From 97582f95bacd77de28775fde41f140c8b0bb4d44 Mon Sep 17 00:00:00 2001
From: Giulio <gformenti@rockefeller.edu>
Date: Sun, 31 Jan 2021 10:04:42 -0500
Subject: [PATCH] Update README.md

---
 README.md | 225 ++++++++++++++++++++++++------------------------------
 1 file changed, 100 insertions(+), 125 deletions(-)

diff --git a/README.md b/README.md
index fbbcb26..4da7587 100644
--- a/README.md
+++ b/README.md
@@ -79,131 +79,106 @@ An existing reference from closely to distantly related species is used to ident
 VGP mitogenomes assembled using mitoVGP pipeline can be found on <a href="https://vgp.github.io/genomeark/">GenomeArk</a> and include:
 
 <b>Pacbio</b><br/>
-Hourglass Treefrog	(<i>Dendropsophus ebraccatus</i>)<br/>
-European common frog	(<i>Rana temporaria</i>)<br/>
-European Toad	(<i>Bufo bufo</i>)<br/>
-Two-lined caecilian	(<i>Rhinatrema bivittatum</i>)<br/>
-Gaboon caecilian	(<i>Geotrypetes seraphini</i>)<br/>
-Tiny Cayenne Caecilian	(<i>Microcaecilia unicolor</i>)<br/>
-Kakapo	(<i>Strigops habroptilus</i>)<br/>
-Gyrfalcon	(<i>Falco rusticolus</i>)<br/>
-Anna's hummingbird	(<i>Calypte anna</i>)<br/>
-Zebra Finch (male)	(<i>Taeniopygia guttata</i>)<br/>
-Barn swallow	(<i>Hirundo rustica</i>)<br/>
-Common Tern	(<i>Sterna hirundo</i>)<br/>
-Chicken	(<i>Gallus gallus</i>)<br/>
-Carmine Bee-eater	(<i>Merops nubicus</i>)<br/>
-Red-fronted tinkerbird	(<i>Pogoniulus pusillus</i>)<br/>
-Swainson's thrush	(<i>Catharus ustulatus</i>)<br/>
-New Caledonian crow	(<i>Corvus moneduloides</i>)<br/>
-Grey crowned-crane	(<i>Balearica regulorum</i>)<br/>
-Downy Woodpecker	(<i>Dryobates pubescens</i>)<br/>
-Budgerigar	(<i>Melopsittacus undulatus</i>)<br/>
-Rifleman	(<i>Acanthisitta chloris</i>)<br/>
-Common Cuckoo	(<i>Cuculus canorus</i>)<br/>
-Lesser kestrel	(<i>Falco naumanni</i>)<br/>
-Red-legged Seriema	(<i>Cariama cristata</i>)<br/>
-Yellow-throated Sandgrouse	(<i>Pterocles gutturalis</i>)<br/>
-Mute Swan	(<i>Cygnus olor</i>)<br/>
-Razorbill	(<i>Alca torda</i>)<br/>
-Common Yellowthroat	(<i>Geothlypis trichas</i>)<br/>
-Whiskered Treeswift	(<i>Hemiprocne comata</i>)<br/>
-Great Potoo	(<i>Nyctibius grandis</i>)<br/>
-Zebra Finch (female)	(<i>Taeniopygia guttata</i>)<br/>
-Eurasian Golden Plover	(<i>Pluvialis apricaria</i>)<br/>
-Maguari Stork	(<i>Ciconia maguari</i>)<br/>
-Tufted Duck	(<i>Aythya fuligula</i>)<br/>
-Abyssinian ground hornbill	(<i>Bucorvus abyssinicus</i>)<br/>
-Lanced-tailed manakin	(<i>Chiroxiphia lanceolata</i>)<br/>
-American Flamingo	(<i>Phoenicopterus ruber</i>)<br/>
-Eurasian blackcap	(<i>Sylvia atricapilla</i>)<br/>
-Garden Warbler	(<i>Sylvia borin</i>)<br/>
-Red-crested Turaco	(<i>Tauraco erythrolophus</i>)<br/>
-European golden eagle	(<i>Aquila chrysaetos</i>)<br/>
-European robin	(<i>Erithacus rubecula</i>)<br/>
-European turtle dove	(<i>Streptopelia turtur</i>)<br/>
-Common starfish	(<i>Asterias rubens</i>)<br/>
-Honeycomb rockfish	(<i>Sebastes umbrosus</i>)<br/>
-Largescale Four-Eyed Fish	(<i>Anableps anableps</i>)<br/>
-Needlefish	(<i>Xenentodon cancila</i>)<br/>
-Red-bellied piranha	(<i>Pygocentrus nattereri</i>)<br/>
-Flier cichlid	(<i>Archocentrus centrarchus</i>)<br/>
-Indo-pacific tarpon	(<i>Megalops cyprinoides</i>)<br/>
-Spotted scat	(<i>Scatophagus argus</i>)<br/>
-Northern pike	(<i>Esox lucius</i>)<br/>
-Warty Frogfish	(<i>Antennarius maculatus</i>)<br/>
-Boesman’s rainbowfish	(<i>Melanotaenia boesemani</i>)<br/>
-Zebrafish SAT strain	(<i>Danio rerio</i>)<br/>
-Electric eel	(<i>Electrophorus electricus</i>)<br/>
-Copperband butterflyfish	(<i>Chelmon rostratus</i>)<br/>
-European eel	(<i>Anguilla anguilla</i>)<br/>
-Peladilla	(<i>Aplochiton taeniatus</i>)<br/>
-Korean giant-fin mudskipper	(<i>Periophthalmus magnuspinnatus</i>)<br/>
-Lumpfish	(<i>Cyclopterus lumpus</i>)<br/>
-Spotty Wrasse	(<i>Notolabrus celidotus</i>)<br/>
-Atlantic Halibut	(<i>Hippoglossus hippoglossus</i>)<br/>
-Climbing perch	(<i>Anabas testudineus</i>)<br/>
-Brown trout	(<i>Salmo trutta</i>)<br/>
-Live sharksucker	(<i>Echeneis naucrates</i>)<br/>
-John dory	(<i>Zeus faber</i>)<br/>
-Sterlet	(<i>Acipenser ruthenus</i>)<br/>
-Japanese puffer (Torafugu)	(<i>Takifugu rubripes</i>)<br/>
-Tire track eel	(<i>Mastacembelus armatus</i>)<br/>
-Atlantic horse mackerel	(<i>Trachurus trachurus</i>)<br/>
-Blunt-snouted clingfish	(<i>Gouania willdenowi</i>)<br/>
-Denticle herring	(<i>Denticeps clupeoides</i>)<br/>
-Eastern happy	(<i>Astatotilapia calliptera</i>)<br/>
-Gilthead seabream	(<i>Sparus aurata</i>)<br/>
-Indian glassy fish	(<i>Parambassis ranga</i>)<br/>
-Reedfish	(<i>Erpetoichthys calabaricus</i>)<br/>
-Greater pipefish	(<i>Syngnathus acus</i>)<br/>
-Milkfish	(<i>Chanos chanos</i>)<br/>
-Channel bull blenny	(<i>Cottoperca gobio</i>)<br/>
-Atlantic cod	(<i>Gadus morhua</i>)<br/>
-Stoplight loosejaw	(<i>Malacosteus niger</i>)<br/>
-Pinecone soldierfish	(<i>Myripristis murdjan</i>)<br/>
-Jewelled blenny	(<i>Salarias fasciatus</i>)<br/>
-Golden arowana	(<i>Scleropages formosus</i>)<br/>
-Orbiculate cardinalfish	(<i>Sphaeramia orbicularis</i>)<br/>
-Prehistoric monster fish	(<i>Thalassophryne amazonica</i>)<br/>
-Sea Lamprey	(<i>Petromyzon marinus</i>)<br/>
-Platypus	(<i>Ornithorhynchus anatinus</i>)<br/>
-Cow (Angus/Braham Hybrid)	(<i>Bos taurus</i>)<br/>
-Chimpanzee	(<i>Pan troglodytes</i>)<br/>
-Short-beaked echidna	(<i>Tachyglossus aculeatus</i>)<br/>
-Blue Whale	(<i>Balaenoptera musculus</i>)<br/>
-Greater Mouse-Eared Bat	(<i>Myotis myotis</i>)<br/>
-Linnaeus's Two Toed Sloth	(<i>Choloepus didactylus</i>)<br/>
-Kuhl's Pipistrelle	(<i>Pipistrellus kuhlii</i>)<br/>
-Southern tamandua	(<i>Tamandua tetradactyla</i>)<br/>
-Greater Horseshoe Bat	(<i>Rhinolophus ferrumequinum</i>)<br/>
-Californian Sea Lion	(<i>Zalophus californianus</i>)<br/>
-Stoat	(<i>Mustela erminea</i>)<br/>
-Common brushtail possum	(<i>Trichosurus vulpecula</i>)<br/>
-Nile rat	(<i>Arvicanthis niloticus</i>)<br/>
-Human	(<i>Homo sapiens</i>)<br/>
-Bottlenose dolphin	(<i>Tursiops truncatus</i>)<br/>
-Ring-tailed lemur	(<i>Lemur catta</i>)<br/>
-Canada Lynx	(<i>Lynx canadensis</i>)<br/>
-Vaquita	(<i>Phocoena sinus</i>)<br/>
-Common marmoset	(<i>Callithrix jacchus</i>)<br/>
-Pale spear-nosed Bat	(<i>Phyllostomus discolor</i>)<br/>
-Common pipistrelle	(<i>Pipistrellus pipistrellus</i>)<br/>
-Eurasian red squirrel	(<i>Sciurus vulgaris</i>)<br/>
-Brown rat	(<i>Rattus norvegicus</i>)<br/>
-Grey squirrel	(<i>Sciurus carolinensis</i>)<br/>
-Eurasian otter	(<i>Lutra lutra</i>)<br/>
-Water vole	(<i>Arvicola amphibius</i>)<br/>
-Green sea turtle	(<i>Chelonia mydas</i>)<br/>
-Sand lizard	(<i>Lacerta agilis</i>)<br/>
-Leatherback Sea Turtle	(<i>Dermochelys coriacea</i>)<br/>
-Goode's Thornscrub tortoise	(<i>Gopherus evgoodei</i>)<br/>
-Bolson tortoise	(<i>Gopherus flavomarginatus</i>)<br/>
-Western terrestrial garter snake	(<i>Thamnophis elegans</i>)<br/>
-Great white shark	(<i>Carcharodon carcharias</i>)<br/>
-Smalltooth sawfish	(<i>Pristis pectinata</i>)<br/>
-Thorny Skate	(<i>Amblyraja radiata</i>)<br/>
-Small-spotted catshark	(<i>Scyliorhinus canicula</i>)<br/>
+Anna's hummingbird (<i>Calypte anna</i>)<br/>
+Atlantic Halibut (<i>Hippoglossus hippoglossus</i>)<br/>
+Atlantic horse mackerel (<i>Trachurus trachurus</i>)<br/>
+Blue Whale (<i>Balaenoptera musculus</i>)<br/>
+Blunt-snouted clingfish (<i>Gouania willdenowi</i>)<br/>
+Boesman’s rainbowfish (<i>Melanotaenia boesemani</i>)<br/>
+Bolson tortoise (<i>Gopherus flavomarginatus</i>)<br/>
+Bottlenose dolphin (<i>Tursiops truncatus</i>)<br/>
+Brown rat (<i>Rattus norvegicus</i>)<br/>
+Brown trout (<i>Salmo trutta</i>)<br/>
+Budgerigar (<i>Melopsittacus undulatus</i>)<br/>
+Californian Sea Lion (<i>Zalophus californianus</i>)<br/>
+Canada Lynx (<i>Lynx canadensis</i>)<br/>
+Carmine Bee-eater (<i>Merops nubicus</i>)<br/>
+Chicken (<i>Gallus gallus</i>)<br/>
+Chimpanzee (<i>Pan troglodytes</i>)<br/>
+Climbing perch (<i>Anabas testudineus</i>)<br/>
+Common brushtail possum (<i>Trichosurus vulpecula</i>)<br/>
+Common Cuckoo (<i>Cuculus canorus</i>)<br/>
+Common marmoset (<i>Callithrix jacchus</i>)<br/>
+Common pipistrelle (<i>Pipistrellus pipistrellus</i>)<br/>
+Common starfish (<i>Asterias rubens</i>)<br/>
+Common Tern (<i>Sterna hirundo</i>)<br/>
+Common Yellowthroat (<i>Geothlypis trichas</i>)<br/>
+Copperband butterflyfish (<i>Chelmon rostratus</i>)<br/>
+Cow (Angus/Braham Hybrid) (<i>Bos taurus</i>)<br/>
+Denticle herring (<i>Denticeps clupeoides</i>)<br/>
+Downy Woodpecker (<i>Dryobates pubescens</i>)<br/>
+Eastern happy (<i>Astatotilapia calliptera</i>)<br/>
+Electric eel (<i>Electrophorus electricus</i>)<br/>
+Eurasian Golden Plover (<i>Pluvialis apricaria</i>)<br/>
+Eurasian otter (<i>Lutra lutra</i>)<br/>
+Eurasian red squirrel (<i>Sciurus vulgaris</i>)<br/>
+European common frog (<i>Rana temporaria</i>)<br/>
+European golden eagle (<i>Aquila chrysaetos</i>)<br/>
+European Toad (<i>Bufo bufo</i>)<br/>
+Flier cichlid (<i>Archocentrus centrarchus</i>)<br/>
+Gaboon caecilian (<i>Geotrypetes seraphini</i>)<br/>
+Gilthead seabream (<i>Sparus aurata</i>)<br/>
+Goode's Thornscrub tortoise (<i>Gopherus evgoodei</i>)<br/>
+Great Potoo (<i>Nyctibius grandis</i>)<br/>
+Great white shark (<i>Carcharodon carcharias</i>)<br/>
+Greater Horseshoe Bat (<i>Rhinolophus ferrumequinum</i>)<br/>
+Greater Mouse-Eared Bat (<i>Myotis myotis</i>)<br/>
+Greater pipefish (<i>Syngnathus acus</i>)<br/>
+Grey crowned-crane (<i>Balearica regulorum</i>)<br/>
+Grey squirrel (<i>Sciurus carolinensis</i>)<br/>
+Gyrfalcon (<i>Falco rusticolus</i>)<br/>
+Honeycomb rockfish (<i>Sebastes umbrosus</i>)<br/>
+Hourglass Treefrog (<i>Dendropsophus ebraccatus</i>)<br/>
+Human (<i>Homo sapiens</i>)<br/>
+Indian glassy fish (<i>Parambassis ranga</i>)<br/>
+Indo-pacific tarpon (<i>Megalops cyprinoides</i>)<br/>
+Japanese puffer (Torafugu) (<i>Takifugu rubripes</i>)<br/>
+John dory (<i>Zeus faber</i>)<br/>
+Kakapo (<i>Strigops habroptilus</i>)<br/>
+Korean giant-fin mudskipper (<i>Periophthalmus magnuspinnatus</i>)<br/>
+Kuhl's Pipistrelle (<i>Pipistrellus kuhlii</i>)<br/>
+Largescale Four-Eyed Fish (<i>Anableps anableps</i>)<br/>
+Leatherback Sea Turtle (<i>Dermochelys coriacea</i>)<br/>
+Lesser kestrel (<i>Falco naumanni</i>)<br/>
+Linnaeus's Two Toed Sloth (<i>Choloepus didactylus</i>)<br/>
+Live sharksucker (<i>Echeneis naucrates</i>)<br/>
+Lumpfish (<i>Cyclopterus lumpus</i>)<br/>
+Maguari Stork (<i>Ciconia maguari</i>)<br/>
+Mute Swan (<i>Cygnus olor</i>)<br/>
+Needlefish (<i>Xenentodon cancila</i>)<br/>
+New Caledonian crow (<i>Corvus moneduloides</i>)<br/>
+Nile rat (<i>Arvicanthis niloticus</i>)<br/>
+Northern pike (<i>Esox lucius</i>)<br/>
+Pale spear-nosed Bat (<i>Phyllostomus discolor</i>)<br/>
+Platypus (<i>Ornithorhynchus anatinus</i>)<br/>
+Razorbill (<i>Alca torda</i>)<br/>
+Red-bellied piranha (<i>Pygocentrus nattereri</i>)<br/>
+Red-fronted tinkerbird (<i>Pogoniulus pusillus</i>)<br/>
+Red-legged Seriema (<i>Cariama cristata</i>)<br/>
+Reedfish (<i>Erpetoichthys calabaricus</i>)<br/>
+Rifleman (<i>Acanthisitta chloris</i>)<br/>
+Ring-tailed lemur (<i>Lemur catta</i>)<br/>
+Sand lizard (<i>Lacerta agilis</i>)<br/>
+Sea Lamprey (<i>Petromyzon marinus</i>)<br/>
+Short-beaked echidna (<i>Tachyglossus aculeatus</i>)<br/>
+Smalltooth sawfish (<i>Pristis pectinata</i>)<br/>
+Southern tamandua (<i>Tamandua tetradactyla</i>)<br/>
+Spotted scat (<i>Scatophagus argus</i>)<br/>
+Spotty Wrasse (<i>Notolabrus celidotus</i>)<br/>
+Sterlet (<i>Acipenser ruthenus</i>)<br/>
+Stoat (<i>Mustela erminea</i>)<br/>
+Swainson's thrush (<i>Catharus ustulatus</i>)<br/>
+Thorny Skate (<i>Amblyraja radiata</i>)<br/>
+Tiny Cayenne Caecilian (<i>Microcaecilia unicolor</i>)<br/>
+Tire track eel (<i>Mastacembelus armatus</i>)<br/>
+Two-lined caecilian (<i>Rhinatrema bivittatum</i>)<br/>
+Vaquita (<i>Phocoena sinus</i>)<br/>
+Warty Frogfish (<i>Antennarius maculatus</i>)<br/>
+Whiskered Treeswift (<i>Hemiprocne comata</i>)<br/>
+Yellow-throated Sandgrouse (<i>Pterocles gutturalis</i>)<br/>
+Zebra Finch (female) (<i>Taeniopygia guttata</i>)<br/>
+Zebra Finch (male) (<i>Taeniopygia guttata</i>)<br/>
+Zebrafish SAT strain (<i>Danio rerio</i>)<br/>
 
 <br/>