Cluster set at subtree whose root is basal Magnoliophyta (rel. 194)

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Cluster IDParent clusterTaxIDsGIsGeneraLminLmaxMAD1Defline of longest sequenceTree2
0-108221193571484 0.731Victoria amazonica ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) gene, complete cds; chloroplast.
1-93218184372981 0.475Nymphaea macrosperma tRNA-Lys (trnK) gene, partial sequence; maturase K (matK) gene, complete cds; and trnK-psbA intergenic spacer, partial sequence; chloroplast.
2-4143137541302 0.672Sarcandra glabra subsp. brachystachys chloroplast partial rps3 gene for small ribosomal protein subunit 3 and partial rpl16 gene for large ribosomal protein subunit 16, isolate N119.
3-303115849971 0.917Chloranthus officinalis petB-petD intergenic spacer, partial sequence; and PetD (petD) gene, intron and partial cds; chloroplast.
5-552585854 0.816Illicium henryi APETALA3-like protein AP3-1 mRNA, partial cds.
8-18191420293329 0.912Chloranthus japonicus 26S ribosomal RNA gene, complete sequence.
9-16161615652280 0.830Chloranthus multistachys small subunit ribosomal RNA gene, partial sequence; mitochondrial.
10-13131328913968 0.845Austrobaileya scandens large subunit ribosomal RNA gene, partial sequence; mitochondrial.
11-16171510281338 0.840Austrobaileya scandens NADH dehydrogenase subunit 5 (nad5) gene, partial cds; mitochondrial.
12-15151422654170 0.613Nuphar advena RNA polymerase beta'' chain (rpoC2) gene, partial cds; chloroplast.
13-88825962639 0.993Nymphaea sp. Qiu 91029 large subunit ribosomal RNA gene, partial sequence; chloroplast.
14-99813161475 0.981Austrobaileya scandens small subunit ribosomal RNA gene, partial sequence; chloroplast.
15-24256208462 0.689Hedyosmum mexicanum plastid trnL-trnF intergenic spacer and partial tRNA-Phe gene, specimen voucher Salazar s.n. (MEXU).
16-156256172901913 0.620Nymphaea violacea isolate NY448 trnT-trnL intergenic spacer, partial sequence; tRNA-Leu gene, complete sequence; and trnL-trnF intergenic spacer, partial sequence; chloroplast.
17-21214551598 0.984Illicium hottense trnG-trnS intergenic spacer, partial sequence; chloroplast.
18-451053429924 0.711Illicium tsangii 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, 5.8S ribosomal RNA gene, and internal transcribed spacer 2, complete sequence; and 28S ribosomal RNA gene, partial sequence.
19-14141414191500 0.966Trimenia moorei ribosomal protein S3 (rps3) gene, partial cds; mitochondrial.
20-888162201 0.941Euryale ferox 28S ribosomal RNA (28S rRNA), ca. bp 738 to 938 in mature rRNA.
21-888158193 0.931Euryale ferox 28S ribosomal RNA (28S rRNA), ca. bp 1611 to 1803 in mature rRNA.
22-4448896 0.974Euryale ferox 28S ribosomal RNA (28S rRNA), ca. bp 2056 to 2151 in mature rRNA.
23-88883133 0.850Brasenia schreberi 18S ribosomal RNA (18S rRNA), ca. bp 91 to 223 in mature rRNA.
24-7775556 0.997Cabomba caroliniana 18S ribosomal RNA (18S rRNA), ca. bp 234 to 289 in mature rRNA.
25-888186249 0.927Barclaya longifolia 18S ribosomal RNA (18S rRNA), ca. bp 294 to 543 in mature rRNA.
26-888143215 0.897Barclaya longifolia 18S ribosomal RNA (18S rRNA), ca. bp 911 to 1126 in mature rRNA.
27-888132211 0.836Chloranthus spicatus 18S ribosomal RNA (18S rRNA), ca. bp 1203 to 1414 in mature rRNA.
28-888106168 0.832Barclaya longifolia 18S ribosomal RNA (18S rRNA), ca. bp 1522 to 1688 in mature rRNA.
29-7773539 0.978Euryale ferox 18S ribosomal RNA (18S rRNA), ca. bp 1716 to 1757 in mature rRNA.
30-2530168791270 0.947Sarcandra chloranthoides ATPase alpha subunit (atp1) gene, partial cds; mitochondrial gene for mitochondrial product.
31-35361816431837 0.967Austrobaileya scandens maturase (matR) gene, partial cds; mitochondrial gene for mitochondrial product.
38-24401615421809 0.959Hedyosmum arborescens 18S ribosomal RNA gene, complete sequence.
39-3266165001497 0.754Sarcandra grandiflora chloroplast atpB gene.
40-11111020354329 0.845Trithuria filamentosa ribosomal protein S12 (rps12) gene, partial cds; and ribosomal protein S7 (rps7) and NADH dehydrogenase subunit B (ndhB) genes, complete cds; chloroplast.
41-11111012201283 0.985Trimenia moorei ribosomal protein L2 (rpl2) gene, partial cds; chloroplast gene for chloroplast product.
42-1416139982086 0.677Trithuria submersa NADH dehydrogenase subunit F (ndhF) gene, partial cds; chloroplast.
43-12131110592222 0.893Trimenia moorei photosystem II D2 protein (psbD) and photosystem II CP43 protein (psbC) genes, partial cds; chloroplast genes for chloroplast products.
44-111110627720 0.969Schisandra 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.
45-1719118802398 0.758Austrobaileya 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.
57-17493311484 0.905Schisandra bicolor voucher NMNH 06-8343 psbA-trnH intergenic spacer, partial sequence; chloroplast.
58-101010329412 0.899Nymphaea sp. Qiu91029 mitochondrial protein (rps2) gene, partial cds; mitochondrial gene for mitochondrial product.
59-1619137021415 0.967Trimenia sp. CCWD-2000 cytochrome oxidase subunit 1 (coxI) gene, partial cds; mitochondrial.
61-5557881236 0.923Chloranthus multistachys xanthine dehydrogenase (Xdh) gene, partial cds.
77-8161453454 0.999Illicium micranthum voucher LMZ002MT04 5.8S ribosomal RNA gene, partial sequence; internal transcribed spacer 2, complete sequence; and 26S ribosomal RNA gene, partial sequence.
80-111111539883 0.778Illicium verum isolate 528 small ribosomal protein 4 (rps4) gene, partial cds; chloroplast.
81-23232347816 0.816Illicium verum ribosomal protein S16 (rps16) gene, intron; chloroplast.
84-6103429626 0.817Nymphaea lotus isolate lot-w RNA polymerase C-like (rpoC1) gene, partial sequence; chloroplast.
87-9989941080 0.951Euryale ferox chloroplast rpl2, rps19, rpl22, rps3 genes, partial and complete cds.
88-55515501665 0.964Nymphaea odorata RNA polymerase II second largest subunit (RPB2) mRNA, partial cds.
89-8989621101 0.941Nymphaea odorata apocytochrome b (cob) gene, partial cds; mitochondrial.
95-10101010561396 0.862Sarcandra glabra phytochrome C (PHYC) gene, partial cds.
96-99820912250 0.955Nuphar advena photosystem I P700 apoprotein A1 (psaA) gene, partial cds; chloroplast.
97-665506811 0.891Cabomba 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.
100-20218157355 0.678Cabomba caroliniana tRNA-lys (trnK) gene, chloroplast gene for chloroplast RNA, partial intron sequence.
101-18196190333 0.860Nuphar oguraensis tRNA-lys (trnK) gene, chloroplast gene for chloroplast RNA, partial intron sequence.
103-9175465981 0.715Nymphaea sp. EMK-2003 APETALA3-like protein AP3 class II mRNA, partial cds.
104-9115567905 0.726Nymphaea sp. EMK-2003 PISTILLATA-like protein PI mRNA, partial cds.
147-6027742311018 0.648Nuphar 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.
149-12121148264 0.882Nuphar orbiculata internal transcribed spacer 1, and 5.8S ribosomal RNA gene, 5' region, partial sequence.
150-13131244299 0.975Nuphar orbiculata 5.8S ribosomal RNA gene, 3' region, and internal transcribed spacer 2, partial sequence.
163-444567600 0.986Trithuria austinensis voucher JMA 2010.3 CalS5-like protein (CalS5) mRNA, partial cds.
164-55510351398 0.880Hedyosmum sp. SM-2000 phytochrome A (PHYA) gene, partial cds.
171-51136241073 0.710Nymphaea sp. EMK-2003 AGAMOUS-like protein mRNA, complete cds.
224-463687927 0.797Nymphaea hybrid cultivar AGL6 mRNA for homeotic AGL6 protein, complete cds, cultivar: Yellow Prince.
240-454404419 0.987Nuphar sp. Palmer 689 ATPase subunit 8 (atp8) gene, partial cds; mitochondrial.
251-442600941 0.822Nymphaea sp. EMK-2003 AGAMOUS-like protein mRNA, partial cds.
257-1748113421442 0.953Nymphaea violacea voucher HELLQ 07 PsbE (psbE) gene, partial cds; psbE-petL intergenic spacer, complete sequence; and PetL (petL) gene, partial cds; chloroplast.
258-19672505593 0.965Nymphaea candida voucher 719-01 ribosomal protein L32 (rpl32) gene, partial cds; and rpl32-trnL intergenic spacer, partial sequence; chloroplast.
265-471483523 0.953Nymphaea lotus isolate lot-w PsbA (psbA) gene, partial sequence; psbA-trnH intergenic spacer, complete sequence; and tRNA-His (trnH) gene, partial sequence; chloroplast.
343-4391245246 0.996Cabomba aquatica voucher Van Valkenburg 3320 trnH-psbA intergenic spacer, partial sequence; chloroplast.
354-11361324775 0.876Trithuria cowieana voucher Macfarlane & al. 4217 (MW) NADH dehydrogenase subunit F (ndhF) gene, partial cds; plastid.
355-11341395695 0.906Trithuria lanterna voucher Macfarlane & al. 4321 (MW) internal transcribed spacer 1, partial sequence; 5.8S ribosomal RNA gene, complete sequence; and internal transcribed spacer 2, partial sequence.
373-54584390829 0.911Chloranthus fortunei ribosomal protein L20 (rpl20) gene, partial cds; and rpl20-rps12 intergenic spacer, partial sequence; chloroplast.
380-13182641735 0.915Sarcandra glabra isolate shawpc0609I 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, 5.8S ribosomal RNA gene, and internal transcribed spacer 2, complete sequence; and 28S ribosomal RNA gene, partial sequence.
381-774799986 0.923Chloranthus erectus chloroplast rpl16 gene, intron, partial sequence.
382-23231362634 0.974Hedyosmum parvifolium internal transcribed spacer 1, partial sequence; 5.8S ribosomal RNA gene, complete sequence; and internal transcribed spacer 2, partial sequence.

  1 Maximum Alignment Density
   2 Trees are unrooted RAxML trees based on Muscle alignments. Expect performance to deteriorate with low MAD 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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