| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| trnS-GCU-trnG-UCC | LSC | 885 | 0.0119 | 0.99 | 67.0 | yes | View details |
| trnT-UGU-trnL-UAA | LSC | 977 | 0.0094 | 1.00 | 59.3 | yes | View details |
| trnL-UAA-trnF-GAA | LSC | 475 | 0.0159 | 0.96 | 58.8 | yes | View details |
| trnF-GAA-ndhJ | LSC | 714 | 0.0075 | 0.99 | 55.7 | yes | View details |
| ndhF | SSC | 2226 | 0.0055 | 1.00 | 45.2 | yes | View details |
| rpl32-trnL-UAG | SSC | 501 | 0.0185 | 1.00 | 52.9 | yes | View details |
| rps15 | SSC | 270 | 0.0071 | 1.00 | 28.5 | yes | View details |
| rps15-ycf1 | SSC | 4718 | 0.0101 | 1.00 | 53.7 | yes | View details |
| ycf4-cemA | LSC | 853 | 0.0090 | 0.99 | 65.7 | yes | View details |
| ycf1-ndhF | SSC | 149 | 0.0563 | 0.94 | 65.1 | yes | View details |
| psbC-trnS-UGA | LSC | 139 | 0.0282 | 1.00 | 60.7 | yes | View details |
| ndhE-ndhG | SSC | 188 | 0.0200 | 0.99 | 60.1 | yes | View details |
| psbM-trnD-GUC | LSC | 1001 | 0.0071 | 1.00 | 59.0 | yes | View details |
| trnH-GUG-rpl2 | IRb | 43 | 0.0346 | 1.00 | 58.0 | yes | View details |
| rpl2-trnH-GUG | IRa | 43 | 0.0346 | 1.00 | 58.0 | yes | View details |
| rpl36-rps8 | LSC | 462 | 0.0110 | 1.00 | 57.5 | yes | View details |
| rps16-trnQ-UUG | LSC | 1011 | 0.0064 | 1.00 | 55.9 | 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
154–156 kb
Candidate markers
280
Primer pairs
85
Genome-wide nucleotide diversity
Candidate markers
8 hotspot labels from the diversity plot in genomic order, plus the top 9 remaining regions by MarkerSeek score (out of 280 candidates).
Primer pairs
Showing the top 30 of 85 primer pairs (ranked by primer score).
| Primer ID | Label | Forward | Reverse | Amplicon (bp) | Cross-species rate | Score |
|---|---|---|---|---|---|---|
| rps16-trnQ-UUG_p1 | rps16-trnQ-UUG | ATCCACAGCGAATCATGTCC |
GAGGTTCGAATCCTTCCGTC |
809–1111 | 1.000 | 85.4 |
| rps16-trnQ-UUG_p2 | rps16-trnQ-UUG | ATCCACAGCGAATCATGTCC |
GTCACTCGGAGGTTCGAATC |
817–1119 | 1.000 | 85.3 |
| rps16-trnQ-UUG_p3 | rps16-trnQ-UUG | AAGTCGCACGTTGCTTTCTA |
GAGGTTCGAATCCTTCCGTC |
786–1088 | 1.000 | 84.6 |
| rps16-trnQ-UUG_p4 | rps16-trnQ-UUG | AAGTCGCACGTTGCTTTCTA |
GTCACTCGGAGGTTCGAATC |
794–1096 | 1.000 | 84.5 |
| rps16-trnQ-UUG_p5 | rps16-trnQ-UUG | ATCCACAGCGAATCATGTCC |
CTCGGAGGTTCGAATCCTTC |
813–1115 | 1.000 | 84.3 |
| trnS-GCU-trnG-UCC_p1 | trnS-GCU-trnG-UCC | AATCTGCCGCTTTAGTCCAC |
AACCGAAAGACCCCTTAACT |
968–1031 | 1.000 | 72.6 |
| trnS-GCU-trnG-UCC_p2 | trnS-GCU-trnG-UCC | CAATCTGCCGCTTTAGTCCA |
AACCGAAAGACCCCTTAACT |
969–1032 | 1.000 | 72.6 |
| trnS-GCU-trnG-UCC_p3 | trnS-GCU-trnG-UCC | AGATTAGCAATCTGCCGCTT |
AACCGAAAGACCCCTTAACT |
976–1039 | 1.000 | 71.9 |
| trnS-GCU-trnG-UCC_p4 | trnS-GCU-trnG-UCC | CGGAGAGAGAGGGATTCGAA |
AACCGAAAGACCCCTTAACT |
1022–1085 | 1.000 | 71.7 |
| trnS-GCU-trnG-UCC_p5 | trnS-GCU-trnG-UCC | GCTTTAGTCCACTCAGCCAT |
AACCGAAAGACCCCTTAACT |
960–1023 | 1.000 | 71.4 |
| psbM-trnD-GUC_p1 | psbM-trnD-GUC | TTGGCTGACTGTTTTTACGT |
ATGTATGCTATACGCGCCTC |
1189–1204 | 1.000 | 63.6 |
| psbM-trnD-GUC_p2 | psbM-trnD-GUC | TGGCTGACTGTTTTTACGTAGA |
ATGTATGCTATACGCGCCTC |
1188–1203 | 1.000 | 62.4 |
| psbM-trnD-GUC_p3 | psbM-trnD-GUC | TTGGCTGACTGTTTTTACGT |
TTCAATTGGTCAGAGCACCG |
1156–1171 | 1.000 | 62.0 |
| psbM-trnD-GUC_p4 | psbM-trnD-GUC | TTTGGCTGACTGTTTTTACGT |
ATGTATGCTATACGCGCCTC |
1190–1205 | 1.000 | 61.8 |
| psbM-trnD-GUC_p5 | psbM-trnD-GUC | AGTGCGAGAATATTGACTTCCA |
ATGTATGCTATACGCGCCTC |
1116–1131 | 1.000 | 61.5 |
| psbC-trnS-UGA_p1 | psbC-trnS-UGA | TTGTGGGTCATTTGTGGCAT |
GGTGGCTGAGTGGTTGATAG |
331–334 | 1.000 | 80.6 |
| psbC-trnS-UGA_p2 | psbC-trnS-UGA | TTGTGGGTCATTTGTGGCAT |
GCTGAGTGGTTGATAGCTCC |
327–330 | 1.000 | 80.5 |
| psbC-trnS-UGA_p3 | psbC-trnS-UGA | TTGTGGGTCATTTGTGGCAT |
GGCTGAGTGGTTGATAGCTC |
328–331 | 1.000 | 80.5 |
| psbC-trnS-UGA_p4 | psbC-trnS-UGA | TTGTGGGTCATTTGTGGCAT |
GGTTGATAGCTCCGGTCTTG |
320–323 | 1.000 | 80.5 |
| psbC-trnS-UGA_p5 | psbC-trnS-UGA | AGCTGCAGCAGGATTTGAAA |
GGTGGCTGAGTGGTTGATAG |
294–297 | 1.000 | 80.3 |
| trnT-UGU-trnL-UAA_p1 | trnT-UGU-trnL-UAA | GCGATGCTCTAACCTCTGAG |
ACCAATTTCGCCATATCCCC |
584–1161 | 1.000 | 86.2 |
| trnT-UGU-trnL-UAA_p2 | trnT-UGU-trnL-UAA | GCGATGCTCTAACCTCTGAG |
TAGCGTCTACCAATTTCGCC |
592–1169 | 1.000 | 85.6 |
| trnT-UGU-trnL-UAA_p3 | trnT-UGU-trnL-UAA | GGAATCGAACCGATGACCAT |
ACCAATTTCGCCATATCCCC |
616–1193 | 1.000 | 85.2 |
| trnT-UGU-trnL-UAA_p4 | trnT-UGU-trnL-UAA | GGAATCGAACCGATGACCAT |
TAGCGTCTACCAATTTCGCC |
624–1201 | 1.000 | 84.7 |
| trnT-UGU-trnL-UAA_p5 | trnT-UGU-trnL-UAA | GCGATGCTCTAACCTCTGAG |
ATCCAATCAAGTCCGTAGCG |
607–1184 | 1.000 | 84.4 |
| trnL-UAA-trnF-GAA_p1 | trnL-UAA-trnF-GAA | TTCAAGTCCCTCTATCCCCA |
TTTGAACTGGTGACACGAGG |
513–590 | 1.000 | 80.8 |
| trnL-UAA-trnF-GAA_p2 | trnL-UAA-trnF-GAA | GTTCAAGTCCCTCTATCCCC |
TTTGAACTGGTGACACGAGG |
514–591 | 1.000 | 78.1 |
| trnL-UAA-trnF-GAA_p3 | trnL-UAA-trnF-GAA | GGGTTCAAGTCCCTCTATCC |
TTTGAACTGGTGACACGAGG |
516–593 | 1.000 | 78.0 |
| trnL-UAA-trnF-GAA_p4 | trnL-UAA-trnF-GAA | GGTTCAAGTCCCTCTATCCC |
TTTGAACTGGTGACACGAGG |
515–592 | 1.000 | 78.0 |
| trnL-UAA-trnF-GAA_p5 | trnL-UAA-trnF-GAA | TTCAAGTCCCTCTATCCCCA |
TACCAACTGAGCTATCCCGA |
475–552 | 1.000 | 78.0 |
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 |
|---|---|---|---|
| Eremurus aitchisonii | OL852090.1 | 155482 | View on NCBI ↗ |
| Eremurus alberti | OL852089.1 | 154129 | View on NCBI ↗ |
| Eremurus altaicus | PZ127298.1 | 154425 | View on NCBI ↗ |
| Eremurus anisopterus | OL875062.1 | 155581 | View on NCBI ↗ |
| Eremurus chinensis | NC_070056.1 | 154359 | View on NCBI ↗ |
| Eremurus cristatus | OL852092.1 | 153764 | View on NCBI ↗ |
| Eremurus kaufmannii | OL852093.1 | 155491 | View on NCBI ↗ |
| Eremurus korolkowii | OL891595.1 | 155466 | View on NCBI ↗ |
| Eremurus lachnostegius | OL875067.1 | 154739 | View on NCBI ↗ |
| Eremurus lactiflorus | OL875070.1 | 153782 | View on NCBI ↗ |
| Eremurus luteus | OL852094.1 | 155439 | View on NCBI ↗ |
| Eremurus olgae | OL852095.1 | 155482 | View on NCBI ↗ |
| Eremurus robustus | NC_046772.1 | 155647 | View on NCBI ↗ |
| Eremurus roseolus | OL875069.1 | 155645 | View on NCBI ↗ |
| Eremurus saprjagajevii | OL944401.1 | 155602 | View on NCBI ↗ |
| Eremurus stenophyllus | OL852096.1 | 155602 | View on NCBI ↗ |
| Eremurus stenophyllus subsp. ambigens | OL891596.1 | 155285 | View on NCBI ↗ |
| Eremurus suworowii | OL875060.1 | 155400 | View on NCBI ↗ |
| Eremurus tianschanicus | OL875059.1 | 155759 | View on NCBI ↗ |
| Eremurus turkestanicus | OL875072.1 | 154107 | View on NCBI ↗ |
| Eremurus zoae | NC_082236.1 | 153744 | View on NCBI ↗ |