| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| trnH-GUG-psbA | LSC | 253 | 0.0431 | 0.96 | 68.4 | yes | View details |
| petN-psbM | LSC | 1197 | 0.0076 | 0.98 | 64.9 | yes | View details |
| trnE-UUC-trnT-GGU | LSC | 590 | 0.0049 | 0.89 | 39.4 | yes | View details |
| psbZ-trnG-GCC | LSC | 433 | 0.0407 | 0.88 | 75.3 | yes | View details |
| rps4-trnT-UGU | LSC | 434 | 0.0225 | 0.88 | 55.6 | yes | View details |
| ndhC-trnV-UAC | LSC | 669 | 0.0595 | 0.74 | 84.3 | yes | View details |
| accD-psaI | LSC | 812 | 0.0160 | 0.97 | 75.5 | yes | View details |
| psaI-ycf4 | LSC | 428 | 0.0180 | 0.95 | 67.6 | yes | View details |
| psaJ-rpl33 | LSC | 463 | 0.0115 | 0.96 | 69.6 | yes | View details |
| rpl33-rps18 | LSC | 240 | 0.0331 | 0.97 | 78.1 | yes | View details |
| ndhF-rpl32 | SSC | 1059 | 0.0136 | 0.99 | 74.4 | yes | View details |
| petA-psbJ | LSC | 982 | 0.0059 | 1.00 | 70.5 | yes | View details |
| psbM-trnD-GUC | LSC | 1246 | 0.0047 | 0.98 | 69.3 | yes | View details |
| trnK-UUU-rps16 | LSC | 955 | 0.0050 | 0.99 | 69.0 | yes | View details |
| trnF-GAA-ndhJ | LSC | 692 | 0.0064 | 0.99 | 68.3 | yes | View details |
| atpH-atpI | LSC | 1175 | 0.0036 | 0.99 | 65.0 | yes | View details |
| trnT-GGU-psbD | LSC | 1361 | 0.0082 | 0.97 | 64.9 | yes | View details |
| rps19-rpl2 | IRb | 73 | 0.0314 | 0.93 | 64.7 | yes | View details |
| petG-trnW-CCA | LSC | 124 | 0.0386 | 1.00 | 63.1 | 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
22
Genome length
157–160 kb
Candidate markers
270
Primer pairs
95
Genome-wide nucleotide diversity
Candidate markers
11 hotspot labels from the diversity plot in genomic order, plus the top 8 remaining regions by MarkerSeek score (out of 270 candidates).
Primer pairs
Showing the top 30 of 95 primer pairs (ranked by primer score).
| Primer ID | Label | Forward | Reverse | Amplicon (bp) | Cross-species rate | Score |
|---|---|---|---|---|---|---|
| trnH-GUG-psbA_p1 | trnH-GUG-psbA | ATATTATGGGCGAACGACGG |
GCGCTAACCTTGGTATGGAA |
373–469 | 1.000 | 89.7 |
| trnH-GUG-psbA_p2 | trnH-GUG-psbA | ATATTATGGGCGAACGACGG |
ATTCCAAGCTGAGCACAACA |
786–882 | 1.000 | 86.7 |
| trnH-GUG-psbA_p3 | trnH-GUG-psbA | ATATTATGGGCGAACGACGG |
TTCCAAGCTGAGCACAACAT |
785–881 | 1.000 | 86.7 |
| trnH-GUG-psbA_p4 | trnH-GUG-psbA | ATATTATGGGCGAACGACGG |
CTGACGGTATGCCTCTAGGA |
835–931 | 1.000 | 86.4 |
| trnH-GUG-psbA_p5 | trnH-GUG-psbA | ATATTATGGGCGAACGACGG |
TCTGACGGTATGCCTCTAGG |
836–932 | 1.000 | 86.4 |
| trnK-UUU-rps16_p1 | trnK-UUU-rps16 | AAAGCCGAGTACTCTACCGT |
CGGAACTTCGCCCTAATCAA |
1014–1090 | 1.000 | 84.9 |
| trnK-UUU-rps16_p2 | trnK-UUU-rps16 | AAGCCGAGTACTCTACCGTT |
CGGAACTTCGCCCTAATCAA |
1013–1089 | 1.000 | 84.9 |
| trnK-UUU-rps16_p3 | trnK-UUU-rps16 | CCGCACTTAAAAGCCGAGTA |
CGGAACTTCGCCCTAATCAA |
1023–1099 | 1.000 | 83.9 |
| trnK-UUU-rps16_p4 | trnK-UUU-rps16 | AAAGCCGAGTACTCTACCGT |
GGTGCTCAACCTACAGGAAC |
1069–1145 | 1.000 | 83.4 |
| trnK-UUU-rps16_p5 | trnK-UUU-rps16 | AAGCCGAGTACTCTACCGTT |
GGTGCTCAACCTACAGGAAC |
1068–1144 | 1.000 | 83.4 |
| atpH-atpI_p1 | atpH-atpI | AATAGAAGCAAGCCCGACAG |
GCGAATCCATGGAAGGTCAT |
788–1292 | 1.000 | 85.5 |
| atpH-atpI_p2 | atpH-atpI | ATAACGGAAGCGGCAGAAAT |
GCGAATCCATGGAAGGTCAT |
754–1258 | 1.000 | 85.5 |
| atpH-atpI_p3 | atpH-atpI | AATAGAAGCAAGCCCGACAG |
TTTTTGCAACCTTAGCTGCG |
818–1322 | 1.000 | 84.6 |
| atpH-atpI_p4 | atpH-atpI | ATAACGGAAGCGGCAGAAAT |
TTTTTGCAACCTTAGCTGCG |
784–1288 | 1.000 | 84.6 |
| atpH-atpI_p5 | atpH-atpI | AATAACGGAAGCGGCAGAAA |
GCGAATCCATGGAAGGTCAT |
755–1259 | 1.000 | 84.4 |
| petN-psbM_p1 | petN-psbM | AGTAAATCTCGCTTGGGCTG |
AAAACAGTCAGCCAAGGTGA |
874–1410 | 1.000 | 82.6 |
| petN-psbM_p2 | petN-psbM | AGTATGGGGAAGGAGTGGAC |
AAAACAGTCAGCCAAGGTGA |
817–1353 | 1.000 | 81.9 |
| petN-psbM_p3 | petN-psbM | GTATGGGGAAGGAGTGGACT |
AAAACAGTCAGCCAAGGTGA |
816–1352 | 1.000 | 81.9 |
| petN-psbM_p4 | petN-psbM | TATGGGGAAGGAGTGGACTC |
AAAACAGTCAGCCAAGGTGA |
815–1351 | 1.000 | 81.5 |
| petN-psbM_p5 | petN-psbM | GGGGAAGGAGTGGACTCTAG |
AAAACAGTCAGCCAAGGTGA |
812–1348 | 1.000 | 81.2 |
| psbM-trnD-GUC_p1 | psbM-trnD-GUC | TCACCTTGGCTGACTGTTTT |
TTCAATTGGTCAGAGCACCG |
1378–1412 | 1.000 | 78.5 |
| psbM-trnD-GUC_p2 | psbM-trnD-GUC | AATCACCTTGGCTGACTGTT |
TTCAATTGGTCAGAGCACCG |
1380–1414 | 1.000 | 76.6 |
| psbM-trnD-GUC_p3 | psbM-trnD-GUC | ATCACCTTGGCTGACTGTTT |
TTCAATTGGTCAGAGCACCG |
1379–1413 | 1.000 | 76.6 |
| psbM-trnD-GUC_p4 | psbM-trnD-GUC | TCACCTTGGCTGACTGTTTT |
GTTCAATTGGTCAGAGCACC |
1379–1413 | 1.000 | 74.3 |
| psbM-trnD-GUC_p5 | psbM-trnD-GUC | ATCACCTTGGCTGACTGTTTT |
TTCAATTGGTCAGAGCACCG |
1379–1413 | 1.000 | 73.6 |
| trnE-UUC-trnT-GGU_p1 | trnE-UUC-trnT-GGU | ATTTGGATTCGTCGGGACTG |
GAACCGATGACTTACGCCTT |
1319–1384 | 1.000 | 85.1 |
| trnE-UUC-trnT-GGU_p2 | trnE-UUC-trnT-GGU | GCGGATCGGCAAATTATTGG |
GAACCGATGACTTACGCCTT |
811–878 | 1.000 | 84.9 |
| trnE-UUC-trnT-GGU_p3 | trnE-UUC-trnT-GGU | ATTTGGATTCGTCGGGACTG |
CCATGGCGTTACTCTACCAC |
1298–1363 | 1.000 | 84.7 |
| trnE-UUC-trnT-GGU_p4 | trnE-UUC-trnT-GGU | CTTCCGTATTGGGATTGGGG |
GAACCGATGACTTACGCCTT |
882–949 | 0.818 | 77.5 |
| trnE-UUC-trnT-GGU_p5 | trnE-UUC-trnT-GGU | CTTCCGTATTGGGATTGGGG |
CCATGGCGTTACTCTACCAC |
861–928 | 0.818 | 77.1 |
Result downloads
Reference species (22)
One GenBank record per species. Use the NCBI button to open the Nucleotide entry for the listed accession.
| Species | Accession | Length (bp) | Link |
|---|---|---|---|
| Eriobotrya angustissima | NC_066139.1 | 159504 | View on NCBI ↗ |
| Eriobotrya bengalensis | NC_066134.1 | 159560 | View on NCBI ↗ |
| Eriobotrya bengalensis var. angustifolia | MT876403.1 | 159130 | View on NCBI ↗ |
| Eriobotrya cavaleriei | NC_062797.1 | 159270 | View on NCBI ↗ |
| Eriobotrya deflexa | NC_062799.1 | 159393 | View on NCBI ↗ |
| Eriobotrya dubia | NC_066141.1 | 159499 | View on NCBI ↗ |
| Eriobotrya elliptica | NC_066136.1 | 159270 | View on NCBI ↗ |
| Eriobotrya fragrans | NC_062800.1 | 159177 | View on NCBI ↗ |
| Eriobotrya fulvicoma | NC_066135.1 | 159292 | View on NCBI ↗ |
| Eriobotrya glabrescens | NC_066138.1 | 159247 | View on NCBI ↗ |
| Eriobotrya henryi | NC_045345.1 | 159631 | View on NCBI ↗ |
| Eriobotrya japonica | NC_034639.1 | 159137 | View on NCBI ↗ |
| Eriobotrya laoshanica | NC_049114.1 | 159185 | View on NCBI ↗ |
| Eriobotrya malipoensis | NC_045346.1 | 156994 | View on NCBI ↗ |
| Eriobotrya obovata | NC_045347.1 | 157229 | View on NCBI ↗ |
| Eriobotrya petiolata | PX961799.1 | 159238 | View on NCBI ↗ |
| Eriobotrya prinoides | NC_066131.1 | 160391 | View on NCBI ↗ |
| Eriobotrya salwinensis | NC_045348.1 | 159488 | View on NCBI ↗ |
| Eriobotrya seguinii | NC_045349.1 | 159450 | View on NCBI ↗ |
| Eriobotrya serrata | NC_066133.1 | 159497 | View on NCBI ↗ |
| Eriobotrya stipularis | NC_066140.1 | 158795 | View on NCBI ↗ |
| Eriobotrya tengyuehensis | NC_066130.1 | 159443 | View on NCBI ↗ |