| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| rps16-trnQ-UUG | LSC | 1067 | 0.0186 | 1.00 | 69.3 | yes | View details |
| trnG-UCC-trnfM-CAU | LSC | 501 | 0.0362 | 0.89 | 73.4 | yes | View details |
| trnG-UCC-trnT-GGU | LSC | 991 | 0.0205 | 0.99 | 70.5 | yes | View details |
| psbM-petN | LSC | 781 | 0.0225 | 0.97 | 73.6 | yes | View details |
| petN-trnC-GCA | LSC | 910 | 0.0184 | 0.99 | 70.1 | yes | View details |
| trnC-GCA-rpoB | LSC | 1179 | 0.0169 | 0.99 | 64.2 | yes | View details |
| ndhC-trnV-UAC | LSC | 958 | 0.0182 | 0.98 | 69.8 | yes | View details |
| atpB-rbcL | LSC | 725 | 0.0267 | 0.98 | 72.5 | yes | View details |
| rbcL-psaI | LSC | 863 | 0.0236 | 1.00 | 73.5 | yes | View details |
| psbE-petL | LSC | 1316 | 0.0184 | 1.00 | 69.9 | yes | View details |
| trnF-GAA-ndhJ | LSC | 561 | 0.0207 | 1.00 | 74.0 | yes | View details |
| trnD-GUC-psbM | LSC | 811 | 0.0169 | 0.99 | 72.6 | yes | View details |
| psbK-psbI | LSC | 408 | 0.0242 | 0.98 | 71.1 | yes | View details |
| ndhF-rpl32 | SSC | 912 | 0.0174 | 0.98 | 69.1 | yes | View details |
| rps19-psbA | LSC | 131 | 0.0638 | 0.87 | 69.1 | no | View details |
| psaA-ycf3 | LSC | 624 | 0.0182 | 0.99 | 68.3 | yes | View details |
| trnL-UAA-trnF-GAA | LSC | 346 | 0.0187 | 0.98 | 68.1 | yes | View details |
| trnS-GCU-psbD | LSC | 1025 | 0.0134 | 0.97 | 67.9 | yes | View details |
| trnT-UGU-trnL-UAA | LSC | 400 | 0.0221 | 0.98 | 67.4 | 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
134–135 kb
Candidate markers
264
Primer pairs
90
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 264 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 |
|---|---|---|---|---|---|---|
| rps16-trnQ-UUG_p1 | rps16-trnQ-UUG | TCTCAAAAGGGCAGCAACAT |
GAGGTTCGAATCCTTCCGTC |
1544–1628 | 1.000 | 89.6 |
| rps16-trnQ-UUG_p2 | rps16-trnQ-UUG | TCTCAAAAGGGCAGCAACAT |
TGACAGGCATAACATCCACG |
2071–2155 | 1.000 | 88.9 |
| rps16-trnQ-UUG_p3 | rps16-trnQ-UUG | TCTCAAAAGGGCAGCAACAT |
CTTACAGCAGCTTGCCAAAC |
2120–2204 | 1.000 | 88.5 |
| rps16-trnQ-UUG_p4 | rps16-trnQ-UUG | TCTCAAAAGGGCAGCAACAT |
GCTTGCCAAACAAACGCTAA |
2111–2195 | 1.000 | 87.7 |
| rps16-trnQ-UUG_p5 | rps16-trnQ-UUG | TCTCAAAAGGGCAGCAACAT |
AAATGGCATAAGCTTCGGGT |
2041–2125 | 0.913 | 83.0 |
| psbK-psbI_p1 | psbK-psbI | GTTTGGCAAGCTGCTGTAAG |
ACAAAAAGTTTGAGAGTAAGCA |
448–472 | 1.000 | 51.9 |
| psbK-psbI_p2 | psbK-psbI | TTAGCGTTTGTTTGGCAAGC |
ACAAAAAGTTTGAGAGTAAGCA |
457–481 | 1.000 | 51.8 |
| psbK-psbI_p3 | psbK-psbI | CGTGGATGTTATGCCTGTCA |
ACAAAAAGTTTGAGAGTAAGCA |
497–521 | 1.000 | 51.5 |
| psbK-psbI_p4 | psbK-psbI | CGTGGATGTTATGCCTGTCA |
AACAAAAAGTTTGAGAGTAAGCA |
498–522 | 1.000 | 51.5 |
| psbK-psbI_p5 | psbK-psbI | ACCCGAAGCTTATGCCATTT |
ACAAAAAGTTTGAGAGTAAGCA |
527–551 | 1.000 | 51.3 |
| trnS-GCU-psbD_p1 | trnS-GCU-psbD | ATTAGCAATCCGCCGCTTTA |
GCCGGACCATCCTACAAAAA |
995–1170 | 1.000 | 87.3 |
| trnS-GCU-psbD_p2 | trnS-GCU-psbD | ATTAGCAATCCGCCGCTTTA |
CGGTCTCTTCGTAACCAGTC |
970–1145 | 1.000 | 86.7 |
| trnS-GCU-psbD_p3 | trnS-GCU-psbD | ATTAGCAATCCGCCGCTTTA |
CTCTTCGTAACCAGTCGTCC |
966–1141 | 1.000 | 86.7 |
| trnS-GCU-psbD_p4 | trnS-GCU-psbD | ATTAGCAATCCGCCGCTTTA |
GGTCTCTTCGTAACCAGTCG |
969–1144 | 1.000 | 86.7 |
| trnS-GCU-psbD_p5 | trnS-GCU-psbD | ATTAGCAATCCGCCGCTTTA |
ACGGTCTCTTCGTAACCAGT |
971–1146 | 1.000 | 85.6 |
| trnG-UCC-trnfM-CAU_p1 | trnG-UCC-trnfM-CAU | GGTAAAACATCCCCTTGCCA |
ACATAGCGGAGTAGAGCAGT |
532–634 | 0.913 | 86.8 |
| trnG-UCC-trnfM-CAU_p2 | trnG-UCC-trnfM-CAU | TGGTAAAACATCCCCTTGCC |
ACATAGCGGAGTAGAGCAGT |
533–635 | 0.913 | 86.8 |
| trnG-UCC-trnfM-CAU_p3 | trnG-UCC-trnfM-CAU | GCGAGCGTAGTTCAATGGTA |
ACATAGCGGAGTAGAGCAGT |
548–650 | 0.913 | 86.5 |
| trnG-UCC-trnfM-CAU_p4 | trnG-UCC-trnfM-CAU | GGTAAAACATCCCCTTGCCA |
AGCCCTACATAGCGGAGTAG |
538–640 | 0.870 | 84.6 |
| trnG-UCC-trnfM-CAU_p5 | trnG-UCC-trnfM-CAU | TGGTAAAACATCCCCTTGCC |
AGCCCTACATAGCGGAGTAG |
539–641 | 0.870 | 84.6 |
| trnG-UCC-trnT-GGU_p1 | trnG-UCC-trnT-GGU | ACGAATCACACTTTTACCACT |
TGAACCGATGACTTATGCCT |
1073–1285 | 1.000 | 51.1 |
| trnG-UCC-trnT-GGU_p2 | trnG-UCC-trnT-GGU | ACGAATCACACTTTTACCACT |
CCGATGACTTATGCCTTACCA |
1069–1281 | 1.000 | 50.3 |
| trnG-UCC-trnT-GGU_p3 | trnG-UCC-trnT-GGU | ACGAATCACACTTTTACCACT |
ACCGATGACTTATGCCTTACC |
1070–1282 | 1.000 | 50.3 |
| trnG-UCC-trnT-GGU_p4 | trnG-UCC-trnT-GGU | AGAACGAATCACACTTTTACCAC |
TGAACCGATGACTTATGCCT |
1076–1288 | 1.000 | 50.3 |
| trnG-UCC-trnT-GGU_p5 | trnG-UCC-trnT-GGU | GAACGAATCACACTTTTACCACT |
TGAACCGATGACTTATGCCT |
1075–1287 | 1.000 | 50.3 |
| trnD-GUC-psbM_p1 | trnD-GUC-psbM | TTCAATTGGTCAGAGCACCG |
TAATCATTTTGGCTGGCCGT |
967–1000 | 1.000 | 83.7 |
| trnD-GUC-psbM_p2 | trnD-GUC-psbM | TTCAATTGGTCAGAGCACCG |
TGGCTGGCCGTTTTTACATA |
958–991 | 1.000 | 83.4 |
| trnD-GUC-psbM_p3 | trnD-GUC-psbM | TTCAATTGGTCAGAGCACCG |
TTTTGGCTGGCCGTTTTTAC |
961–994 | 1.000 | 83.2 |
| trnD-GUC-psbM_p4 | trnD-GUC-psbM | TAGATATGCCATACACGCCG |
TAATCATTTTGGCTGGCCGT |
1011 | 0.043 | 35.3 |
| trnD-GUC-psbM_p5 | trnD-GUC-psbM | TAGATATGCCATACACGCCG |
TGGCTGGCCGTTTTTACATA |
1002 | 0.043 | 34.9 |
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 |
|---|---|---|---|
| Eriachne agrostidea | NC_041557.1 | 134919 | View on NCBI ↗ |
| Eriachne aristidea | NC_041558.1 | 134808 | View on NCBI ↗ |
| Eriachne armittii | NC_034791.1 | 134864 | View on NCBI ↗ |
| Eriachne avenacea | NC_041559.1 | 134857 | View on NCBI ↗ |
| Eriachne axillaris | NC_041560.1 | 135073 | View on NCBI ↗ |
| Eriachne basedowii | NC_041561.1 | 134933 | View on NCBI ↗ |
| Eriachne burkittii | NC_041562.1 | 134456 | View on NCBI ↗ |
| Eriachne ciliata | NC_041563.1 | 134786 | View on NCBI ↗ |
| Eriachne compacta | NC_041564.1 | 134882 | View on NCBI ↗ |
| Eriachne glauca | NC_041565.1 | 134830 | View on NCBI ↗ |
| Eriachne major | NC_041566.1 | 134748 | View on NCBI ↗ |
| Eriachne melicacea | NC_041567.1 | 134911 | View on NCBI ↗ |
| Eriachne mucronata | NC_035529.1 | 135115 | View on NCBI ↗ |
| Eriachne obtusa | NC_041568.1 | 134708 | View on NCBI ↗ |
| Eriachne pallescens | NC_041569.1 | 134949 | View on NCBI ↗ |
| Eriachne pauciflora | NC_041570.1 | 134519 | View on NCBI ↗ |
| Eriachne schultziana | NC_041571.1 | 134722 | View on NCBI ↗ |
| Eriachne semiciliata | NC_041572.1 | 134721 | View on NCBI ↗ |
| Eriachne stipacea | NC_025234.1 | 134746 | View on NCBI ↗ |
| Eriachne sulcata | NC_041573.1 | 134681 | View on NCBI ↗ |
| Eriachne tenuiculmis | NC_042831.1 | 134850 | View on NCBI ↗ |
| Eriachne triodioides | NC_041574.1 | 134765 | View on NCBI ↗ |
| Eriachne triseta | NC_041249.1 | 134714 | View on NCBI ↗ |