCCGTC |
1068–1160 | 1.000 | 89.5 |
| rps16-trnQ-UUG_p2 | rps16-trnQ-UUG | AAGTCGCACGTTGCTTTCTA |
GAGGTTCGAATCCTTCCGTC |
1047–1139 | 1.000 | 89.4 |
| rps16-trnQ-UUG_p3 | rps16-trnQ-UUG | CCACAACCGATCATGTCCTT |
CTCGGAGGTTCGAATCCTTC |
1072–1164 | 1.000 | 88.3 |
| rps16-trnQ-UUG_p4 | rps16-trnQ-UUG | AAGTCGCACGTTGCTTTCTA |
CTCGGAGGTTCGAATCCTTC |
1051–1143 | 1.000 | 88.3 |
| rps16-trnQ-UUG_p5 | rps16-trnQ-UUG | TCATGTCCTTCAAGTCGCAC |
GAGGTTCGAATCCTTCCGTC |
1058–1150 | 0.957 | 86.8 |
| atpF-atpH_p1 | atpF-atpH | CAGTGACCCAAGGAAACGAA |
TCGTGGCATTAGCGCTTTTA |
488–553 | 1.000 | 88.8 |
| atpF-atpH_p2 | atpF-atpH | CAGTGACCCAAGGAAACGAA |
CGTGGCATTAGCGCTTTTAT |
487–552 | 1.000 | 85.0 |
| atpF-atpH_p3 | atpF-atpH | AGTGACCCAAGGAAACGAAA |
TCGTGGCATTAGCGCTTTTA |
487–552 | 1.000 | 83.4 |
| atpF-atpH_p4 | atpF-atpH | CAGTGACCCAAGGAAACGAA |
CGTGGCATTAGCGCTTTTATT |
487–552 | 1.000 | 82.5 |
| atpF-atpH_p5 | atpF-atpH | TGACCCAAGGAAACGAAAGA |
TCGTGGCATTAGCGCTTTTA |
485–550 | 1.000 | 81.1 |
| petN-psbM_p1 | petN-psbM | TCTTGCTTGGGCTGCTTTAA |
ATTGCTACTGCGCTGTTCAT |
1328–1370 | 1.000 | 87.7 |
| petN-psbM_p2 | petN-psbM | TCTTGCTTGGGCTGCTTTAA |
TATTGCTACTGCGCTGTTCA |
1329–1371 | 1.000 | 86.7 |
| petN-psbM_p3 | petN-psbM | TCTTGCTTGGGCTGCTTTAA |
TTGCTACTGCGCTGTTCATT |
1327–1369 | 1.000 | 85.9 |
| petN-psbM_p4 | petN-psbM | AGTAAGTCTTGCTTGGGCTG |
ATTGCTACTGCGCTGTTCAT |
1334–1376 | 0.957 | 84.3 |
| petN-psbM_p5 | petN-psbM | AGTAAGTCTTGCTTGGGCTG |
TATTGCTACTGCGCTGTTCA |
1335–1377 | 0.957 | 83.4 |
Result downloads
Reference species (23)
One GenBank record per species. Use the NCBI button to open the Nucleotide entry for the listed accession.
| Species | Accession | Length (bp) | Link |
|---|---|---|---|
| Thalictrum alpinum | PP234509.1 | 155311 | View on NCBI ↗ |
| Thalictrum aquilegiifolium | NC_058830.1 | 156253 | View on NCBI ↗ |
| Thalictrum aquilegiifolium subsp. aquilegiifolium | PP622696.1 | 155839 | View on NCBI ↗ |
| Thalictrum aquilegiifolium var. sibiricum | LC661621.1 | 156074 | View on NCBI ↗ |
| Thalictrum atriplex | PX686334.1 | 155984 | View on NCBI ↗ |
| Thalictrum baicalense | MZ962406.1 | 156196 | View on NCBI ↗ |
| Thalictrum cirrhosum | NC_061927.1 | 155969 | View on NCBI ↗ |
| Thalictrum coreanum | NC_026103.1 | 155088 | View on NCBI ↗ |
| Thalictrum elegans | NC_085600.1 | 155864 | View on NCBI ↗ |
| Thalictrum fargesii | NC_070058.1 | 155929 | View on NCBI ↗ |
| Thalictrum finetii | PX682254.1 | 156009 | View on NCBI ↗ |
| Thalictrum foeniculaceum | NC_053570.1 | 155923 | View on NCBI ↗ |
| Thalictrum foetidum subsp. foetidum | PP622697.1 | 155935 | View on NCBI ↗ |
| Thalictrum foliolosum | NC_058920.1 | 155764 | View on NCBI ↗ |
| Thalictrum lucidum | PP622698.1 | 156182 | View on NCBI ↗ |
| Thalictrum minus | NC_041544.1 | 156217 | View on NCBI ↗ |
| Thalictrum minus var. hypoleucum | OM501079.1 | 156258 | View on NCBI ↗ |
| Thalictrum petaloideum | MK253449.1 | 155876 | View on NCBI ↗ |
| Thalictrum przewalskii | PX686327.1 | 155922 | View on NCBI ↗ |
| Thalictrum simplex | NC_068627.1 | 156211 | View on NCBI ↗ |
| Thalictrum tenue | MK253448.1 | 156103 | View on NCBI ↗ |
| Thalictrum thalictroides | NC_039433.1 | 154924 | View on NCBI ↗ |
| Thalictrum viscosum | NC_058831.1 | 155984 | View on NCBI ↗ |