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

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Cluster IDParent clusterTaxIDsGIsGeneraLminLmaxMAD1Defline of longest sequenceTree2
00896502559 0.981Gopherus agassizii voucher HBS109173 anonymous locus TB02 genomic sequence.
119107521680 0.954Terrapene carolina voucher HBS27360 anonymous locus TB07 genomic sequence.
22896393393 1.000Terrapene carolina voucher HBS27360 anonymous locus TB17 genomic sequence.
335715025365587 0.918Trachemys taylori voucher HBS108679 anonymous locus TB29 genomic sequence.
44675559643 0.977Chrysemys picta dorsalis voucher HBS27637 anonymous locus TB49 genomic sequence.
55896534632 0.983Terrapene carolina voucher HBS27360 anonymous locus TB53 genomic sequence.
66896620693 0.972Chrysemys picta dorsalis voucher HBS27637 anonymous locus TB59 genomic sequence.
77886614690 0.968Graptemys geographica voucher HBS23396 anonymous locus TB81 genomic sequence.
889107682689 0.996Cuora zhoui voucher HBS41855 anonymous locus TB82 genomic sequence.
99674556586 0.983Pseudemys concinna floridana voucher HBS108683 anonymous locus TB86 genomic sequence.
1010785445586 0.941Gopherus agassizii voucher HBS109173 anonymous locus TB95 genomic sequence.
1313461055142951199 0.566Pyxidea mouhotii D-loop, complete sequence; mitochondrial.
14141731146333982325 0.385Malaclemys terrapin voucher MVZ 257690 tRNA-Gly gene, partial sequence; NADH dehydrogenase subunit 3 (ND3) gene, complete cds; tRNA-Arg gene, complete sequence; NADH dehydrogenase subunit 4L (ND4L) gene, complete cds; tRNA-His gene, complete sequence; NADH dehydrogenase subunit 4 (ND4) gene, complete cds; tRNA-Ser gene, complete sequence; and tRNA-Xle gene, partial sequence; mitochondrial.
15152792397522562118 0.402Pseudemys concinna haplotype 65 cytochrome b-like (cytb) gene, partial sequence; tRNA-Thr and tRNA-Pro genes, control region, and tRNA-Phe gene, complete sequence; and 12S ribosomal RNA gene, partial sequence; mitochondrial.
16165526924407967 0.736Cuora pani clone Cpa2MVZ230513 hepatocyte nuclear factor 1-alpha (HNFAL) gene, intron 2.
1717123543296991151 0.818Cuora picturata voucher FMNH 261576 RNA fingerprint protein 35 (R35) gene, intron 1.
18184617119402847 0.903Rhinoclemmys annulata recombination activating gene 1 (RAG-1) gene, partial cds.
191940237166941147 0.913Mauremys mutica clone Mm1_MVZ230476 reelin gene, exons 61, 62 and partial cds.
20204311518227679 0.885Indotestudo forstenii voucher HBS108633 anonymous locus TB73 genomic sequence.
212135169163791047 0.654Terrapene carolina triunguis voucher HBS27365 transforming growth factor beta 2 gene, intron 5.
2222303010356746 0.964Pseudemys rubriventris voucher JJW 1056 ETS oncogene (ETS) gene, intron.
2323516424422734 0.832Heosemys spinosa voucher HBS117745 nerve growth factor beta polypeptide (NGF) gene, partial cds.
2424428716200516 0.827Platysternon megacephalum glyceraldehyde-3-phosphate dehydrogenase (GAPDH) gene, intron 11 and partial cds.
2525383813451693 0.923Cuora flavomarginata vimentin (Vim) gene, intron 4 and partial cds.
262647220772105 0.996Graptemys pseudogeographica isolate pseB NADH dehydrogenase subunit 2 (ND2) gene, complete cds; tRNA-Trp, tRNA-Ala, tRNA-Asn, tRNA-Cys, and tRNA-Tyr genes, complete sequence; and cytochrome c oxidase subunit 1 (COX1) gene, partial cds; mitochondrial.
272713142340344 0.997Graptemys versa DNA sequence.
2828101010189189 1.000Geochelone carbonaria NADH dehydrogenase subunit 3 (ND3) gene, partial cds; mitochondrial.
303011926542243897 0.796Cuora bourreti YPM R 14074 cytochrome oxidase subunit I (COI) gene, partial cds; mitochondrial gene for mitochondrial product.
3131666491583 0.974Geochelone sulcata voucher MVZ238888 ATP-binding cassette sub-family E member 1 (ABCE1) mRNA, partial cds.
3535101010394394 1.000Malayemys subtrijuga voucher MVZ230474 chromobox-like protein 3 (CBX3) mRNA, partial cds.
3838444276276 1.000Testudo hermanni voucher MVZ244866 Down syndrome critical region 3 (DSCR3) mRNA, partial cds.
4141777300330 0.972Geoemyda spengleri voucher MVZ257081 eukaryotic translation initiation factor 3 subunit M (EIF3M) mRNA, partial cds.
4646777330413 0.966Malayemys subtrijuga voucher MVZ230474 G1-S phase transition protein 1 (GSPT1) mRNA, partial cds.
4949555271273 0.999Hardella thurjii voucher MVZ248392 4-hydroxyphenylpyruvate dioxygenase (HPD) mRNA, partial cds.
5353665523563 0.981Testudo graeca voucher MVZ234282 nuclear factor I/A transcript variant 5 (NFIA005) mRNA, partial cds.
5656666386386 1.000Hardella thurjii voucher MVZ248392 nuclear transcription factor Y beta (NFYB) mRNA, partial cds.
5959777202380 0.905Hardella thurjii voucher MVZ248392 ornithine aminotransferase (OAT) mRNA, partial cds.
606010109259315 0.959Testudo graeca voucher MVZ234282 ornithine decarboxylase antizyme 1 (OAZ1) mRNA, partial cds.
6262555321535 0.859Testudo hermanni voucher MVZ244866 polyA-binding protein cytoplasmic 1 (PABPC1) mRNA, partial cds.
6464101010288427 0.948Deirochelys reticularia voucher MVZ230923 programmed cell death 10 (PDCD10) mRNA, partial cds.
7171181815392407 0.998Testudo hermanni voucher MVZ244866 ribosomal protein L4 (RPL4) mRNA, partial cds.
7272131312459480 0.983Pangshura smithii voucher MVZ248394 ribosomal protein L7a (RPL7A) mRNA, partial cds.
7676232322332339 0.999Geoemyda spengleri voucher MVZ257081 ribosomal protein S14 (RPS14) mRNA, partial cds.
7777999386387 1.000Geochelone sulcata voucher MVZ238888 iron-sulfur succinate dehydrogenase complex subunit B (SDHB) mRNA, partial cds.
7878555504708 0.942Rhinoclemmys pulcherrima voucher MVZ230924 SEC13-like protein (SEC13) mRNA, partial cds.
7979777324459 0.958Rhinoclemmys pulcherrima voucher MVZ230924 SEC62-like protein (SEC62) mRNA, partial cds.
8080777490496 0.998Pangshura smithii voucher MVZ248394 serum/glucocorticoid regulated kinase 1 (SGK1) mRNA, partial cds.
8181101010436484 0.986Psammobates pardalis voucher MVZ241333 suppressor of mec-8 and unc-52-like protein (SMU1) mRNA, partial cds.
8282998539606 0.986Rhinoclemmys pulcherrima voucher MVZ230924 sorting nexin 6 (SNX6) mRNA, partial cds.
8383555395399 0.992Testudo hermanni voucher MVZ244866 mitochondrial superoxide dismutase 2 (SOD2) mRNA, partial cds; nuclear gene for mitochondrial product.
8484666200312 0.796Geoemyda spengleri voucher MVZ257081 signal recognition particle 54kDa (SRP54) mRNA, partial cds.
8888777279301 0.990Testudo hermanni voucher MVZ244866 ubiquitin-conjugating enzyme E2K (UBE2K) mRNA, partial cds.
8989888280280 1.000Rhinoclemmys pulcherrima voucher MVZ230924 ubiquitin-conjugating enzyme E2N (UBE2N) mRNA, partial cds.
9191555280280 1.000Geochelone sulcata voucher MVZ238888 ubiquitin-conjugating enzyme E2 variant 2 (UBE2V2) mRNA, partial cds.
9292998567567 1.000Testudo graeca voucher MVZ234282 voltage-dependent anion channel 1 (VDAC1) mRNA, partial cds.
9393555400451 0.962Geochelone sulcata voucher MVZ238888 vacuolar protein sorting 29-like protein (VPS29) mRNA, partial cds.
9494666522528 0.991Testudo hermanni voucher MVZ244866 Wilms tumor 1-associated protein (WTAP) mRNA, partial cds.
10510513643943328446 0.908Mauremys mutica 12S ribosomal RNA gene, partial sequence; mitochondrial.
10610611516442279602 0.960Geochelone nigra oocyte maturation factor Mos (Cmos) gene, partial cds.
107107485813283620 0.897Trachemys decussata angusta partial odc gene for ornithine decarboxylase, specimen voucher MTD:T 6007, exons 6-7.
108108697628614647 0.975Batagur sp. AA1015 partial rag1 gene, specimen voucher AA1015.
109109105177394411193 0.546Macrochelys temminckii recombination activating protein 2 (RAG-2) gene, partial cds.
11711720301127812849 0.982Macrochelys temminckii recombination activating protein 1 (RAG-1) gene, partial cds.
141141296714609660 0.970Heosemys spinosa voucher HBS117759 aryl hydrocarbon receptor 1 (AHR) gene, partial cds.
1421422860165441011 0.630Macrochelys temminckii brain-derived neurotrophic factor (BDNF) gene, partial cds.
143143296814554632 0.987Heosemys annandalii voucher FMNH 259074 bone morphogenetic protein 2 (BMP2) gene, partial cds.
144144286614389568 0.963Platysternon megacephalum high mobility group protein B2 (HMG-2) gene, intron and partial cds.
145145286614275699 0.945Cyclemys fusca voucher CAS 210070 KIAA0398 protein gene, partial cds; and intron.
146146225011349703 0.970Batagur trivittata proteasome (prosome, macropain) 26S subunit, ATPase, 1 (PSMC1) gene, intron and partial cds.
147147276014442907 0.780Heosemys depressa voucher HBS112432 paired box protein (PAX1P1) gene, intron.
148148286714514668 0.892Actinemys marmorata anonymous locus TB01 genomic sequence.
149149224912601882 0.757Psammobates pardalis zinc finger homeobox protein (ZEB2) gene, partial cds.
16416411941340217700 0.769Kachuga tecta 16S ribosomal RNA gene, partial sequence; mitochondrial.
1651658108176220 0.940Testudo graeca U17 snoRNA gene.
231230666395600 0.866Testudo horsfieldii DNA, SINE franking sequence of BCr01 locus.
232231121210188194 0.978Siebenrockiella crassicollis DNA, BKs52 locus sequence.
233232888153193 0.935Cuora amboinensis DNA, SINE flanking sequence of BOr04 locus.
234233555214414 0.897Kachuga smithii DNA, BHa25 locus sequence containing a SINE unit.
240239555274439 0.703Testudo horsfieldii DNA, SINE and its flanking sequence of TKe17 locus.
242241444262437 0.723Testudo horsfieldii DNA, SINE and its flanking sequence of TKe83 locus.
24324210109219459 0.701Cuora amboinensis DNA, SINE and its flanking sequence of BHa65 locus.
244243101010242507 0.709Cuora mouhotii DNA, SINE and its flanking sequence of BHa74 locus.
245244666248449 0.631Kachuga smithii DNA, SINE and its flanking sequence of BKs29 locus.
246245131311191386 0.631Heosemys annandalii DNA, SINE and its flanking sequence of BHg36 locus.
247246777164175 0.985Geoemyda spengleri DNA, SINE flanking sequence of BMr20 locus.
248247202018135211 0.882Heosemys annandalii DNA, SINE flanking sequence of BMm74 locus.
249248887149169 0.965Emys orbicularis DNA, SINE flanking sequence of BHg10 locus.
250249111110192424 0.666Sacalia bealei DNA, SINE and its flanking sequence of BHa68 locus.
251250997281517 0.875Mauremys sinensis DNA, SINE and its flanking sequence of BOs57 locus.
252251161612142166 0.973Sacalia bealei DNA, SINE flanking sequence of BKs11 locus.
253252666242455 0.686Kachuga smithii DNA, SINE and its flanking sequence of TTh23 locus.
254253888145200 0.963Rhinoclemmys punctularia punctularia DNA, SINE flanking sequence of BMr15 locus.
2862855361526527 1.000Terrapene carolina haplotype 12 D-loop, partial sequence; mitochondrial.
300392131313203295 0.964Hardella thurjii voucher MVZ248392 proteasome subunit alpha type 6 (PSMA6) mRNA, partial cds.
356354304122521706 0.908Rhinoclemmys diademata orphan G protein-coupled receptor R35 (R35) gene, intron 1.
35735512127396401 0.994Geochelone elegans 12S ribosomal RNA gene, partial sequence; mitochondrial gene for mitochondrial product.
39011744410911376 0.947Psammobates pardalis voucher MTD_T_5448 recombination activating protein 1 (Rag1) gene, partial cds.
393389665279377 0.931Leucocephalon yuwonoi voucher MVZ241499 ribosomal protein L11 (RPL11) mRNA, partial cds.
472469775281472 0.738Mauremys japonica DNA, SINE and its flanking sequence of BOs55 locus.
473470665239425 0.709Mauremys mutica kami DNA, SINE and its flanking sequence of BOs74 locus.
474471888317563 0.703Mauremys japonica DNA, SINE and its flanking sequence of BCr61 locus.
475472666186228 0.965Testudo horsfieldii DNA, SINE flanking sequence of BMm105 locus.
476473444229231 0.995Mauremys japonica DNA, SINE flanking sequence of BPm30 locus.
477474777119128 0.973Rhinoclemmys punctularia punctularia DNA, SINE flanking sequence of BHg33 locus.
478475121212220420 0.609Melanochelys trijuga DNA, SINE and its flanking sequence of BHa59 locus.
47947610109258470 0.721Sacalia bealei DNA, SINE and its flanking sequence of BMr49 locus.
480477775153462 0.618Mauremys sinensis DNA, SINE and its flanking sequence of BOs68 locus.
481478444158173 0.977Heosemys annandalii DNA, SINE flanking sequence of BOs151 locus.
482479775235433 0.682Mauremys sinensis DNA, SINE and its flanking sequence of BOs94 locus.
484481775209496 0.686Mauremys mutica kami DNA, SINE and its flanking sequence of BMm103 locus.
48548211117222548 0.679Mauremys mutica kami DNA, CryIC SINE and its flanking sequence of BMm85 locus.
486483998184448 0.643Sacalia bealei DNA, SINE and its flanking sequence of BHg23 locus.
487484111110237461 0.611Heosemys grandis DNA, SINE and its flanking sequence of BHg12 locus.
488485888139140 0.996Cuora amboinensis DNA, SINE flanking sequence of BHg16 locus.
489486554234448 0.710Kachuga smithii DNA, SINE and its flanking sequence of BKs85 locus.
490487775265465 0.634Mauremys sinensis DNA, SINE and its flanking sequence of BOs33 locus.
491488665275469 0.661Mauremys sinensis DNA, SINE and its flanking sequence of BOs52 locus.
492489665214410 0.606Mauremys sinensis DNA, SINE and its flanking sequence of BOs80 locus.
497494997302499 0.665Kachuga smithii DNA, CryIC SINE and its flanking sequence of BKs31 locus.
511508216042387787 0.792Chelonoidis nigra isolate AGO6 D-loop, partial sequence; mitochondrial.
5125095262309380 0.970Geochelone carbonaria isolate red actin gene, partial intron sequence.
5135105402231330 0.945Geochelone pardalis isolate to aldolase 1 gene, intron and partial cds.
5155125262484585 0.980Geochelone nigra isolate P244 calmodulin gene, intron and partial cds.
5165135152293295 1.000Geochelone nigra isolate PB3 creatine kinase gene, intron 6 and partial cds.
517514530218052063 0.969Geochelone carbonaria isolate red 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, complete sequence; and 5.8S ribosomal RNA gene, partial sequence.
572569141422597972 0.771Mauremys leprosa voucher MNCN 23659 NADH dehydrogenase subunit 1 (ND1) gene, complete cds; mitochondrial.
57357013402635706 0.996Cuora trifasciata voucher KFBG 021325338 nerve growth factor beta polypeptide gene, partial cds.
576573664257456 0.712Mauremys japonica DNA, SINE and its flanking sequence of BOs60 locus.
577574664227432 0.611Cuora mouhotii DNA, SINE and its flanking sequence of BPm20 locus.
5785759156237390 0.840Heosemys annandalii DNA, SINE and its flanking sequence of BMr20 locus.
583580775139158 0.924Geoclemys hamiltonii histone H4 gene, partial sequence.
585582564188200 0.966Batagur kachuga 12S ribosomal RNA gene, partial sequence; mitochondrial.
624105711311431154 0.995Mauremys japonica voucher ANUM26080206 12S ribosomal RNA and tRNA-Val genes, complete sequence; and 16S ribosomal RNA gene, partial sequence; mitochondrial.

  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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