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

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Cluster IDParent clusterTaxIDsGIsGeneraLminLmaxMAD1Defline of longest sequenceTree2
0-124123314032424369 0.365Porphyra suborbiculata specimen voucher WELT A22999 small subunit ribosomal RNA gene, partial sequence; internal transcribed spacer 1, and 5.8S ribosomal RNA gene, complete sequence; and internal transcribed spacer 2, partial sequence.
2-19715606400682398 0.524Antithamnion sp. rbcL and rbcS rhodoplast genes for ribulose 1,5 bisphosphate carboxylase large and small subunits.
4-7592291421 0.910Porphyra vietnamensis voucher SPF56150 cytochrome oxidase subunit 2 (cox2) gene, partial cds; cox2-cox3 intergenic spacer, complete sequence; and cytochrome oxidase subunit 3 (cox3) gene, partial cds; mitochondrial.
5-54125231025 0.618Porphyra umbilicalis isolate IRE2 18S small subunit ribosomal RNA gene, intron; and His-Cys box protein gene, complete cds.
6-228012524717 0.754UNVERIFIED: Audouinella sinensis voucher SNS060345 cytochrome oxidase subunit 1-like (COI) gene, partial sequence; mitochondrial.
7-492243246 0.998Bangia atropurpurea isolate JB238 ribulose 1,5-bisphosphate carboxylase/oxygenase small subunit and ribulose 1,5-bisphosphate carboxylase/oxygenase large subunit genes, partial cds; chloroplast.
12-8133495996 0.599Porphyra abbottae small subunit ribosomal RNA gene, group IC1 intron, complete sequence.
13-101545671082 0.614Porphyra umbilicalis small subunit ribosomal RNA gene, group IC1 intron, complete sequence.
14-27865316949 0.474Porphyra sp. strain ROS125 18S ribosomal RNA gene, partial sequence.
15-553256336 0.862Porphyra carolinensis isolate 75 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) gene, partial cds; chloroplast gene for chloroplast product.
22-25108228222250 0.445Chondrus crispus Stackouse actin (ChAc) gene, complete cds.
25-16617110611742548 0.648Botryocladia uvarioides elongation factor 2 (EF2) gene, partial cds.
51-4122469533 0.950Bangia atropurpurea isolate BI12 small subunit ribosomal RNA gene, group IC1 intron, complete sequence.
53-3557257051354 0.702Thorea gaudichaudii chloroplast tufA gene for elongation factor TU, partial cds, country:Japan:Okinawa, Nugusuku-ga.
55-159204847172259 0.653Galdieria sulphuraria strain 074W photosystem I P700 chlorophyll a apoprotein A1 (psaA) gene, complete cds; plastid.
56-6199761192911151 0.745C.caldarium plastid DNA of psbA gene.
57-15181312272205 0.596Galdieria sulphuraria strain 074W photosystem I P700 chlorophyll a apoprotein A2 (psaB) gene, complete cds; plastid.
58-101299331422 0.719Galdieria sulphuraria strain 074W photosystem II CP43 protein (psbC) gene, complete cds; plastid.
59-1113108211056 0.843Galdieria sulphuraria strain 074W photosystem II D2 protein (psbD) gene, complete cds; plastid.
64-76815410512099 0.659Antithamnion sp. plastid DNA for 16S rRNA/23S rRNA spacer region and tRNA-Ile and tRNA-Ala genes.
73-1316119802423 0.528Porphyra haitanensis phycoerythrin beta subunit (PEB) and phycoerythrin alpha subunit (PEA) genes, complete cds; chloroplast.
84-19232664677 0.990Porphyra kuniedae mitochondrial atp6, trnl(gau) genes for ATP synthase F0 subunit 6, tRNA-Ile, partial cds and sequence.
85-1717212921343 0.990Porphyra moriensis mitochondrial trnC(gca), rps11, sdh3, trnG(gcc), trnN(guu), trnP(ugg), rns genes for tRNA-Cys, ribosomal protein S11, succinate:cytochrome c oxidoreductase subunit 3, tRNA-Gly, tRNA-Asn, tRNA-Pro, small subunit ribosomal RNA, partial and complete cds, partial and complete sequence.
91-107021651631 0.246Porphyra sp. Shinori genes for small subunit ribosomal RNA, ITS1, 5.8S ribosomal RNA, partial and complete sequence, country: Japan:Hokkaido, Hakodate, Shinori.
101-78210781208 0.961Porphyra tenera TOP2 gene for type II DNA topoisomerase, partial cds.
120-6182216262 0.975Pyropia perforata voucher GWS009735 cytochrome oxidase subunit 1 (COI) gene, partial cds; mitochondrial.
134-998626629 0.999Chondrus ocellatus heat shock protein 70 gene, partial cds; chloroplast.
137-44327273219 0.885Gracilaria lemaneiformis trehalose-6-phosohate synthase mRNA, complete cds.
205-7854202245 0.532Gracilaria verrucosa polyubiquitin (UBI6R) gene, complete cds.
260-4122273526 0.631Rhodosorus marinus culture-collection ALGOBANK:737 18S ribosomal RNA gene, partial sequence.
352-17171407813 0.724Cyanidiales sp. CCMEE 5609 macrosatellite sequence; chloroplast.
353-33331468571 0.850Galdieria sp. CCMEE 5704 18S ribosomal RNA gene, partial sequence.
355-70046172092301470 0.480Hypnea flexicaulis partial COI gene for cytochrome oxidase subunit 1, isolate Venice.
356-3611346149324670 0.572Audouinella heterospora voucher SAS92103 23S ribosomal RNA gene, partial sequence.
357-98222683564234762 0.254Tricleocarpa cylindrica large subunit ribosomal RNA gene, partial sequence.
360-666543699 0.926Rhodosorus marinus 23S large subunit ribosomal RNA (rrnL) gene, partial sequence; chloroplast.
361-16463233103631 0.552Caloglossa monosticha chloroplast rbcL, rbcS genes for large subunit ribulose 1,5-bisphosphate carboxylase/oxygenase, small subunit ribulose 1,5-bisphosphate carboxylase/oxygenase, partial cds, strain: MK892.
363-552580674 0.909Laurencia cf. perforata 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.
364-22271610101045 0.998Odonthalia floccosa var. comosa voucher AC266 RNA polymerase II large subunit (RPB1) gene, partial cds.
378-26458314390 0.969Callithamnion collabens voucher C101 phycoerythrin alpha subunit (cpeA) gene, partial cds; plastid.
379-26468419501 0.975Callithamnion pikeanum voucher C3 phycoerythrin beta subunit (cpeB) gene, partial cds; plastid.
380-62015151 1.000Neosiphonia japonica 16N_japo_Sinchun cpeB-cpeA intergenic spacer, partial sequence; plastid.
395-461132137 0.977Antithamnion kylinii internal transcribed spacer 1, complete sequence.
402-171848171213 0.979Aglaothamnion bipinnatum voucher A115 ATP synthase alpha subunit (atpA) gene, partial cds; plastid.
411-15151309318 0.974Ceramium cimbricum 28S large subunit ribosomal RNA gene, partial sequence.
412-12941100103 0.995Ceramium kondoi voucher C156 rbcL/rbcS intergenic spacer, complete sequence; plastid.
413-8111623668 0.983Ceramium strictum clone CerUK 5.8S ribosomal RNA gene, and internal transcribed spacer 2, partial sequence.
417-1860610121013 1.000Ceramium pacificum voucher AC242 RNA polymerase II largest subunit gene, partial cds.
424-9574418227401 0.820Eucheuma denticulatum isolate CG cytochrome oxidase subunit 2 (cox2) gene, partial cds; cox2-cox3 intergenic spacer, complete sequence; and cytochrome oxidase subunit 3 (cox3) gene, partial cds; mitochondrial.
446-58413021350 0.992Phycodrys setchellii 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, 5.8S ribosomal RNA gene and internal transcribed spacer 2, complete sequence; and 25S ribosomal RNA gene, partial sequence.
449-41552303303 1.000Martensia sp. YL1598 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1 and 5.8S ribosomal RNA gene, complete sequence; and internal transcribed spacer 2, partial sequence.
456-41429699 0.991Galaxaura papillata DNA, internal transcribed spacer 1, partial sequence, clone: G. papillata (Rg).
457-553646782 0.894Balliopsis prieurii large subunit ribosomal RNA gene, partial sequence.
485-8137094901384 0.522Gymnogongrus sp. FredericqS_19.i.95_1 isolate 19.i.95 small subunit ribosomal RNA gene, partial sequence; internal transcribed spacer 1 and 5.8S ribosomal RNA gene, complete sequence; and internal transcribed spacer 2, partial sequence.
487-7131120227 0.905Mastocarpus cristatus note DNA isolated from type specimen of Gigartina papillata f. cristata 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, complete sequence; and 5.8S ribosomal RNA gene, partial sequence.
536-25423146195 0.780Mazzaella japonica isolate JAPONICA internal transcribed spacer 1 and 5.8S ribosomal RNA gene, partial sequence.
537-14471628704 0.963Chondracanthus sp. internal transcribed spacer 1, 5.8S ribosomal RNA gene, and internal transcribed spacer 2, complete sequence.
538-9124147345 0.536Dumontia contorta specimen-voucher GWS000762 (UNB) small subunit ribosomal RNA gene, partial sequence; internal transcribed spacer 1 and 5.8S ribosomal RNA gene, complete sequence; and internal transcribed spacer 2, partial sequence.
540-4839092 0.993Iridaea cordata isolate NCU chloroplast rubisco intergenic spacer.
543-471143145 0.993Sarcothalia papillosa internal transcribed spacer 1, complete sequence.
558-4828971020 0.913Sarcodiotheca sp. internal transcribed spacer region , ITS1, 5.8S rRNA gene, and ITS2, complete sequence.
560-462320363 0.973Kappaphycus cottonii URP1 region plastid sequence.
563-4292575575 1.000Eucheuma denticulatum isolate 42 cytochrome oxidase subunit 2 (cox2) gene, partial cds; mitochondrial.
565-461601613 0.989Kappaphycus sp. B8 psbA-trnH intergenic spacer and tRNA-His (trnH) gene, partial sequence; chloroplast.
568-31795436658 0.836Polyopes lancifolius ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) and ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit (rbcS) genes, partial cds; chloroplast.
569-21671315568 0.894Portieria cf. hornemannii SP3 partial EF2 gene for elongation factor 2, specimen voucher GENT:SCS105.
574-6202248659 0.635Rhodymeniocolax botryoides complete internal transcribed spacer region including ITS 1, 5.8s rDNA and ITS 2.
594-4438471000 0.917UNVERIFIED: Thorea hispida photosystem II thylakoid membrane protein D1-like (psbA) gene, partial sequence; chloroplast.
603-6361345378 0.992Sirodotia suecica from Canada cytochrome oxidase subunit 2 (cox2) gene, partial cds; cox2-cox3 intergenic spacer, complete sequence; and cytochrome oxidase subunit 3 (cox3) gene, partial cds; mitochondrial.
606-9352805968 0.927Lemanea fucina isolate WALES4 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1 and 5.8S ribosomal RNA gene, complete sequence; and internal transcribed spacer 2, partial sequence.
617-848110071629 0.792Corallina officinalis voucher GWS001819 partial 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, 5.8S ribosomal RNA gene, and internal transcribed spacer 2, complete sequence; and partial 25S ribosomal RNA gene, partial sequence.
620-9455177457 0.431Chiharaea americana voucher UC:1468482 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit gene, partial cds; chloroplast.
626-771717731 0.987G.pristoides 18S rRNA gene, ITS1, 5.8S rRNA gene, ITS2, 28S rRNA gene.
628-674196200 0.986Gelidium pusillum gene for ITS1, partial sequence.
678-71513581263 0.716Gracilaria pacifica internal transcribed spacer region of the nuclear ribosomal repeat, ITS1, 5.8S rRNA gene, and ITS2, complete sequence.
717-625110831401 0.904Gracilaria aff. tepocensis strain Sao Paulo2B 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.
784-5212746818 0.964Plocamium sp. complete internal transcribed spacer region including ITS 1, 5.8s rDNA and ITS 2.
785-4429331140 0.908Plocamiocolax pulvinata complete internal transcribed spacer region including ITS 1, 5.8s rDNA and ITS 2.
789-13392728800 0.961Prionitis lanceolata internal transcribed spacer 1, complete sequence; 5.8S ribosomal RNA gene, complete sequence; and internal transcribed spacer 2, partial sequence.
791-10192177178 0.997Prionitis linearis ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) gene, partial cds; plastid.
796-7322363716 0.871Pachymenia lusoria collection 1 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.

  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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