################ Results ################

>Gene_tree_newick
(Callorhinchus-milii_3_KI635862.1-c11196082-11195634_ENSCMIG00000018323_497:0.02901041816,(Rhincodon-typus-N_v2_NW018061796.1-121690-122138_NONE_501:0.03646962234,((Latimeria-chalumnae_LatCha1_JH126652.1-1133361-1133825_IMMP1L_532:0.06920362355,(Erpetoichthys-calabaricus_1_2-56023720-56024160_ENSECRG00000004221_346:0.1055101859,(Lepisosteus-oculatus_LepOcu1_LG27-c9654738-9654287_elp4_464:0.04108368126,Danio-rerio_GRCz11_25-14972759-14973102_pax6a_224:0.1405274427)NA:0.006947961287)NA:0.05606669144)NA:0.002127692066,(Xenopus-tropicalis_v91_4-c9937716-9937242_pax6_552:0.08236843766,((Ornithorhynchus-anatinus_OANA5_3-17781798-17782312_ENSOANG00000015151_658:0.03425707241,((Sphenodon-punctatus_ASM311381v1_QEPC01008061.1-c1356781-1356249_ENSSPUG00000004916_720:0.008942328848,Chelonoidis-abingdonii_ASM359739v1_PKMU01008833.1-903517-904056_ELP4_721:0.01181499889)NA:0.001344565285,(Alligator-mississippiensis-N_ASM28112v4_NW017713697.1-28281902-28282448_NONE_710:0.01053630346,(Gallus-gallus_GRCg6a_5-5369336-5369855_ELP4_721:0.002427744489,(Nothoprocta-perdicaria_notPer1_PTEW01000029.1-c3388193-3387659_ELP4_717:0.006730480279,Calidris-pugnax_ASM143184v1_KQ482227.1-1341428-1341973_IMMP1L_732:0.002427744489)NA:6.505213035e-19)NA:0.003309053158)NA:0.001050678553)NA:0.002729002934)NA:0.001584680241,((Microcaecilia-unicolor-N_aMicUni1-1_NC044034.1-c141033724-141033231_NONE_477:0.1213719145,((Podarcis-muralis-N_PodMur10_NC041312.1-66192711-66193184_NONE_693:0.002778993845,Anolis-carolinensis_0_1-60563546-60564019_ELP4_662:0.01341996804)NA:0.007853135089,(Notechis-scutatus_TS10Xv2-PRI_ULFQ01000010.1-15200213-15200681_ELP4_621:-6.083323046e-05,(Pseudonaja-textilis-N_EBS10Xv2-PRI_NW020769309.1-c4750497-4750023_NONE_627:0.002223583234,(Thamnophis-sirtalis-N_6-0_NW013659983.1-c88687-88213_NONE_627:0.002173171886,(Python-bivittatus-N_502_NW006532569.1-c349733-349259_NONE_623:0.006765465315,Protobothrops-mucrosquamatus-N_1-0_NW015387874.1-c253997-253523_NONE_623:0.004732129677)NA:9.066698525e-05)NA:6.992003829e-05)NA:5.023047482e-05)NA:0.04552660728)NA:0.007358708237)NA:-0.0001782762069,(Monodelphis-domestica_monDom5_5-267254866-267255404_ELP4_737:0.02089105576,(Aotus-nancymaae_0_KZ197012.1-6929773-6930325_PAX6_894:0.004745159987,((Homo-sapiens_GRCh38_11-31655282-31655834_PAX6_958:0.003408303346,(Myotis-lucifugus_0_GL429859-3556089-3556644_ELP4_875:0.008314021502,YOURSEQ1_cre21_Homo-sapiens-hg19_GRCh37_11-31676830-31677382:0.003236388072)NA:-0.0001719152745)NA:0.002108932426,(Propithecus-coquereli_0_KQ022625.1-c5320108-5319557_ELP4_931:0.003895154599,(Chrysochloris-asiatica-N_ChrAsi1-0_NW006408590.1-7022243-7022788_NONE_749:0.05433585291,(Bos-taurus_2_15-62426257-62426809_ELP4_880:0.009359699188,((Condylura-cristata-N_ConCri1-0_NW004567116.1-c18591333-18590783_NONE_780:0.04143895214,Heterocephalus-glaber-male_0_JH173915.1-564650-564969_ENSHGLG00100010470_269:0.1495596774)NA:0.01296959092,((Nannospalax-galili_0_KL199188.1-4828723-4829271_Elp4_754:0.03463587025,Mus-musculus_GRCm38_2-c105788113-105787563_Elp4_819:0.03494911492)NA:0.005461456097,(Equus-caballus_0_7-99666050-99666600_ELP4_829:0.01814258605,Heterocephalus-glaber-male_0_JH173915.1-565086-565283_ENSHGLG00100010470_272:0.09410033677)NA:0.009137259448)NA:0.001377843391)NA:0.003348618622)NA:0.0009146202942)NA:0.002146126305)NA:0.0006497711062)NA:0.002437759218)NA:0.02672479695)NA:0.002007746182)NA:0.003828944143)NA:0.01068648363)NA:0.01426183463)NA:0.04575099144)NA:0)NA;




################ Settings ################

>Uploaded_your_sequences
cre21_Homo-sapiens-hg19_GRCh37_11-31676830-31677382
CTATCAAAAGTGCATACCACCTTAAGGAGAACACAGTTTTGAGAATCTGTCTAATCCTATTTCTTCCCACTTTGGAATCTTAATTAGAAGAGATAAGNNNNNNNNNNNCATCATTTAACTAAATTATTGTCTTGAATCTGTAGCAAAAGGTATAATCCGCAATTGGGCCAATTAGTGAACCCCATAGTTAGCTATGCTGCAGCAAACAATTTGATTAGATCTGACACCATCCTAGTTCCCACTGTTGTTTTGCCAGGTATGATGGTCAGACTTCAAAGAGCTTGAGGCATCAGCAGGGCAAGGTTTGGAGGCCAGCTTAGGTCCGGTTGTTAATCTCTCTGCTAAAACCACAGCAGCTCTCACACAAAACAAGCTTACACGACACAATCATGCGGTATTAAAGTTAGGGTTGAGTCATGCCAATTTCCCTTTGATTTTTTGATGATTGACCAAAGATGGCTACATGACTAGACACATGCTAAAAGTATCCTGATTAGGTAAGTTCCCAAAATATTTGAAGTATTTTTTAACTTCCTATATAAATGTTGTGAAA

>taxonSampling_color
Callorhinchus-milii_Black
Rhincodon-typus-N_Black
Erpetoichthys-calabaricus_Green
Lepisosteus-oculatus_Green
Danio-rerio_Green
Gasterosteus-aculeatus_Green
Tetraodon-nigroviridis_Green
Oryzias-latipes_Green
Latimeria-chalumnae_Purple
Microcaecilia-unicolor-N_Purple
Xenopus-tropicalis_Purple
Sphenodon-punctatus_Orange
Podarcis-muralis-N_Orange
Anolis-carolinensis_Orange
Python-bivittatus-N_Orange
Protobothrops-mucrosquamatus-N_Orange
Thamnophis-sirtalis-N_Orange
Pseudonaja-textilis-N_Orange
Notechis-scutatus_Orange
Chelonoidis-abingdonii_Magenta
Alligator-mississippiensis-N_Magenta
Nothoprocta-perdicaria_Magenta
Gallus-gallus_Magenta
Calidris-pugnax_Magenta
Ornithorhynchus-anatinus_Blue
Monodelphis-domestica_Blue
Choloepus-hoffmanni_Blue
Chrysochloris-asiatica-N_Red
Condylura-cristata-N_Red
Myotis-lucifugus_Blue
Equus-caballus_Blue
Bos-taurus_Blue
Heterocephalus-glaber-male_Red
Nannospalax-galili_Red
Mus-musculus_Blue
Propithecus-coquereli_Blue
Aotus-nancymaae_Blue
Homo-sapiens_Blue

>E-value_threshold_for_reported_sequences
1e-3

>Number_of_hits_to_report_per_genome
2

>TreeSearchMethod
Neighbor-joining method (Saitou and Nei 1986)

>SubstitutionModel
TN93 (Tamura and Nei 1993) + gamma

>Dependencies
BLAST 2.7.1+
MAFFT v7.356b
trimAl 1.2rev59
ape in R, Version: 5.0


### Concatenated
>Heterocephalus-glaber-male_0_JH173915.1-565086-565283_ENSHGLG00100010470_272
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCTCTCA-----CACAAGACCAGCTTACA-CGGCACAGTCATGCGGTATTAAAGTCGGAGT-CGAGTTGTGCCAATGTGCCTTTGATTTTTTGATGATTGACCA-AAGATGGCTACATGAC-TAGACACAT-GCTGAAAGTGTACTGATTAGGTCATTTCCCAAAATATTTGAAGTA----TTTTCTAACTTCCTTTATAAATGTTGTGAAA
>Heterocephalus-glaber-male_0_JH173915.1-564650-564969_ENSHGLG00100010470_269
CTGTCAGAAGTGTGTACCACCTTAACGGGAGCA--GTTTGGAGACT---CTGGCTAATCCTATTTCTTCC--CACTTTGGAATCTTAATTGGAA-GAGATAAG----GGGAAGAAAAAACATCATTTAACTAAATTATTGTCTTGACTCTGTAGCAAGAGG-TATAATCCCCAATTGGGCCAATTAGTGAGGGCCGCAGTGGCTCCCG--GCCGTGAGC-TCTTGATGAGGTCTGACCCCA-CCCGGTTCCCACTGCTGTGCTGCCAGGTGAGA--GGCGGACTTCAAAGG---CCAAGGCATCAGCAGGGC-AAGGTCTGCAGGCCAGC-TTAGGTCCGGCTG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
