198c9b8daecc44fbda6a6494c566c723920f030a lrnassar Wed Mar 11 18:25:21 2026 -0700 Fixing a few hundred clear typos with the help of Claude. Some are less important in code comments, but majority of them are in user-facing places. I manually approved 60%+ of the changes and didn't see any that were an incorrect suggestion, at worst it was potentially uncessesary, like a code comment having cant instead of can't. No RM. diff --git src/hg/makeDb/trackDb/human/hg38/cactus447way.html src/hg/makeDb/trackDb/human/hg38/cactus447way.html index e0670aacbe0..65c793ce3bf 100644 --- src/hg/makeDb/trackDb/human/hg38/cactus447way.html +++ src/hg/makeDb/trackDb/human/hg38/cactus447way.html @@ -1,30 +1,30 @@ <H2>Description</H2> <P> This track shows a multiple alignment of 447 mammalian genomes made with Cactus and constraint scores derived from it. To build this track, the Zoonomia 241 alignment was used as a starting point, all primates and a few outdated assemblies were removed and an alignment between 233 newly sequenced primates was added. See the Methods section below for details, and also the publications by Kuderna et al. 2023 in the Reference section. All alignments and operations on them were performed using the <A target=_blank HREF="https://github.com/ComparativeGenomicsToolkit/cactus" TARGET=_blank>Cactus toolkit</A>. </P> <P>For this track, two types of phyloP conservation score tracks are available: one using the normal "LRT" model and one with the "REV" model. The "REV" model is better when analyzing conservation of transcript-related nucleotides, e.g. splice sites, as it depends less on the strand of the genome sequence. See the -phyoP publication for details or contact us. +phyloP publication for details or contact us. </P> <h2>Data Access</h2> <p> Downloads for data in this track are available from the directory: <ul> <li> <a href="https://hgdownload.soe.ucsc.edu/goldenPath/hg38/cactus447way/">Cactus 447-way alignments</a> (MAF format), and phylogenetic trees <a href="https://hgdownload.soe.ucsc.edu/goldenPath/hg38/phyloP447way/">PhyloP conservation</a> (WIG format) </ul> </p> <h2>Display Conventions and Configuration</h2> <p> In full and pack display modes, conservation scores are displayed as a @@ -34,31 +34,31 @@ highlight different aspects of the displayed information. Click the <a href="../goldenPath/help/hgWiggleTrackHelp.html" target=_blank>Graph configuration help</a> link for an explanation of the configuration options.</p> <p> Pairwise alignments of each species to the $organism genome are displayed below the conservation histogram as a grayscale density plot (in pack mode) or as a wiggle (in full mode) that indicates alignment quality. In dense display mode, conservation is shown in grayscale using darker values to indicate higher levels of overall conservation as scored by phastCons. </p> <p> Checkboxes on the track configuration page allow selection of the species to include in the pairwise display. Note that excluding species from the pairwise display does not alter the -the conservation score display.</p> +conservation score display.</p> <p> To view detailed information about the alignments at a specific position, zoom the display in to 30,000 or fewer bases, then click on the alignment.</p> <h3>Gap Annotation</h3> <p> The <em>Display chains between alignments</em> configuration option enables display of gaps between alignment blocks in the pairwise alignments in a manner similar to the Chain track display. Missing sequence in any assembly is highlighted in the track display by regions of yellow when zoomed out and by Ns when displayed at base level. The following conventions are used: <ul> <li><b>Single line:</b> No bases in the aligned species. Possibly due to a lineage-specific insertion between the aligned blocks in the $organism genome @@ -117,31 +117,31 @@ pull-down menu are used to translate all the aligned species present in the alignment. <li> <b>Use reading frames for species if available, otherwise no translation:</b> Codon translation is performed only for those species where the region is annotated as protein coding. <li><b>Use reading frames for species if available, otherwise use default species:</b> Codon translation is done on those species that are annotated as being protein coding over the aligned region using species-specific annotation; the remaining species are translated using the default species annotation. </ul></p> <p> Codon translation uses the following gene tracks as the basis for translation: <blockquote><table class="stdTbl"> <tr align=left><td><b>Gene Track</b></td><td><b>Species</b></td></tr> -<tr align=left><td>RefSeq Genes</td><td>Bos mutus, Canis lupus familiaris, Carlito syrichta, Cercocebus atys, Chinchilla lanigera, Colobus angolensis, Condylura cristata, Dipodomys ordii, Elephantulus edwardii, Eptesicus fuscus, Felis catus, Felis catus fca126, Fukomys damarensis, Homo sapiesn, Ictidomys tridecemlineatus, Macaca mulatta, Macaca nemestrina, Marmota marmota, Microtus ochrogaster, Miniopterus natalensis, Mus musculus, Mus pahari, Myotis brandtii, Myotis davidii, Myotis lucifugus, Odobenus rosmarus, Orcinus orca, Otolemur garnettii, Peromyscus maniculatus, Piliocolobus tephrosceles, Propithecus coquerelli, Pteropus alecto, Pteropus vampyrus, Rattus norvegicus, Rhinopithecus roxellana, Saimiri boliviensis, Sorex araneus, Sus scrofa, Theropithecus gelada, Tupaia chinensis</td></tr> +<tr align=left><td>RefSeq Genes</td><td>Bos mutus, Canis lupus familiaris, Carlito syrichta, Cercocebus atys, Chinchilla lanigera, Colobus angolensis, Condylura cristata, Dipodomys ordii, Elephantulus edwardii, Eptesicus fuscus, Felis catus, Felis catus fca126, Fukomys damarensis, Homo sapiens, Ictidomys tridecemlineatus, Macaca mulatta, Macaca nemestrina, Marmota marmota, Microtus ochrogaster, Miniopterus natalensis, Mus musculus, Mus pahari, Myotis brandtii, Myotis davidii, Myotis lucifugus, Odobenus rosmarus, Orcinus orca, Otolemur garnettii, Peromyscus maniculatus, Piliocolobus tephrosceles, Propithecus coquerelli, Pteropus alecto, Pteropus vampyrus, Rattus norvegicus, Rhinopithecus roxellana, Saimiri boliviensis, Sorex araneus, Sus scrofa, Theropithecus gelada, Tupaia chinensis</td></tr> <tr align=left><td>Ensembl Genes</td><td>Cavia aperea</td></tr> <tr align=left><td>Augustus Genes</td><td>Eidolon helvum, Pteronotus parnellii</td></tr> <tr align=left><td>no annotation</td><td>Acinonyx jubatus, Acomys cahirinus, Ailuropoda melanoleuca, Ailurus fulgens, Allactaga bullata, Allenopithecus nigroviridis, Allochrocebus lhoesti, Allochrocebus preussi, Allochrocebus solatus, Alouatta belzebul, Alouatta caraya, Alouatta discolor, Alouatta juara, Alouatta macconnelli, Alouatta nigerrima, Alouatta palliata, Alouatta puruensis, Alouatta seniculus, Ammotragus lervia, Anoura caudifer, Antilocapra americana, Aotus azarae, Aotus griseimembra, Aotus nancymaae, Aotus trivirgatus, Aotus vociferans, Aplodontia rufa, Arctocebus calabarensis, Artibeus jamaicensis, Ateles geoffroyi_a, Ateles geoffroyi_b, Ateles belzebuth, Ateles chamek, Ateles marginatus, Ateles paniscus, Avahi laniger, Avahi peyrierasi, Balaenoptera acutorostrata, Balaenoptera bonaerensis, Beatragus hunteri, Bison bison, Bos indicus, Bos taurus, Bubalus bubalis, Cacajao ayresi, Cacajao calvus, Cacajao hosomi, Cacajao melanocephalus, Callibella humilis, Callimico goeldii, Callithrix geoffroyi, Callithrix jacchus, Callithrix kuhlii, Camelus bactrianus, Camelus dromedarius, Camelus ferus, Canis lupus VD, Canis lupus dingo, Canis lupus orion, Capra aegagrus, Capra hircus, Capromys pilorides, Carollia perspicillata, Castor canadensis, Catagonus wagneri, Cavia porcellus, Cavia tschudii, Cebuella niveiventris, Cebuella pygmaea, Cebus albifrons, Cebus olivaceus, Cebus unicolor, Cephalopachus bancanus, Ceratotherium simum, Ceratotherium simum cottoni, Cercocebus chrysogaster, Cercocebus lunulatus, Cercocebus torquatus, Cercopithecus ascanius, Cercopithecus cephus, Cercopithecus diana, Cercopithecus hamlyni, Cercopithecus lowei, Cercopithecus albogularis, Cercopithecus mona, Cercopithecus neglectus, Cercopithecus nictitans, Cercopithecus petaurista, Cercopithecus pogonias, Cercopithecus roloway, Chaetophractus vellerosus, Cheirogaleus major, Cheirogaleus medius, Cheracebus lucifer, Cheracebus lugens, Cheracebus regulus, Cheracebus torquatus, Chiropotes albinasus, Chiropotes israelita, Chiropotes sagulatus, Chlorocebus aethiops, Chlorocebus pygerythrus, Chlorocebus sabaeus, Choloepus didactylus, Choloepus hoffmanni, Chrysochloris asiatica, Colobus guereza, Colobus polykomos, Craseonycteris thonglongyai, Cricetomys gambianus, Cricetulus griseus, Crocidura indochinensis, Cryptoprocta ferox, Ctenodactylus gundi, Ctenomys sociabilis, Cuniculus paca, Dasyprocta punctata, Dasypus novemcinctus, Daubentonia madagascariensis, Delphinapterus leucas, Desmodus rotundus, Dicerorhinus sumatrensis, Diceros bicornis, Dinomys branickii, Dipodomys stephensi, Dolichotis patagonum, Echinops telfairi, Elaphurus davidianus, Ellobius lutescens, Ellobius talpinus, Enhydra lutris, Equus asinus, Equus caballus, Equus przewalskii, Erinaceus europaeus, Erythrocebus patas, Eschrichtius robustus, Eubalaena japonica, Eulemur albifrons, Eulemur collaris, Eulemur coronatus, Eulemur flavifrons, Eulemur fulvus, Eulemur macaco, Eulemur mongoz, Eulemur rubriventer, Eulemur rufus, Eulemur sanfordi, Felis nigripes, Galago moholi, Galago senegalensis, Galagoides demidoff, Galeopterus variegatus, Giraffa tippelskirchi, Glis glis, Gorilla beringei, Gorilla gorilla, Graphiurus murinus, Hapalemur alaotrensis, Hapalemur gilberti, Hapalemur griseus, Hapalemur meridionalis, Hapalemur occidentalis, Helogale parvula, Hemitragus hylocrius, Heterocephalus glaber, Heterohyrax brucei, Hippopotamus amphibius, Hipposideros armiger, Hipposideros galeritus, Hoolock leuconedys, Hyaena hyaena, Hydrochoerus hydrochaeris, Hylobates abbotti, Hylobates agilis, Hylobates klossii, Hylobates pileatus, Hylobates muelleri, Hylobates pileatus, Hystrix cristata, Indri indri, Inia geoffrensis, Jaculus jaculus, Kogia breviceps, Lagothrix lagothricha, Lasiurus borealis, Lemur catta, Leontocebus fuscicollis, Leontocebus illigeri, Leontocebus nigricollis, Leontopithecus chrysomelas, Leontopithecus rosalia, Lepilemur ankaranensis, Lepilemur dorsalis, Lepilemur ruficaudatus, Lepilemur septentrionalis, Leptonychotes weddellii, Lepus americanus, Lipotes vexillifer, Lophocebus aterrimus, Loris lydekkerianus, Loris tardigradus, Loxodonta africana, Lycaon pictus, Macaca arctoides, Macaca assamensis, Macaca cyclopis, Macaca fascicularis, Macaca fuscata, Macaca leonina, Macaca maura, Macaca nigra, Macaca radiata, Macaca siberu, Macaca silenus, Macaca thibetana, Macaca tonkeana, Macroglossus sobrinus, Mandrillus leucophaeus, Mandrillus sphinx, Manis javanica, Manis pentadactyla, Megaderma lyra, Mellivora capensis, Meriones unguiculatus, Mesocricetus auratus, Mesoplodon bidens, Mico argentatus, Mico humeralifer, Mico schneideri, Microcebus murinus, Microgale talazaci, Micronycteris hirsuta, Miniopterus schreibersii, Miopithecus ogouensis, Mirounga angustirostris, Mirza zaza, Monodon monoceros, Mormoops blainvillei, Moschus moschiferus, Mungos mungo, Murina feae, Mus caroli, Mus spretus, Muscardinus avellanarius, Mustela putorius, Myocastor coypus, Myotis myotis, Myrmecophaga tridactyla, Nannospalax galili, Nasalis larvatus, Neomonachus schauinslandi, Neophocaena asiaeorientalis, Noctilio leporinus, Nomascus annamensis, Nomascus concolor, Nomascus gabriellae, Nomascus siki_a, Nomascus siki_b, Nyctereutes procyonoides, Nycticebus bengalensis, Nycticebus coucang, Nycticebus pygmaeus, Ochotona princeps, Octodon degus, Odocoileus virginianus, Okapia johnstoni, Ondatra zibethicus, Onychomys torridus, Orycteropus afer, Oryctolagus cuniculus, Otocyon megalotis, Otolemur crassicaudatus, Ovis aries, Ovis canadensis, Pan paniscus, Pan troglodytes, Panthera onca, Panthera pardus, Panthera tigris, Pantholops hodgsonii, Papio anubis, Papio cynocephalus, Papio hamadryas, Papio kindae, Papio papio, Papio ursinus, Paradoxurus hermaphroditus, Perodicticus ibeanus, Perodicticus potto, Perognathus longimembris, Petromus typicus, Phocoena phocoena, Piliocolobus badius, Piliocolobus gordonorum, Piliocolobus kirkii, Pipistrellus pipistrellus, Pithecia albicans, Pithecia chrysocephala, Pithecia hirsuta, Pithecia mittermeieri, Pithecia pissinattii, Pithecia pithecia, Pithecia vanzolinii, Platanista gangetica, Plecturocebus bernhardi, Plecturocebus brunneus, Plecturocebus caligatus, Plecturocebus cinerascens, Plecturocebus cupreus, Plecturocebus dubius, Plecturocebus grovesi, Plecturocebus hoffmannsi, Plecturocebus miltoni, Plecturocebus moloch, Pongo abelii, Pongo pygmaeus, Presbytis comata, Presbytis mitrata, Procavia capensis, Prolemur simus, Propithecus coronatus, Propithecus diadema, Propithecus edwardsi, Propithecus perrieri, Propithecus tattersalli, Propithecus verreauxi, Psammomys obesus, Pteronura brasiliensis, Puma concolor, Pygathrix cinerea, Pygathrix nigripes, Pygathrix nigripes, Rangifer tarandus, Rhinolophus sinicus, Rhinopithecus bieti, Rhinopithecus strykeri, Rousettus aegyptiacus, Saguinus bicolor, Saguinus geoffroyi, Saguinus imperator, Saguinus inustus, Saguinus labiatus, Saguinus midas, Saguinus mystax, Saguinus oedipus, Saiga tatarica, Saimiri cassiquiarensis, Saimiri macrodon, Saimiri oerstedii, Saimiri sciureus, Saimiri ustus, Sapajus apella, Sapajus macrocephalus, Scalopus aquaticus, Semnopithecus entellus, Semnopithecus hypoleucos, Semnopithecus johnii, Semnopithecus priam, Semnopithecus schistaceus, Semnopithecus vetulus, Sigmodon hispidus, Solenodon paradoxus, Spermophilus dauricus, Spilogale gracilis, Suricata suricatta, Symphalangus syndactylus, Tadarida brasiliensis, Tamandua tetradactyla, Tapirus indicus, Tapirus terrestris, Tarsius lariang, Tarsius wallacei, Thryonomys swinderianus, Tolypeutes matacus, Tonatia saurophila, Trachypithecus auratus, Trachypithecus crepusculus, Trachypithecus cristatus, Trachypithecus francoisi, Trachypithecus geei, Trachypithecus germaini, Trachypithecus hatinhensis, Trachypithecus laotum, Trachypithecus leucocephalus, Trachypithecus melamera, Trachypithecus obscurus, Trachypithecus phayrei, Trachypithecus pileatus, Tragulus javanicus, Trichechus manatus, Tupaia tana, Tursiops truncatus, Uropsilus gracilis, Ursus maritimus, Varecia rubra, Varecia variegata, Vicugna pacos, Vulpes lagopus, Xerus inauris, Zalophus californianus, Zapus hudsonius, Ziphius cavirostris </td></tr> </table> <b>Table 2.</b> <em>Gene tracks used for codon translation.</em> </blockquote></p> <h2>Methods</h2> <p> This alignment was created by making three edits (using Cactus) to the 241-way mammalian Zoonomia Cactus alignment (<a href="https://cglgenomics.ucsc.edu/data/cactus/" target="_blank"> https://cglgenomics.ucsc.edu/data/cactus/</a>). <ul> @@ -272,31 +272,31 @@ <tr><td>094</td><th>Hanuman langur</th><td>primates catarrhini</td><td>Semnopithecus entellus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=88029' target=_blank>88029</a></th></tr> <tr><td>095</td><th>pileated gibbon</th><td>primates catarrhini</td><td>Hylobates pileatus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9589' target=_blank>9589</a></th></tr> <tr><td>096</td><th>black snub-nosed monkey</th><td>primates catarrhini</td><td>Rhinopithecus bieti</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=61621' target=_blank>61621</a></th></tr> <tr><td>097</td><th>Burmese snub-nosed monkey</th><td>primates catarrhini</td><td>Rhinopithecus strykeri</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=1194336' target=_blank>1194336</a></th></tr> <tr><td>098</td><th>Angolan colobus</th><td>primates catarrhini</td><td>Colobus angolensis<br><a href='/cgi-bin/hgTracks?db=colAng1' target=_blank>colAng1</a></td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=54131' target=_blank>54131</a></th></tr> <tr><td>099</td><th>Pileated Gibbon</th><td>primates catarrhini</td><td>Hylobates pileatus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9589' target=_blank>9589</a></th></tr> <tr><td>100</td><th>black-shanked douc langur</th><td>primates catarrhini</td><td>Pygathrix nigripes</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=310352' target=_blank>310352</a></th></tr> <tr><td>101</td><th>Milne-edwards' Macaque</th><td>primates catarrhini</td><td>Macaca thibetana</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=54602' target=_blank>54602</a></th></tr> <tr><td>102</td><th>Phayre's Leaf-monkey</th><td>primates catarrhini</td><td>Trachypithecus phayrei</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=61618' target=_blank>61618</a></th></tr> <tr><td>103</td><th>Assam macaque</th><td>primates catarrhini</td><td>Macaca assamensis</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9551' target=_blank>9551</a></th></tr> <tr><td>104</td><th>Eastern hoolock gibbon</th><td>primates catarrhini</td><td>Hoolock leuconedys</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=61851' target=_blank>61851</a></th></tr> <tr><td>105</td><th>mandrill</th><td>primates catarrhini</td><td>Mandrillus sphinx</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9561' target=_blank>9561</a></th></tr> <tr><td>106</td><th>White-faced Saki</th><td>primates platyrrhini</td><td>Pithecia chrysocephala</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2946515' target=_blank>2946515</a></th></tr> <tr><td>107</td><th>Monk Saki</th><td>primates platyrrhini</td><td>Pithecia hirsuta</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2946516' target=_blank>2946516</a></th></tr> <tr><td>108</td><th>white-faced saki</th><td>primates platyrrhini</td><td>Pithecia pithecia</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=43777' target=_blank>43777</a></th></tr> -<tr><td>109</td><th>Mittermeier's Tapajós saki</th><td>primates platyrrhini</td><td>Pithecia mittermeieri</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2946517' target=_blank>2946517</a></th></tr> +<tr><td>109</td><th>Mittermeier's Tapaj�s saki</th><td>primates platyrrhini</td><td>Pithecia mittermeieri</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2946517' target=_blank>2946517</a></th></tr> <tr><td>110</td><th>Buffy Saki</th><td>primates platyrrhini</td><td>Pithecia albicans</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2946514' target=_blank>2946514</a></th></tr> <tr><td>111</td><th>Pissinatti's saki</td><td>primates platyrrhini</td><td>Pithecia pissinattii (Pithecia pissinatti)</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2946518' target=_blank>2946518</a></th></tr> <tr><td>112</td><th>Vanzolini's Bald-faced Saki</th><td>primates platyrrhini</td><td>Pithecia vanzolinii</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2946519' target=_blank>2946519</a></th></tr> <tr><td>113</td><th>Bald-headed Uacari</th><td>primates platyrrhini</td><td>Cacajao calvus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=30596' target=_blank>30596</a></th></tr> <tr><td>114</td><th>Ayres Black Uakari</th><td>primates platyrrhini</td><td>Cacajao ayresi</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=535896' target=_blank>535896</a></th></tr> <tr><td>115</td><th>Black-headed Uacari</th><td>primates platyrrhini</td><td>Cacajao melanocephalus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=70825' target=_blank>70825</a></th></tr> <tr><td>116</td><th>Black-headed Uacari</th><td>primates platyrrhini</td><td>Cacajao hosomi</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=535897' target=_blank>535897</a></th></tr> <tr><td>117</td><th>Reddish-brown bearded saki</td><td>primates platyrrhini</td><td>Chiropotes sagulatus (Chiropotes chiropotes)</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=658221' target=_blank>658221</a></th></tr> <tr><td>118</td><th>brown-backed bearded saki</th><td>primates platyrrhini</td><td>Chiropotes israelita</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=280163' target=_blank>280163</a></th></tr> <tr><td>119</td><th>Collared Titi Monkey</th><td>primates platyrrhini</td><td>Cheracebus lugens</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=210166' target=_blank>210166</a></th></tr> <tr><td>120</td><th>Brown Titi Monkey</th><td>primates platyrrhini</td><td>Plecturocebus brunneus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=1812042' target=_blank>1812042</a></th></tr> <tr><td>121</td><th>Hoffmanns's titi monkey</th><td>primates platyrrhini</td><td>Plecturocebus hoffmannsi</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=78255' target=_blank>78255</a></th></tr> <tr><td>122</td><th>Milton's Titi Monkey</th><td>primates platyrrhini</td><td>Plecturocebus miltoni</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=1812038' target=_blank>1812038</a></th></tr> <tr><td>123</td><th>Widow Monkey</th><td>primates platyrrhini</td><td>Cheracebus torquatus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=30592' target=_blank>30592</a></th></tr> <tr><td>124</td><th>Ashy Black Titi Monkey</th><td>primates platyrrhini</td><td>Plecturocebus cinerascens</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=1812037' target=_blank>1812037</a></th></tr> @@ -315,31 +315,31 @@ <tr><td>137</td><th>White-bellied Spider Monkey</th><td>primates platyrrhini</td><td>Ateles belzebuth</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9507' target=_blank>9507</a></th></tr> <tr><td>138</td><th>Common Woolly Monkey</td><td>primates platyrrhini</td><td>Lagothrix lagothricha (Lagothrix lagotricha)</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9519' target=_blank>9519</a></th></tr> <tr><td>139</td><th>large-headed capuchin</td><td>primates platyrrhini</td><td>Sapajus macrocephalus (Sapajus apella macrocephalus)</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=1547595' target=_blank>1547595</a></th></tr> <tr><td>140</td><th>Spixs White-fronted Capuchin</th><td>primates platyrrhini</td><td>Cebus unicolor</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=1985288' target=_blank>1985288</a></th></tr> <tr><td>141</td><th>Central American spider monkey</td><td>primates platyrrhini</td><td>Ateles geoffroyi_b</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9509' target=_blank>9509</a></th></tr> <tr><td>142</td><th>Guinan Weeper Capuchin</th><td>primates platyrrhini</td><td>Cebus olivaceus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=37295' target=_blank>37295</a></th></tr> <tr><td>143</td><th>mantled howler monkey</th><td>primates platyrrhini</td><td>Alouatta palliata</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=30589' target=_blank>30589</a></th></tr> <tr><td>144</td><th>white-fronted capuchin</th><td>primates platyrrhini</td><td>Cebus albifrons</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9514' target=_blank>9514</a></th></tr> <tr><td>145</td><th>Northern Night Monkey</th><td>primates platyrrhini</td><td>Aotus trivirgatus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9505' target=_blank>9505</a></th></tr> <tr><td>146</td><th>Grey-handed Night Monkey</th><td>primates platyrrhini</td><td>Aotus griseimembra</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=292213' target=_blank>292213</a></th></tr> <tr><td>147</td><th>Black-and-gold Howler Monkey</th><td>primates platyrrhini</td><td>Alouatta caraya</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9502' target=_blank>9502</a></th></tr> <tr><td>148</td><th>Spixs Night Monkey</th><td>primates platyrrhini</td><td>Aotus vociferans</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=57176' target=_blank>57176</a></th></tr> <tr><td>149</td><th>Red-handed Howler Monkey</th><td>primates platyrrhini</td><td>Alouatta belzebul</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=30590' target=_blank>30590</a></th></tr> <tr><td>150</td><th>Red-handed Howler Monkey</th><td>primates platyrrhini</td><td>Alouatta discolor</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2905217' target=_blank>2905217</a></th></tr> <tr><td>151</td><th>Azara's Night Monkey</td><td>primates platyrrhini</td><td>Aotus azarae (Aotus azarai)</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=30591' target=_blank>30591</a></th></tr> -<tr><td>152</td><th>Purús Red Howler Monkey</td><td>primates platyrrhini</td><td>Alouatta puruensis (Alouatta seniculus puruensis)</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=1347729' target=_blank>1347729</a></th></tr> +<tr><td>152</td><th>Pur�s Red Howler Monkey</td><td>primates platyrrhini</td><td>Alouatta puruensis (Alouatta seniculus puruensis)</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=1347729' target=_blank>1347729</a></th></tr> <tr><td>153</td><th>Black Howler Monkey</td><td>primates platyrrhini</td><td>Alouatta nigerrima (Alouatta belzebul)</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=30590' target=_blank>30590</a></th></tr> <tr><td>154</td><th>Guianan Red Howler Monkey</th><td>primates platyrrhini</td><td>Alouatta macconnelli</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=198115' target=_blank>198115</a></th></tr> <tr><td>155</td><th>Colombian Red Howler Monkey</th><td>primates platyrrhini</td><td>Alouatta juara</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2946512' target=_blank>2946512</a></th></tr> <tr><td>156</td><th>Colombian Red Howler Monkey</th><td>primates platyrrhini</td><td>Alouatta seniculus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9503' target=_blank>9503</a></th></tr> <tr><td>157</td><th>tufted capuchin</th><td>primates platyrrhini</td><td>Sapajus apella</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9515' target=_blank>9515</a></th></tr> <tr><td>158</td><th>Ma's night monkey</th><td>primates platyrrhini</td><td>Aotus nancymaae<br><a href='/h/GCA_000952055.2' target=_blank>GCA_000952055.2_Anan_2.0</a></td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=37293' target=_blank>37293</a></th></tr> <tr><td>159</td><th>Bolivian squirrel monkey</th><td>primates platyrrhini</td><td>Saimiri boliviensis<br><a href='/h/GCF_016699345.1' target=_blank>GCF_016699345.1_BCM_Sbol_2.0</a></td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=27679' target=_blank>27679</a></th></tr> <tr><td>160</td><th>White-nosed Saki</th><td>primates platyrrhini</td><td>Chiropotes albinasus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=198627' target=_blank>198627</a></th></tr> <tr><td>161</td><th>Black Mantle Tamarin</th><td>primates platyrrhini</td><td>Leontocebus nigricollis</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9489' target=_blank>9489</a></th></tr> <tr><td>162</td><th>brown-mantled tamarin</th><td>primates platyrrhini</td><td>Leontocebus fuscicollis</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9487' target=_blank>9487</a></th></tr> <tr><td>163</td><th>Illiger's saddle-back tamarin</td><td>primates platyrrhini</td><td>Leontocebus illigeri (Leontocebus fuscicollis illigeri)</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=881947' target=_blank>881947</a></th></tr> <tr><td>164</td><th>Cotton-headed Tamarin</th><td>primates platyrrhini</td><td>Saguinus oedipus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=9490' target=_blank>9490</a></th></tr> <tr><td>165</td><th>Pied Tamarin</th><td>primates platyrrhini</td><td>Saguinus bicolor</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=37588' target=_blank>37588</a></th></tr> <tr><td>166</td><th>Geoffroy's Tamarin</th><td>primates platyrrhini</td><td>Saguinus geoffroyi</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=43778' target=_blank>43778</a></th></tr> <tr><td>167</td><th>White-fronted Titi Monkey</th><td>primates platyrrhini</td><td>Saguinus inustus</td><th style='text-align:right;'><a href='https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=1079039' target=_blank>1079039</a></th></tr>