Cluster set at subtree whose root is 'basal Magnoliophyta'

Click here to see taxon by cluster Data Availability Matrix
Cluster IDParent clusterTaxIDsGIsLminLmaxMAD1Q2Tcfi3Defline of longest sequenceTree4
0-40427541033 0.837- 0.000Illicium angustisepalum rpl16 gene, intron sequence; chloroplast gene for chloroplast product.
1-64712901740 0.458- 0.000Chloranthus brachystachys trnT-trnL intergenic spacer, trnL gene and trnL-trnF intergenic spacer sequence.
2-3031849971 0.917- 0.000Amborella trichopoda petB-petD intergenic spacer, partial sequence; and PetD (petD) gene, intron and partial cds; chloroplast.
4-55585854 0.816- 0.000Illicium henryi APETALA3-like protein AP3-1 mRNA, partial cds.
7-181920293329 0.912- 0.000Chloranthus japonicus 26S ribosomal RNA gene, complete sequence.
8-161615652280 0.830- 0.000Chloranthus multistachys small subunit ribosomal RNA gene, partial sequence; mitochondrial.
9-131328913968 0.844- 0.000Austrobaileya scandens large subunit ribosomal RNA gene, partial sequence; mitochondrial.
10-485311741484 0.918- 0.000Victoria amazonica ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) gene, complete cds; chloroplast.
11-661065442981 0.634- 0.000Amborella trichopoda tRNA-Lys (trnK) gene, partial sequence; maturase K (matK) gene, complete cds; and trnK-psbA intergenic spacer, partial sequence; chloroplast.
12-141510621338 0.849- 0.000Amborella trichopoda NADH dehydrogenase subunit 5 (nad5) gene, partial cds; mitochondrial.
13-151522654170 0.613- 0.000Nuphar advena RNA polymerase beta'' chain (rpoC2) gene, partial cds; chloroplast.
14-8825962639 0.993- 0.000Nymphaea sp. Qiu 91029 large subunit ribosomal RNA gene, partial sequence; chloroplast.
15-9913161475 0.981- 0.000Austrobaileya scandens small subunit ribosomal RNA gene, partial sequence; chloroplast.
16-2324208462 0.685- 0.000Hedyosmum mexicanum plastid trnL-trnF intergenic spacer and partial tRNA-Phe gene, specimen voucher Salazar s.n. (MEXU).
17-2121551598 0.984- 0.000Illicium parviflorum trnG-trnS intergenic spacer, partial sequence; chloroplast.
18-4462429680 0.949- 0.000Kadsura coccinea internal transcribed spacer 1, 5.8S ribosomal RNA gene, and internal transcribed spacer 2, complete sequence.
19-88162201 0.941- 0.000Euryale ferox 28S ribosomal RNA (28S rRNA), ca. bp 738 to 938 in mature rRNA.
20-88158193 0.931- 0.000Euryale ferox 28S ribosomal RNA (28S rRNA), ca. bp 1611 to 1803 in mature rRNA.
21-448896 0.974- 0.000Barclaya longifolia 28S ribosomal RNA (28S rRNA), ca. bp 2056 to 2151 in mature rRNA.
22-8883133 0.850- 0.000Brasenia schreberi 18S ribosomal RNA (18S rRNA), ca. bp 91 to 223 in mature rRNA.
23-775556 0.997- 0.000Nuphar lutea 18S ribosomal RNA gene, partial sequence.
24-88186249 0.927- 0.000Barclaya longifolia 18S ribosomal RNA (18S rRNA), ca. bp 294 to 543 in mature rRNA.
25-88143215 0.897- 0.000Barclaya longifolia 18S ribosomal RNA (18S rRNA), ca. bp 911 to 1126 in mature rRNA.
26-88132211 0.836- 0.000Chloranthus spicatus 18S ribosomal RNA (18S rRNA), ca. bp 1203 to 1414 in mature rRNA.
27-88106168 0.832- 0.000Barclaya longifolia 18S ribosomal RNA (18S rRNA), ca. bp 1522 to 1688 in mature rRNA.
28-773539 0.978- 0.000Nuphar lutea 18S ribosomal RNA gene, partial sequence.
29-232810321270 0.961- 0.000Sarcandra chloranthoides ATPase alpha subunit (atp1) gene, partial cds; mitochondrial gene for mitochondrial product.
30-353616431837 0.967- 0.000Austrobaileya scandens maturase (matR) gene, partial cds; mitochondrial gene for mitochondrial product.
31-233915421809 0.959- 0.000Hedyosmum arborescens 18S ribosomal RNA gene, complete sequence.
32-23298291497 0.950- 0.000Sarcandra grandiflora chloroplast atpB gene.
33-111120354329 0.845- 0.000Trithuria filamentosa ribosomal protein S12 (rps12) gene, partial cds; and ribosomal protein S7 (rps7) and NADH dehydrogenase subunit B (ndhB) genes, complete cds; chloroplast.
34-111112201283 0.985- 0.000Trimenia moorei ribosomal protein L2 (rpl2) gene, partial cds; chloroplast gene for chloroplast product.
35-131510142086 0.691- 0.000Trithuria submersa NADH dehydrogenase subunit F (ndhF) gene, partial cds; chloroplast.
36-121310592222 0.893- 0.000Trimenia moorei photosystem II D2 protein (psbD) and photosystem II CP43 protein (psbC) genes, partial cds; chloroplast genes for chloroplast products.
37-1111627720 0.969- 0.000Schisandra chinensis cytochrome b-559 alpha subunit (psbE) gene, partial cds; cytochrome b-559 beta subunit (psbF) and PsbF (psbL) genes, complete cds; and PsbJ (psbJ) gene, partial cds; chloroplast genes for chloroplast products.
38-151713342398 0.794- 0.000Austrobaileya scandens photosystem II CP47 protein (psbB) gene, partial cds; PsbT (psbT) and PsbN (psbN) genes, complete cds; and PsbH (psbH) gene, partial cds; chloroplast genes for chloroplast products.
51-1010329412 0.899- 0.000Nymphaea sp. Qiu91029 mitochondrial protein (rps2) gene, partial cds; mitochondrial gene for mitochondrial product.
52-16197021415 0.967- 0.000Schisandra henryi cytochrome oxidase subunit 1 (coxI) gene, partial cds; mitochondrial.
69-999941080 0.951- 0.000Euryale ferox chloroplast rpl2, rps19, rpl22, rps3 genes, partial and complete cds.
70-77539883 0.692- 0.000Illicium verum isolate 528 small ribosomal protein 4 (rps4) gene, partial cds; chloroplast.
77-5515501665 0.964- 0.000Nymphaea odorata RNA polymerase II second largest subunit (RPB2) mRNA, partial cds.
78-899621101 0.941- 0.000Amborella trichopoda apocytochrome b (cob) gene, partial cds; mitochondrial.
86-101010561396 0.862- 0.000Sarcandra glabra phytochrome C (PHYC) gene, partial cds.
88-59429626 0.822- 0.000Nymphaea lotus isolate lot-w RNA polymerase C-like (rpoC1) gene, partial sequence; chloroplast.
91-581395201913 0.746- 0.000Nymphaea violacea isolate NY448 trnT-trnL intergenic spacer, partial sequence; tRNA-Leu gene, complete sequence; and trnL-trnF intergenic spacer, partial sequence; chloroplast.
92-66506811 0.891- 0.000Cabomba caroliniana internal transcribed spacer 2, partial sequence; 4.5S ribosomal RNA gene, internal transcribed spacer 3, and 5S ribosomal RNA gene, complete sequence; and internal transcribed spacer 4, partial sequence; chloroplast.
94-2021157355 0.678- 0.000Cabomba caroliniana tRNA-lys (trnK) gene, chloroplast gene for chloroplast RNA, partial intron sequence.
95-1819190333 0.860- 0.000Nuphar variegata tRNA-lys (trnK) gene, chloroplast gene for chloroplast RNA, partial intron sequence.
98-815465981 0.724- 0.000Nymphaea sp. EMK-2003 APETALA3-like protein AP3 class II mRNA, partial cds.
99-89567905 0.734- 0.000Nymphaea sp. EMK-2003 PISTILLATA-like protein PI mRNA, partial cds.
115-562104801018 0.669- 0.000Nuphar variegata isolate 2 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, 5.8S ribosomal RNA gene, and internal transcribed spacer 2, complete sequence; and 26S ribosomal RNA gene, partial sequence.
117-1212148264 0.882- 0.000Nuphar japonica internal transcribed spacer 1, and 5.8S ribosomal RNA gene, 5' region, partial sequence.
118-1313244299 0.975- 0.000Nuphar orbiculata 5.8S ribosomal RNA gene, 3' region, and internal transcribed spacer 2, partial sequence.
134-5510351398 0.880- 0.000Hedyosmum sp. SM-2000 phytochrome A (PHYA) gene, partial cds.
137-6621532250 0.968- 0.000Nuphar advena photosystem I P700 apoprotein A1 (psaA) gene, partial cds; chloroplast.
143-174813421442 0.953- 0.000Nymphaea violacea voucher HELLQ 07 PsbE (psbE) gene, partial cds; psbE-petL intergenic spacer, complete sequence; and PetL (petL) gene, partial cds; chloroplast.
144-1967505593 0.965- 0.000Nymphaea candida voucher 131-02 ribosomal protein L32 (rpl32) gene, partial cds; and rpl32-trnL intergenic spacer, partial sequence; chloroplast.
217-45404419 0.987- 0.000Nuphar sp. Palmer 689 ATPase subunit 8 (atp8) gene, partial cds; mitochondrial.
222-47483523 0.953- 0.000Nymphaea lotus isolate lot-w PsbA (psbA) gene, partial sequence; psbA-trnH intergenic spacer, complete sequence; and tRNA-His (trnH) gene, partial sequence; chloroplast.
277-1818761802 0.963- 0.000Chloranthus japonicus chloroplast rpl20 gene and rpl20-rps12 intergenic spacer, partial sequence.
284-1314654720 0.927- 0.000Sarcandra glabra 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, 5.8S ribosomal RNA gene and internal transcribed spacer 2, complete sequence; and 26S ribosomal RNA gene, partial sequence.
285-77799986 0.923- 0.000Chloranthus erectus chloroplast rpl16 gene, intron, partial sequence.

  1 Maximum Alignment Density
  2 "Q" alignment comparison score between default Clustal W and Muscle alignments
  3 Level of resolution (consensus fork index) of the strict consensus tree built from the two bootstrap trees from Clustal W and Muscle alignments.
  4 Trees are unrooted majority rule consensus trees from 'fast bootstrap parsimony' algorithm in PAUP* 4.0 using default ClustalW alignments. Expect performance to deteriorate with low MAD or Q scores, large number of taxa, and high sequence divergence (largely owing to alignment problems). Only trees for (taxon) phylogenetically informative clusters with fewer than 1000 sequences are generated.


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