| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| trnH-GUG-psbA | LSC | 234 | 0.0302 | 1.00 | 61.9 | yes | View details |
| rps16 | LSC | 941 | 0.0174 | 1.00 | 62.1 | yes | View details |
| trnE-UUC-trnT-GGU | LSC | 798 | 0.0231 | 1.00 | 75.5 | yes | View details |
| trnT-UGU-trnL-UAA | LSC | 730 | 0.0159 | 1.00 | 61.3 | yes | View details |
| ndhC-trnV-UAC | LSC | 411 | 0.0265 | 0.99 | 64.6 | yes | View details |
| trnP-UGG-psaJ | LSC | 618 | 0.0163 | 0.99 | 60.2 | yes | View details |
| rpl20 | LSC | 498 | 0.0387 | 1.00 | 65.5 | yes | View details |
| ycf1 | IRb | 1279 | 0.0015 | 1.00 | 38.9 | no | View details |
| ndhF | SSC | 2244 | 0.0057 | 1.00 | 41.3 | yes | View details |
| ccsA-ndhD | SSC | 272 | 0.0327 | 1.00 | 61.5 | yes | View details |
| ndhE | SSC | 306 | 0.0036 | 1.00 | 25.8 | yes | View details |
| ycf1 | SSC | 5343 | 0.0120 | 0.99 | 51.5 | yes | View details |
| ndhE-ndhG | SSC | 138 | 0.0568 | 0.87 | 68.3 | yes | View details |
| trnT-GGU-psbD | LSC | 1519 | 0.0095 | 0.99 | 65.6 | yes | View details |
| ndhF-trnL-UAG | SSC | 868 | 0.0137 | 1.00 | 65.1 | yes | View details |
| ycf1-ndhF | SSC | 167 | 0.1076 | 0.65 | 63.6 | yes | View details |
| rpoB-trnC-GCA | LSC | 1204 | 0.0112 | 0.99 | 62.6 | yes | View details |
| ndhK-ndhC | LSC | 66 | 0.0294 | 0.98 | 62.3 | yes | View details |
| ycf3-trnS-GGA | LSC | 876 | 0.0128 | 0.99 | 61.6 | yes | View details |
| trnF-GAA-ndhJ | LSC | 684 | 0.0113 | 0.99 | 61.3 | yes | View details |
| rpl2-trnH-GUG | LSC | 121 | 0.1079 | 0.45 | 61.0 | no | View details |
| psbT-psbN | LSC | 86 | 0.0266 | 1.00 | 60.8 | 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
53
Genome length
151–157 kb
Candidate markers
271
Primer pairs
100
Genome-wide nucleotide diversity
Candidate markers
12 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 |
|---|---|---|---|---|---|---|
| trnH-GUG-psbA_p1 | trnH-GUG-psbA | CTGCCTTAATCCACTTGGCT |
GCGCTAACCTTGGTATGGAA |
299–374 | 0.981 | 88.8 |
| trnH-GUG-psbA_p2 | trnH-GUG-psbA | AAATAGGATGGGCGAACGAC |
GCGCTAACCTTGGTATGGAA |
355–430 | 0.962 | 87.8 |
| trnH-GUG-psbA_p3 | trnH-GUG-psbA | ACTGCCTTAATCCACTTGGC |
GCGCTAACCTTGGTATGGAA |
300–375 | 0.962 | 87.6 |
| trnH-GUG-psbA_p4 | trnH-GUG-psbA | AAATAGGATGGGCGAACGAC |
TATCATCAACCGCGCTAACC |
366–441 | 0.962 | 86.8 |
| trnH-GUG-psbA_p5 | trnH-GUG-psbA | AAATAGGATGGGCGAACGAC |
CAGATATCATCAACCGCGCT |
370–445 | 0.962 | 86.2 |
| rps16_p1 | rps16 | GGGAAAGGAGGAGGGGAATA |
TGTTTATGATGATTTGTGTTTCCT |
938–1977 | 0.792 | 41.1 |
| rps16_p2 | rps16 | GGGAAAGGAGGAGGGGAATA |
TGTTTATGATGATTTGTGTTTCCTT |
938–1977 | 0.792 | 41.1 |
| rps16_p3 | rps16 | GGGAAAGGAGGAGGGGAATA |
TGTTTATGATGATTTGTGTTTCC |
938–1977 | 0.792 | 41.1 |
| rps16_p4 | rps16 | GGGAAAGGAGGAGGGGAATA |
ATGTTTATGATGATTTGTGTTTCCT |
939–1978 | 0.792 | 41.1 |
| rps16_p5 | rps16 | GGGAAAGGAGGAGGGGAATA |
GTTTATGATGATTTGTGTTTCCT |
937–1976 | 0.792 | 41.1 |
| rpoB-trnC-GCA_p1 | rpoB-trnC-GCA | ATTCCCTCATTTCCATCCCG |
CTTGATCAGACGACACCCAG |
1270–1308 | 1.000 | 83.6 |
| rpoB-trnC-GCA_p2 | rpoB-trnC-GCA | GTTCTTCCGTCAATCCCTGA |
CTTGATCAGACGACACCCAG |
1347–1385 | 1.000 | 82.5 |
| rpoB-trnC-GCA_p3 | rpoB-trnC-GCA | AGTTCTTCCGTCAATCCCTG |
CTTGATCAGACGACACCCAG |
1348–1386 | 1.000 | 82.5 |
| rpoB-trnC-GCA_p4 | rpoB-trnC-GCA | ATTCCCTCATTTCCATCCCG |
TGATCAGACGACACCCAGAT |
1268–1306 | 1.000 | 82.5 |
| rpoB-trnC-GCA_p5 | rpoB-trnC-GCA | ATTCCCTCATTTCCATCCCG |
CAAGCAAGGGGATTTCGAGT |
1295–1333 | 1.000 | 82.2 |
| trnE-UUC-trnT-GGU_p1 | trnE-UUC-trnT-GGU | TACACGATCAACTACCCCCA |
GAACCGATGACTTACGCCTT |
932–1011 | 1.000 | 88.9 |
| trnE-UUC-trnT-GGU_p2 | trnE-UUC-trnT-GGU | GCTGCCTCCTTGAAAGAGAG |
GAACCGATGACTTACGCCTT |
895–974 | 1.000 | 88.8 |
| trnE-UUC-trnT-GGU_p3 | trnE-UUC-trnT-GGU | TGTCCTGAACCACTAGACGA |
GAACCGATGACTTACGCCTT |
874–953 | 1.000 | 88.7 |
| trnE-UUC-trnT-GGU_p4 | trnE-UUC-trnT-GGU | TACACGATCAACTACCCCCA |
TACCGCTGAGTTAAAAGGGC |
897–976 | 1.000 | 88.3 |
| trnE-UUC-trnT-GGU_p5 | trnE-UUC-trnT-GGU | GCTGCCTCCTTGAAAGAGAG |
TACCGCTGAGTTAAAAGGGC |
860–939 | 1.000 | 88.2 |
| trnT-GGU-psbD_p1 | trnT-GGU-psbD | GCCCTTTTAACTCAGCGGTA |
ACAAAAACGAAACGGTCCCT |
1352–1790 | 1.000 | 85.8 |
| trnT-GGU-psbD_p2 | trnT-GGU-psbD | GCCCTTTTAACTCAGCGGTA |
GACCGGACCAACCTACAAAA |
1366–1804 | 1.000 | 85.6 |
| trnT-GGU-psbD_p3 | trnT-GGU-psbD | GCCCTTTTAACTCAGCGGTA |
CGCAACCAGTCATCCATAGT |
1331–1769 | 1.000 | 85.3 |
| trnT-GGU-psbD_p4 | trnT-GGU-psbD | GCCCTTTTAACTCAGCGGTA |
TAGACCGGACCAACCTACAA |
1368–1806 | 1.000 | 85.2 |
| trnT-GGU-psbD_p5 | trnT-GGU-psbD | GCCCTTTTAACTCAGCGGTA |
GAGCAATAGACCGGACCAAC |
1374–1812 | 1.000 | 84.9 |
| ycf3-trnS-GGA_p1 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
CCCTCGGTAAACAAAAGCCT |
949–978 | 1.000 | 79.7 |
| ycf3-trnS-GGA_p2 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
ACGGAAAGAGAGGGATTCGA |
970–999 | 1.000 | 79.2 |
| ycf3-trnS-GGA_p3 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
TTCCAATGCTACGCCTTGAA |
920–949 | 1.000 | 79.1 |
| ycf3-trnS-GGA_p4 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
ACCCTCGGTAAACAAAAGCC |
950–979 | 1.000 | 77.4 |
| ycf3-trnS-GGA_p5 | ycf3-trnS-GGA | TTTATCCGCGATCTAGGCAT |
CCCTCGGTAAACAAAAGCCT |
947–976 | 1.000 | 76.7 |
Result downloads
Reference species (53)
One GenBank record per species. Use the NCBI button to open the Nucleotide entry for the listed accession.
| Species | Accession | Length (bp) | Link |
|---|---|---|---|
| Aconitum austrokoreense | NC_031410.1 | 155682 | View on NCBI ↗ |
| Aconitum barbatum var. hispidum | KT820664.1 | 156782 | View on NCBI ↗ |
| Aconitum barbatum var. puberulum | KT964698.1 | 156767 | View on NCBI ↗ |
| Aconitum brachypodum | NC_041579.1 | 155651 | View on NCBI ↗ |
| Aconitum brevicalcaratum | PP035152.1 | 156776 | View on NCBI ↗ |
| Aconitum bulleyanum | OK323949.1 | 155791 | View on NCBI ↗ |
| Aconitum carmichaelii | NC_030761.1 | 155737 | View on NCBI ↗ |
| Aconitum carmichaelii var. carmichaelii | MK782800.1 | 155819 | View on NCBI ↗ |
| Aconitum carmichaelii var. pubescens | MK782803.1 | 155851 | View on NCBI ↗ |
| Aconitum carmichaelii var. truppelianum | MK782804.1 | 155829 | View on NCBI ↗ |
| Aconitum chiisanense | NC_029829.1 | 155934 | View on NCBI ↗ |
| Aconitum ciliare | NC_031420.1 | 155832 | View on NCBI ↗ |
| Aconitum contortum | NC_038098.1 | 155653 | View on NCBI ↗ |
| Aconitum coreanum | NC_031421.1 | 157029 | View on NCBI ↗ |
| Aconitum delavayi | NC_038097.1 | 155769 | View on NCBI ↗ |
| Aconitum duclouxii | NC_061703.1 | 155479 | View on NCBI ↗ |
| Aconitum episcopale | NC_038096.1 | 151214 | View on NCBI ↗ |
| Aconitum falciforme | PP035157.1 | 155703 | View on NCBI ↗ |
| Aconitum finetianum | NC_036358.1 | 155625 | View on NCBI ↗ |
| Aconitum flavum | NC_056280.1 | 155654 | View on NCBI ↗ |
| Aconitum forrestii | MZ959044.1 | 155869 | View on NCBI ↗ |
| Aconitum habaense | OK539525.1 | 155800 | View on NCBI ↗ |
| Aconitum hemsleyanum | NC_038095.1 | 155684 | View on NCBI ↗ |
| Aconitum jaluense subsp. jaluense | KT820668.1 | 155884 | View on NCBI ↗ |
| Aconitum japonicum subsp. napiforme | KT820670.1 | 155878 | View on NCBI ↗ |
| Aconitum kusnezoffii | NC_031422.1 | 155862 | View on NCBI ↗ |
| Aconitum longecassidatum | NC_035894.1 | 155524 | View on NCBI ↗ |
| Aconitum macrorhynchum | NC_080244.1 | 155913 | View on NCBI ↗ |
| Aconitum monanthum | NC_031423.1 | 155688 | View on NCBI ↗ |
| Aconitum nagarum | NC_061321.1 | 155732 | View on NCBI ↗ |
| Aconitum napellus | PP316503.1 | 155820 | View on NCBI ↗ |
| Aconitum ouvrardianum | NC_061553.1 | 155799 | View on NCBI ↗ |
| Aconitum paniculigerum var. wulingense | MK782812.1 | 155774 | View on NCBI ↗ |
| Aconitum pendulum | NC_053848.1 | 155597 | View on NCBI ↗ |
| Aconitum piepunense | NC_058692.1 | 155836 | View on NCBI ↗ |
| Aconitum puchonroenicum | MN967020.1 | 155631 | View on NCBI ↗ |
| Aconitum quelpaertense | NC_057536.1 | 155636 | View on NCBI ↗ |
| Aconitum ramulosum | NC_061700.1 | 155841 | View on NCBI ↗ |
| Aconitum reclinatum | MF186593.1 | 157354 | View on NCBI ↗ |
| Aconitum refractum | PX686331.1 | 155752 | View on NCBI ↗ |
| Aconitum scaposum var. vaginatum | MW246162.1 | 157493 | View on NCBI ↗ |
| Aconitum sinomontanum | NC_036359.1 | 157215 | View on NCBI ↗ |
| Aconitum sinomontanum var. angustius | NC_036357.1 | 156109 | View on NCBI ↗ |
| Aconitum stapfianum | NC_061555.1 | 155858 | View on NCBI ↗ |
| Aconitum stylosum | NC_061704.1 | 155475 | View on NCBI ↗ |
| Aconitum tanguticum | NC_050689.1 | 157114 | View on NCBI ↗ |
| Aconitum tauricum | PP316504.1 | 155849 | View on NCBI ↗ |
| Aconitum transsectum | ON751949.1 | 155872 | View on NCBI ↗ |
| Aconitum tschangbaischanense | NC_066973.1 | 155881 | View on NCBI ↗ |
| Aconitum umbrosum | NC_072898.1 | 157227 | View on NCBI ↗ |
| Aconitum vilmorinianum | NC_038094.1 | 155761 | View on NCBI ↗ |
| Aconitum volubile | KU556690.1 | 155872 | View on NCBI ↗ |
| Aconitum weixiense | NC_061702.1 | 155872 | View on NCBI ↗ |