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File Name Lucie's comments Action taken Gene GeneSize NbSpecies omegaM0Bpp omegaM0codeml BUSTED BUSTED p-value MEME NbSites MEME PSS BppM1M2 BppM1M2 p-value BppM1M2 NbSites BppM1M2 PSS BppM7M8 BppM7M8 p-value BppM7M8 NbSites BppM7M8 PSS codemlM1M2 codemlM1M2 p-value codemlM1M2 NbSites codemlM1M2 PSS codemlM7M8 codemlM7M8 p-value codemlM7M8 NbSites codemlM7M8 PSS
AAR2_sequences_filtered_longestORFs_mafft_prank AAR2 AAR2 543.0 12 0.111382448975 0.103 N 1.0000 0 na N 0.9999998011153564 0 na N 0.0883931847285696 0 na N 1.0 0 na N 0.2574319154136435 0 na
AASS_sequences_filtered_longestORFs_mafft_prank AASS AASS 1418.0 12 0.168200575660 0.165 N 0.0514 8 44, 54, 65, 336, 360, 382, 384, 729 N 0.7898559819260855 0 na Y 3.993698374833498e-08 13 41, 42, 54, 65, 165, 382, 545, 577, 642, 845, 906, 914, 921 N 0.3072787386016008 0 na Y 0.00623236128209284 0
AATF_sequences_filtered_longestORFs_mafft_prank AATF AATF 795.0 11 0.212648396462 0.208 N 0.9809 6 136, 140, 162, 182, 449, 669 N 0.999998128316225 0 na N 0.37817758541461555 0 na N 1.0 0 na N 0.8869204367172543 0 na
ABCC1_sequences_filtered_longestORFs_mafft_prank ABCC1 ABCC1 1909.0 11 0.114988754568 0.104 N 1.0000 16 276, 297, 302, 461, 467, 545, 627, 689, 856, 958, 1288, 1319, 1417, 1568, 1667, 1901 N 0.9999988430397351 0 na Y 0.00010463851231527765 2 581, 914 N 1.0 0 na N 0.14427991674283228 0 na
ACAD9_sequences_filtered_longestORFs_mafft_prank ACAD9 ACAD9 892.0 11 0.181748589596 0.186 Y 0.0074 7 7, 8, 22, 137, 513, 609, 778 N 0.9739193853272009 0 na Y 0.006776994523459932 1 2 N 0.5504605431263127 0 na Y 0.02413722558780989 0
ACADM_sequences_filtered_longestORFs_mafft_prank ACADM ACADM 528.0 12 0.488231418936 0.377 N 0.0735 10 58, 60, 192, 247, 290, 320, 338, 374, 436, 440 Y 0.010015777770694078 1 192 Y 7.993052097396971e-05 2 85, 192 Y 0.002283604872919489 1 192 Y 0.0007848640813105038 2 85, 192
ACE2_sequences_filtered_longestORFs_mafft_prank ACE2 ACE2 839.0 13 0.524113947496 0.511 Y 0.0000 33 3, 7, 24, 27, 39, 67, 74, 92, 93, 107, 120, 145, 187, 218, 233, 301, 313, 316, 331, 336, 444, 546, 583, 601, 624, 630, 632, 684, 692, 709, 723, 731, 793 Y 1.20435193825129e-18 11 24, 91, 214, 218, 444, 583, 692, 705, 709, 723, 725 Y 1.533421512785303e-22 12 24, 27, 91, 214, 218, 444, 583, 692, 705, 709, 723, 725 Y 5.483271214851269e-20 11 24, 91, 214, 218, 444, 583, 692, 705, 709, 723, 725 Y 1.7769031502716358e-22 15 24, 27, 91, 155, 214, 218, 233, 444, 546, 583, 692, 705, 709, 723, 725
ACSL3_sequences_filtered_longestORFs_mafft_prank_part1_prank ACSL3_part1 ACSL3 837.0 11 0.075877266256 0.069 N 0.5470 2 8, 435 N 0.9999995138724715 0 na N 0.10145409742661003 0 na N 1.0 0 na N 0.9990004998331715 0 na
ADAM9_sequences_filtered_longestORFs_mafft_prank ADAM9 "Recombination: Mostly triggered by Cter splicing variants or something like that. So OK that GARD detects that.
- PS: Yes PS on the gene from visual inspection.
" ADAM9 1010.0 12 0.151318532704 0.148 Y 0.0000 8 10, 210, 491, 605, 654, 848, 896, 974 N 0.74864566136963 0 na Y 3.605120651439133e-05 5 151, 214, 848, 898, 974 N 0.6169298233734397 0 na Y 0.029599435167906 1 974
ADAM9_sequences_filtered_longestORFs_mafft_prank_frag0to2769 ADAM9[0-2769] ADAM9[0-2769] 923.0 12 0.147847841639 0.142 Y 0.0000 7 10, 210, 491, 605, 654, 848, 896 N 0.9926195006584168 0 na Y 0.00036448136809578643 5 151, 214, 848, 896, 898 N 0.9389434736890376 0 na N 0.1069921298530522 0 na
ADAM9_sequences_filtered_longestORFs_mafft_prank_frag2768to3030 ADAM9[2768-3030] ADAM9[2768-3030] 87.0 12 0.173758026792 0.335 N 1.0000 0 na N 0.9999999961757169 0 na N 0.9999900290329444 0 na N 1.0 0 na N 0.9723883668012827 0 na
ADAMTS1_sequences_filtered_longestORFs_mafft_prank ADAMTS1 ADAMTS1 1049.0 12 0.084190392591 0.090 N 1.0000 7 187, 205, 219, 281, 299, 307, 539 N 0.9999987026139255 0 na N 0.20194392359999588 0 na N 1.0 0 na N 0.8130196499872989 0 na
AGPS_sequences_filtered_longestORFs_mafft_prank AGPS AGPS 774.0 12 0.190968764888 0.183 N 0.3827 3 15, 68, 177 N 0.10924333638405746 0 na Y 0.002725849758125283 2 177, 437 Y 0.038388398017543686 0 Y 0.006139573510901918 2 177, 437
AKAP8_sequences_filtered_longestORFs_mafft_prank AKAP8 AKAP8 1281.0 12 0.237166871959 0.255 N 0.3273 12 263, 464, 505, 514, 607, 666, 979, 1001, 1019, 1028, 1029, 1120 N 0.9999981203026822 0 na N 0.45532973557264145 0 na N 1.0 0 na N 0.2882289930577096 0 na
AKAP8L_sequences_filtered_longestORFs_mafft_prank AKAP8L AKAP8L 929.0 12 0.157186383073 0.119 N 0.9874 3 125, 646, 720 N 0.9999983786623899 0 na N 0.9999998763769403 0 na N 0.17084475505743885 0 na N 0.24536705645298887 0 na
AKAP9_sequences_filtered_longestORFs_mafft_prank AKAP9 AKAP9 4094.0 11 0.323397640332 0.291 N 0.5138 36 26, 27, 86, 104, 372, 396, 998, 1069, 1117, 1132, 1255, 1256, 1299, 1347, 1426, 1484, 1593, 1754, 2005, 2094, 2588, 2605, 2670, 2677, 2830, 3113, 3309, 3438, 3636, 3665, 3666, 3679, 3741, 3810, 4041, 4090 Y 0.015062313266655393 1 3741 Y 0.0027809814147869926 2 2830, 3741 Y 1.0376156792378447e-05 3 2830, 3741, 3810 Y 1.0213197371756032e-07 3 2830, 3741, 3810
ALG11_sequences_filtered_longestORFs_mafft_prank ALG11 ALG11 538.0 11 0.194574321694 0.198 Y 0.0000 8 2, 18, 36, 55, 151, 329, 478, 503 N 0.999998892437065 0 na N 0.7083628774335349 0 na N 1.0 0 na N 0.9970044955027636 0 na
ALG5_sequences_filtered_longestORFs_mafft_prank ALG5 ALG5 775.0 11 0.107671912945 0.126 N 0.6701 1 39 N 0.9999999440910885 0 na N 0.9999943817677858 0 na N 1.0 0 na N 0.9990004998331715 0 na
ALG8_sequences_filtered_longestORFs_mafft_prank ALG8 ALG8 699.0 11 0.198646076239 0.224 Y 0.0005 4 135, 360, 402, 442 N 0.9999989003482959 0 na N 0.4219111924514076 0 na N 0.37794749315818166 0 na N 0.24907530463158667 0 na
ANO6_sequences_filtered_longestORFs_mafft_prank ANO6 ANO6 1274.0 11 0.148195788999 0.156 Y 0.0018 8 250, 634, 808, 832, 987, 1125, 1208, 1245 N 0.9999985065335079 0 na Y 0.006517262523609501 7 301, 535, 634, 808, 810, 1125, 1253 N 1.0 0 na N 1.0 0 na
AP2A2_sequences_filtered_longestORFs_D102gp2_prank AP2A2_102-2 Sequences in 2 duplication groups: g2 and remaining. AP2A2 1281.0 9 0.022994966217 0.023 N 0.2936 1 930 N 0.9999999991568984 0 na Y 0.0192463155887868 1 915 N 1.0 0 na N 0.9980019986669264 0 na
AP2M1_sequences_filtered_longestORFs_mafft_prank AP2M1 AP2M1 447.0 12 0.001000000000 0.000 N 1.0000 0 na N 0.999999999992724 0 na N 0.999996327206114 0 na N 0.9970044955036704 0 na N 0.9970044955036704 0 na
AP3B1_sequences_filtered_longestORFs_mafft_prank AP3B1 AP3B1 1656.0 12 0.195164611351 0.173 N 0.1654 10 37, 304, 423, 775, 824, 867, 1305, 1326, 1329, 1334 N 0.8009669258447036 0 na Y 0.00033704386982924165 5 304, 734, 767, 883, 1334 N 0.4597832942305451 0 na N 0.1470474434083764 0 na
ARF6_sequences_filtered_longestORFs_D116gp1_prank ARF6_116-1 ARF6 175.0 11 0.025386603383 0.011 N 0.9143 0 na N 0.9999999986185912 0 na N 0.9999800265648641 0 na N 1.0 0 na N 1.0 0 na
ARL6IP6_sequences_filtered_longestORFs_mafft_prank ARL6IP6 ARL6IP6 408.0 12 0.266455224369 0.286 Y 0.0108 4 11, 13, 29, 78 N 0.9999997679401801 0 na N 0.3041011726478065 0 na N 0.7139088399027278 0 na N 0.2666015652764892 0 na
ATE1_sequences_filtered_longestORFs_mafft_prank ATE1 Loads and loads of splicing variants, Definitely under PS!!!!!!!!! Need the hand curated aln here. See Lucies, Not clear to me why not detected by other methods than BUSTED. ATE1. Selected seq from 11 different bat species. Only one isoform per species retained. ATE1 1497.0 11 0.134316449537 0.130 Y 0.0000 6 25, 469, 489, 820, 886, 887 N 0.9999998945004391 0 na N 0.8317445859904927 0 na N 1.0 0 na N 1.0 0 na
ATP13A3_sequences_filtered_longestORFs_mafft_prank ATP13A3 ATP13A3 1346.0 12 0.148231630010 0.144 N 0.6808 2 1075, 1277 N 0.999999512150799 0 na N 0.1808898839033816 0 na N 0.9990004998331715 0 na N 1.0 0 na
ATP1B1_sequences_filtered_longestORFs_mafft_prank ATP1B1 ATP1B1 730.0 12 0.088215036349 0.087 Y 0.0001 8 26, 61, 63, 146, 530, 654, 661, 695 N 0.9999999800343178 0 na Y 0.020573411749334792 1 520 N 1.0 0 na N 0.09817536113918371 0 na
ATP5MG_sequences_filtered_longestORFs_mafft_prank ATP5MG ATP5MG 193.0 12 0.482859629606 0.466 N 0.1388 0 na N 0.7895710018690529 0 na N 0.22670251885481518 0 na N 0.7672059499759533 0 na N 0.11394948988008499 0 na
ATP6AP1_sequences_filtered_longestORFs_mafft_prank ATP6AP1 ATP6AP1 512.0 12 0.239150464842 0.191 Y 0.0164 3 34, 51, 293 N 0.16380542242532112 0 na Y 0.0005380477529293749 4 9, 332, 335, 428 Y 0.04943977583125145 0 Y 0.002891441824662203 1 335
ATP6V1A_sequences_filtered_longestORFs_mafft_prank ATP6V1A ATP6V1A 702.0 12 0.037080871357 0.034 N 0.9146 1 175 N 0.9999999436427076 0 na Y 0.0009886079904051323 6 18, 112, 175, 226, 648, 675 N 1.0 0 na N 0.6784123432635414 0 na
BAG5_sequences_filtered_longestORFs_mafft_prank BAG5 BAG5 471.0 12 0.054098018415 0.059 N 1.0000 0 na N 0.9999991971093135 0 na N 0.44374587543466104 0 na N 1.0 0 na N 0.9733612415242943 0 na
BCKDK_sequences_filtered_longestORFs_mafft_prank BCKDK BCKDK 519.0 12 0.048231141252 0.053 N 0.0878 0 na N 0.9999996548177165 0 na N 0.05497947292168534 0 na N 1.0 0 na N 1.0 0 na
BCS1L_sequences_filtered_longestORFs_mafft_prank BCS1L BCS1 453.0 12 0.132205945080 0.132 N 1.0000 0 na N 0.9999978924487931 0 na N 0.18713935974057247 0 na N 1.0 0 na N 0.988071712862211 0 na
BRD2_sequences_filtered_longestORFs_mafft_prank BRD2 BRD2 804.0 11 0.047991384820 0.046 N 1.0000 0 na N 0.9999986952888646 0 na Y 0.005426137080708187 3 597, 632, 767 N nan 0 na N 0.2993924573097573 0 na
BRD4_sequences_filtered_longestORFs_mafft_prank BRD4 BRD4 1700.0 11 0.060100406648 0.058 Y 0.0000 4 565, 906, 907, 1246 N 0.999998199715066 0 na Y 0.032744254083124216 0 N 1.0 0 na N 1.0 0 na
BZW2_sequences_filtered_longestORFs_mafft_prank_part2_prank BZW2_part2 BZW2 468.0 11 0.025196976652 0.026 N 1.0000 0 na N 0.9999999890487744 0 na N 0.9999999748170015 0 na N 1.0 0 na N 0.9990004998331715 0 na
C1orf50_sequences_filtered_longestORFs_mafft_prank C1orf50 CUNH1ORF50 269.0 11 0.341758022438 0.368 N 0.9984 2 88, 236 N 0.9999982300625763 0 na N 0.9561748044879124 0 na N 1.0 0 na N 1.0 0 na
CCDC86_sequences_filtered_longestORFs_mafft_prank CCDC86 "Not clear to me why not detected under PS.
Aln is good. Lots of PS typical marks.
" CCDC86 426.0 10 0.479979345119 0.370 N 0.9932 9 27, 41, 49, 67, 123, 191, 213, 217, 244 N 0.9999994642868457 0 na N 0.972082322722496 0 na N 1.0 0 na N 0.9436499474368054 0 na
CDK5RAP2_sequences_filtered_longestORFs_mafft_prank CDK5RAP2 CDK5RAP2 2180.0 12 0.441350523278 0.446 N 0.7361 33 132, 133, 312, 316, 317, 350, 454, 669, 802, 843, 859, 868, 1016, 1029, 1071, 1118, 1196, 1197, 1220, 1223, 1226, 1281, 1320, 1326, 1352, 1353, 1480, 1491, 1537, 1852, 1881, 1969, 2097 N 0.05666528271531974 0 na Y 0.0014684527873602153 0 Y 0.0004989523289218173 0 Y 5.228349530650632e-07 3 692, 998, 1842
CENPF_sequences_filtered_longestORFs_mafft_prank CENPF CENPF 3255.0 10 0.395606612250 0.392 N 0.2913 56 303, 389, 453, 459, 460, 463, 770, 772, 893, 993, 1031, 1079, 1094, 1201, 1216, 1241, 1266, 1287, 1311, 1522, 1538, 1539, 1541, 1599, 1666, 1694, 1698, 1707, 1709, 1715, 1766, 1810, 1833, 1850, 1857, 1895, 1896, 1998, 2076, 2238, 2320, 2371, 2449, 2545, 2622, 2643, 2650, 2793, 2865, 2947, 2991, 3010, 3024, 3122, 3213, 3221 N 0.9999964200315351 0 na N 0.9936380594557517 0 na N 0.42485812046202354 0 na Y 0.0007087554594669269 0
CEP112_sequences_filtered_longestORFs_mafft_prank CEP112 CEP112 1043.0 11 0.206157363089 0.194 N 0.3040 17 82, 140, 172, 182, 254, 322, 364, 524, 528, 550, 578, 586, 637, 659, 701, 732, 859 N 0.9999999105748469 0 na N 0.8886782377978476 0 na N 0.6466177259356372 0 na Y 0.003413558443400645 0
CEP135_sequences_filtered_longestORFs_mafft_prank CEP135 CEP135 1223.0 12 0.210992798259 0.167 N 1.0000 3 182, 731, 850 N 0.999998115596056 0 na N 0.9839880186171744 0 na N 1.0 0 na N 0.5621424451973213 0 na
CEP250_sequences_filtered_longestORFs_mafft_prank CEP250 CEP250 2614.0 12 0.265774763928 0.233 N 0.9595 20 167, 258, 327, 1085, 1115, 1411, 1426, 1684, 1754, 1936, 1958, 1977, 1982, 2198, 2268, 2331, 2347, 2459, 2490, 2520 N 0.9999971999971513 0 na Y 4.593349950684148e-05 1 258 na na 0 na na na 0 na
CEP350_sequences_filtered_longestORFs_mafft_prank CEP350 CEP350 3352.0 12 0.250105005404 0.222 N 0.9047 34 37, 178, 188, 266, 303, 488, 515, 544, 563, 1091, 1104, 1237, 1446, 1465, 1499, 1673, 2340, 2475, 2476, 2546, 2581, 2587, 2635, 2645, 2660, 2679, 2724, 2796, 2834, 2835, 2845, 2853, 2949, 3209 N 0.9999999911087798 0 na N 0.0715503354809176 0 na N 0.6804506362032015 0 na N 0.05228739240356714 0 na
CEP43_sequences_filtered_longestORFs_mafft_prank CEP43 "Also FGFR1OP
Aln is bad. Not clear why some sequences remain in the aln given our filters.
Lucie made new aln and would still need some work.
It comes up as PS. Ok but would need a clean up!" CEP43. Realign simply. FGFR1OP 745.0 11 0.223099903671 0.225 Y 0.0000 10 142, 167, 168, 200, 226, 392, 470, 472, 528, 587 N 0.9999993462972588 0 na N 0.3775495424733028 0 na N 1.0 0 na N 0.06760995793848294 0 na
CEP68_sequences_filtered_longestORFs_mafft_prank CEP68 CEP68 874.0 12 0.434041323712 0.424 N 0.9735 11 83, 123, 155, 427, 439, 449, 462, 478, 588, 675, 686 N 0.49214635232430914 0 na N 0.08503102873795458 0 na N 1.0 0 na Y 0.048850043989108353 0
CHMP2A_sequences_filtered_longestORFs_mafft_prank CHMP2A CHMP2A 261.0 12 0.009560764201 0.009 N 0.5730 1 261 N 0.9999999922001734 0 na Y 7.99952553215434e-05 3 182, 220, 221 N 1.0 0 na Y 0.007828377549224703 0
CHPF_sequences_filtered_longestORFs_mafft_prank CHPF CHPF 834.0 12 0.068644237063 0.068 N 0.0561 2 339, 649 N 0.9999994309620688 0 na N 0.2000407448063027 0 na N 1.0 0 na N 0.9990004998331715 0 na
CHPF2_sequences_filtered_longestORFs_mafft_prank CHPF2 CHPF2 795.0 12 0.033912593302 0.038 N 0.9975 1 504 N 0.9999999998071871 0 na Y 0.0013738401598242546 2 67, 510 N 1.0 0 na N 0.9743350896089052 0 na
CISD3_sequences_filtered_longestORFs_mafft_prank CISD3 CISD3 338.0 9 0.291778267628 0.261 Y 0.0357 1 229 Y 0.010300146355136456 1 188 Y 0.0006314778513951671 4 188, 200, 229, 303 N 0.05619092567371273 0 na Y 0.011254356284444886 2 188, 303
CIT_sequences_filtered_longestORFs_mafft_prank CIT CIT 2350.0 11 0.049451453316 0.047 N 1.0000 2 186, 2101 N 0.9999992900523258 0 na Y 3.4137129040957628e-09 7 40, 48, 78, 84, 186, 399, 2331 N 1.0 0 na N 0.33021873855483563 0 na
CLCC1_sequences_filtered_longestORFs_mafft_prank CLCC1 CLCC1 878.0 12 0.389987775037 0.369 N 0.0610 20 304, 314, 415, 469, 513, 553, 568, 580, 616, 641, 681, 683, 697, 707, 717, 737, 742, 765, 792, 794 N 0.9999986477751056 0 na N 0.7941510288300495 0 na N 1.0 0 na N 0.696978998466325 0 na
CLIP4_sequences_filtered_longestORFs_mafft_prank CLIP4 CLIP4 806.0 12 0.124211676557 0.124 Y 0.0000 6 443, 470, 645, 646, 665, 683 N 0.9999993504600133 0 na Y 0.0161088496734443 4 222, 359, 541, 661 N 0.9930244429327221 0 na N 1.0 0 na
CNTRL_sequences_filtered_longestORFs_mafft_prank CNTRL CNTRL 2478.0 12 0.288172821262 0.301 N 0.9992 18 241, 274, 306, 416, 1064, 1329, 1335, 1439, 1441, 1907, 1991, 2000, 2055, 2067, 2081, 2146, 2426, 2429 N 0.9999975140121001 0 na N 0.3576515461196588 0 na N 0.2996919995138132 0 na Y 0.036406789391123975 0
COL6A1_sequences_filtered_longestORFs_mafft_prank COL6A1 Aln is not awesome because at least one sequence is weird. It comes up in the PS, so this will need to be checked COL6A1: hipArm has two fragments that are just weird (wrong exons?) I cut those two parts and save the aln as is COL6A1 1144.0 9 0.093800220599 0.079 Y 0.0003 24 227, 387, 412, 504, 632, 708, 772, 800, 802, 840, 961, 968, 977, 982, 986, 1022, 1024, 1033, 1051, 1075, 1083, 1086, 1088, 1126 N 0.999999273364929 0 na Y 3.1590599594956534e-07 8 108, 227, 364, 409, 418, 421, 504, 1052 N 0.14241641681877953 0 na Y 0.019177836800726614 1 504
COLGALT1_sequences_filtered_longestORFs_D118gp2_prank COLGALT1_118-2 COLGALT1 1047.0 11 0.050042692102 0.048 N 0.2522 3 185, 433, 577 N 0.9999992417409121 0 na Y 0.009699158343525069 1 433 N 1.0 0 na Y 0.0348047989794767 1 433
COMT_sequences_filtered_longestORFs_mafft_prank COMT COMT 278.0 10 0.262458910316 0.204 N 0.2706 12 17, 19, 30, 38, 56, 80, 84, 101, 105, 157, 177, 254 N 0.348130857960201 0 na Y 0.009534298992273106 6 38, 39, 41, 44, 230, 260 N 0.05807616153052819 0 na Y 0.0002404496129336441 0
COQ8B_sequences_filtered_longestORFs_D192gp2_prank COQ8B_192-2 Duplication detection did not make proper groups COQ8B. Select the proper paralogous group. And as is COQ8B 603.0 9 0.171285628306 0.152 N 0.6628 2 43, 96 N 0.7159731946909406 0 na N 0.051520618517473554 0 na Y 0.04285212686705577 0 Y 0.0017766956789320497 1 176
CRTC3_sequences_filtered_longestORFs_mafft_prank CRTC3 CRTC3 851.0 12 0.171790887080 0.173 N 0.6440 4 487, 516, 639, 668 N 0.9999996535689806 0 na N 0.2901238301948251 0 na N 1.0 0 na Y 0.00039092297979666685 0
CSDE1_sequences_filtered_longestORFs_mafft_prank CSDE1 CSDE1 1159.0 12 0.081507673532 0.100 N 1.0000 1 749 N 0.9999975757384445 0 na N 0.9996612418895992 0 na N 1.0 0 na N 1.0 0 na
CSNK2A2_sequences_filtered_longestORFs_D138gp1_prank CSNK2A2_138-1 CSNK2A2 477.0 12 0.004084415411 0.010 N 0.7806 1 121 N 0.9999999842543731 0 na N 0.9999996824056374 0 na N 0.326606237611907 0 na N 0.3091279531286871 0 na
CSNK2B_sequences_filtered_longestORFs_mafft_prank CSNK2B CSNK2B 215.0 12 0.008287837199 0.008 N 0.3807 1 156 N 0.9999997733666789 0 na N 0.11432013524455374 0 na N 1.0 0 na N 0.5299354883175731 0 na
CUL2_sequences_filtered_longestORFs_mafft_prank CUL2 CUL2 938.0 12 0.141297909367 0.141 Y 0.0000 5 20, 312, 593, 596, 731 N 0.7603218916019506 0 na N 0.2598620587061319 0 na N 0.18159070464507368 0 na Y 0.0365161737537258 0
CWC27_sequences_filtered_longestORFs_mafft_prank CWC27 CWC27 683.0 12 0.209726861041 0.168 Y 0.0000 5 6, 198, 202, 462, 505 N 0.895550115475682 0 na N 0.11908864171121111 0 na N 1.0 0 na N 0.4033300780669753 0 na
CYB5B_sequences_filtered_longestORFs_mafft_prank CYB5B Two seq have nothing to do here CYB5B. 2 seq out. As is CYB5B 542.0 12 0.279354682257 0.312 Y 0.0000 4 74, 264, 266, 267 N 0.8644478235206613 0 na N 0.40984524352655316 0 na N 0.12568204671982677 0 na Y 0.03043993138797997 0
CYB5R3_sequences_filtered_longestORFs_D144gp1_prank CYB5R3_144-1 Dupl well detected, impossible to know which one is which CYB5BR3 415.0 9 0.054123157555 0.062 N 0.7597 3 211, 277, 377 N 0.9999999920273694 0 na Y 0.04377588086421398 1 75 N 1.0 0 na N 0.3787041445438206 0 na
DCAF7_sequences_filtered_longestORFs_mafft_prank DCAF7 DCAF7 342.0 12 0.001000000000 0.000 N 1.0000 0 na N 0.9999999999990905 0 na N 0.9999336115303021 0 na N 0.997004495503217 0 na N 0.9980019986673803 0 na
DCAKD_sequences_filtered_longestORFs_mafft_prank DCAKD DCAKD 231.0 12 0.028667437882 0.033 N 0.9911 4 18, 43, 184, 220 N 0.9968479269499217 0 na N 0.991360020023065 0 na N 1.0 0 na N 0.9990004998333987 0 na
DCTPP1_sequences_filtered_longestORFs_mafft_prank DCTPP1 DCTPP1 223.0 11 0.339909966211 0.352 N 0.1650 2 29, 203 N 0.6382508675013827 0 na N 0.1151718582244259 0 na N 0.15381572253341838 0 na N 0.07043957703401349 0 na
DDX10_sequences_filtered_longestORFs_mafft_prank DDX10 Some interesting things in this gene DDX10 1096.0 12 0.210209519346 0.203 N 0.3441 7 62, 352, 553, 646, 739, 935, 964 N 0.762189614507708 0 na Y 0.001957649235397384 28 15, 20, 149, 532, 577, 579, 582, 585, 602, 615, 620, 624, 626, 627, 629, 630, 631, 639, 659, 705, 809, 885, 932, 943, 948, 949, 955, 964 N 0.4970821374703773 0 na Y 0.0289264175304699 0
DDX21_sequences_filtered_longestORFs_D160gp1_prank DDX21_160-1 Yes duplication, but gp1 has mix of DDX21 and DDX50, Lucie's has hand curated aln DDX21. Select proper paralgous. As is DDX21 1105.0 12 0.222732829511 0.199 Y 0.0055 18 54, 90, 99, 133, 194, 241, 253, 276, 299, 300, 302, 323, 759, 804, 848, 907, 1063, 1105 N 0.9999999718002077 0 na N 0.2294553921577494 0 na N 1.0 0 na Y 0.012179513013131022 0
DNAJC11_sequences_filtered_longestORFs_mafft_prank DNAJC11 DNAJC11 706.0 12 0.022970831251 0.023 Y 0.0133 2 180, 448 N 0.9999999999499778 0 na N 0.9999999992951416 0 na N 1.0 0 na N 0.9970044955027636 0 na
DNAJC19_sequences_filtered_longestORFs_D130gp2_prank DNAJC19_130-2 Yes duplication, but groups are not awesome after. No signs of PS though DNAJC19 117.0 9 0.464997686211 0.317 N 0.7685 0 na N 0.9999884198150295 0 na N 0.9954032035149585 0 na N 0.9203511472201523 0 na N 0.5660912469951922 0 na
DNMT1_sequences_filtered_longestORFs_mafft_prank DNMT1 Yes duplication, 2 seq wrongly assigned to the other group DNMT1 2112.0 12 0.128285103645 0.124 Y 0.0399 10 20, 24, 285, 287, 428, 487, 603, 638, 661, 799 N 0.9999997325594807 0 na N 0.0986664862875594 0 na N 0.5401005246443784 0 na N 0.1867470969880856 0 na
DPH5_sequences_filtered_longestORFs_mafft_prank DPH5 DPH5 419.0 12 0.091982892381 0.103 N 1.0000 0 na N 0.9999997475070223 0 na N 0.9999931551872187 0 na N 1.0 0 na N 1.0 0 na
DPY19L1_sequences_filtered_longestORFs_D108gp2_prank DPY19L1_108-2 DPY19L1 995.0 10 0.047489877056 0.050 N 0.9233 3 167, 368, 839 N 0.9999996015831923 0 na N 0.1499397686224669 0 na N 1.0 0 na N 0.18956941793172655 0 na
ECSIT_sequences_filtered_longestORFs_mafft_prank ECSIT ECSIT 888.0 12 0.233749083581 0.212 N 0.5860 5 290, 357, 506, 518, 883 N 0.9999998547664396 0 na N 0.999969610648547 0 na N 1.0 0 na N 0.9417645335847283 0 na
EDEM3_sequences_filtered_longestORFs_mafft_prank EDEM3 Very conserved overall, except Cter, ok with profile of PS EDEM3 1209.0 12 0.111257347006 0.104 Y 0.0245 0 na Y 0.02585262744376434 1 1036 Y 1.206627269231966e-17 25 3, 13, 547, 1036, 1039, 1049, 1067, 1068, 1069, 1070, 1085, 1086, 1087, 1089, 1095, 1096, 1103, 1111, 1112, 1122, 1128, 1130, 1142, 1153, 1162 Y 0.025578579910267275 0 Y 5.726449189570869e-07 4 1036, 1068, 1086, 1111
EIF4E2_sequences_filtered_longestORFs_mafft_prank EIF4E2 Yes correct to keep full aln and not the groups EIF4E2 932.0 12 0.044097660017 0.050 N 0.0821 2 45, 122 N 0.9999999618357841 0 na N 0.20034306135987306 0 na N 0.08118701162226868 0 na Y 0.01960442446912993 0
EIF4H_sequences_filtered_longestORFs_mafft_prank EIF4H EIF4H 448.0 12 0.089860319627 0.101 N 1.0000 1 4 N 0.9948734298686034 0 na N 0.06094369359894792 0 na N 0.3828928859750981 0 na N 0.26263238507076825 0 na
ELOB_sequences_filtered_longestORFs_mafft_prank ELOB 3 seq are very weird and should be out ELOB. 3 seq out. As is ELOB 269.0 10 0.016514333976 0.021 Y 0.0016 3 41, 218, 236 N 0.9999981610175012 0 na N 0.9964223727567327 0 na N 1.0 0 na N 0.8130196499874838 0 na
ELOC_sequences_filtered_longestORFs_mafft_prank ELOC ELOC 152.0 12 0.123879980065 0.126 Y 0.0000 1 40 N 0.11567652604194509 0 na Y 0.002648634954356647 1 40 N 0.13574189870456868 0 na N 0.05686927876009488 0 na
EMC1_sequences_filtered_longestORFs_mafft_prank EMC1 EMC1 1244.0 12 0.086985697800 0.078 Y 0.0003 0 na N 0.9999999852489055 0 na Y 0.015439278403327431 1 379 N 1.0 0 na N 1.0 0 na
ERC1_sequences_filtered_longestORFs_mafft_prank ERC1 ERC1 1375.0 12 0.027094668976 0.034 Y 0.0000 16 15, 116, 179, 210, 252, 272, 276, 303, 733, 770, 791, 936, 1048, 1294, 1310, 1343 N 0.9999997881796159 0 na N 0.10268514270834504 0 na N 1.0 0 na N 1.0 0 na
ERGIC1_sequences_filtered_longestORFs_mafft_prank ERGIC1 ERGIC1 1465.0 12 0.022575771558 0.023 Y 0.0009 0 na N 0.9999999999167812 0 na Y 0.00011792618765757527 4 311, 555, 557, 593 Y 0.0003889732433008302 1 42 Y 4.010538272964363e-05 1 42
ERLEC1_sequences_filtered_longestORFs_mafft_prank ERLEC1 ERLEC1 667.0 12 0.082385943670 0.072 N 1.0000 0 na N 0.9999995963563284 0 na N 0.44653121358043824 0 na N 1.0 0 na N 0.8179124315538415 0 na
ERMP1_sequences_filtered_longestORFs_mafft_prank ERMP1 ERMP1 1194.0 12 0.149068402197 0.170 N 0.1256 4 540, 835, 1061, 1171 N 0.9999962720800251 0 na Y 0.01098965332408625 3 192, 540, 835 Y 1.528971094116435e-54 0 N 0.640183772061703 0 na
ERO1B_sequences_filtered_longestORFs_mafft_prank ERO1B Correct for the PS. Mix of other paralogs though in aln ERO1B. Select proper paralogous. 2 very short seq out. As is ERO1B 858.0 12 0.036857629938 0.041 N 1.0000 0 na N 0.9999998972716693 0 na N 0.9998842122441035 0 na N 1.0 0 na N 0.9900498337498524 0 na
ERP44_sequences_filtered_longestORFs_mafft_prank ERP44 ERP44 406.0 12 0.125984511307 0.117 N 0.3705 1 375 N 0.9765941371983475 0 na Y 0.029236998391373198 2 151, 349 N 0.8244819741389342 0 na N 0.2065939513149769 0 na
ETFA_sequences_filtered_longestORFs_mafft_prank ETFA No recomb, but some seq should be out ETFA. 1 seq out. As is ETFA 464.0 10 0.125141545775 0.119 Y 0.0211 3 96, 150, 282 N 0.9999999369324561 0 na N 0.06913864962892115 0 na N 1.0 0 na N 0.9940179640540763 0 na
EXOSC2_sequences_filtered_longestORFs_mafft_prank EXOSC2 EXOSC2 385.0 12 0.025921840818 0.026 N 0.3959 0 na N 0.9999998283474417 0 na N 0.37938250291261894 0 na N 1.0 0 na N 0.32013900080090807 0 na
EXOSC3_sequences_filtered_longestORFs_mafft_prank EXOSC3 out EXOSC3 595.0 12 0.227318217329 0.253 Y 0.0001 5 236, 237, 359, 516, 586 N 0.9999975995671482 0 na N 0.9999954704296937 0 na N 1.0 0 na N 1.0 0 na
EXOSC5_sequences_filtered_longestORFs_mafft_prank EXOSC5 EXOSC5 262.0 12 0.160152245278 0.126 N 1.0000 1 262 N 0.9999987936937942 0 na N 0.11318162974892028 0 na N 1.0 0 na N 0.43823499246502895 0 na
EXOSC8_sequences_filtered_longestORFs_mafft_prank EXOSC8 EXOSC8 423.0 12 0.082600654877 0.097 N 0.1557 0 na N 0.9309740292184903 0 na N 0.6234791303960312 0 na N 1.0 0 na N 0.9910403787728692 0 na
F2RL1_sequences_filtered_longestORFs_mafft_prank F2RL1 F2RL1 658.0 12 0.263764597190 0.275 N 0.9952 2 291, 585 N 0.9996548647569119 0 na N 0.3131339900240242 0 na N 0.30635828375793595 0 na Y 0.03815875724067897 0
FAM162A_sequences_filtered_longestORFs_mafft_prank FAM162A FAM162A 165.0 12 0.314688153010 0.297 N 1.0000 1 110 N 0.9999961526695074 0 na N 0.9997915583517777 0 na N 0.8564151774836369 0 na N 1.0 0 na
FAM8A1_sequences_filtered_longestORFs_mafft_prank FAM8A1 FAM8A1 415.0 7 0.300775892864 0.310 Y 0.0000 4 81, 167, 370, 372 N 0.5340650845200143 0 na N 0.3150290637888533 0 na N 0.3246524673583498 0 na N 0.17325340282141558 0 na
FAM98A_sequences_filtered_longestORFs_mafft_prank FAM98A FAM98A 578.0 12 0.098310121572 0.097 N 1.0000 2 257, 483 N 0.9999995394556359 0 na N 0.07255626993746797 0 na N 1.0 0 na N 0.9733612415242943 0 na
FAR2_sequences_filtered_longestORFs_mafft_prank FAR2 FAR2 647.0 12 0.286288870471 0.294 N 0.1165 13 77, 86, 220, 253, 382, 404, 414, 448, 473, 476, 480, 491, 492 N 0.9999983422953944 0 na Y 0.024591036714567804 0 N 1.0 0 na Y 0.015452260123908388 0
FASTKD5_sequences_filtered_longestORFs_mafft_prank FASTKD5 FASTKD5 817.0 12 0.374982035489 0.367 N 0.9776 10 138, 308, 366, 515, 520, 594, 600, 652, 698, 722 N 0.9999991593125638 0 na N 0.8774701783296314 0 na N 0.9139311852710953 0 na N 0.5241381418084765 0 na
FBLN5_sequences_filtered_longestORFs_mafft_prank FBLN5 FBLN5 483.0 12 0.042568879668 0.060 N 0.4450 6 17, 20, 24, 28, 337, 452 N 0.9999996906595267 0 na Y 0.00010356540885555263 4 52, 77, 337, 343 N 1.0 0 na N 0.07207846223875822 0 na
FBN1_sequences_filtered_longestORFs_mafft_prank FBN1 FBN1 3278.0 12 0.054493632386 0.053 Y 0.0001 13 260, 264, 591, 601, 945, 1111, 1273, 2468, 2472, 2474, 2531, 2639, 2970 N 0.9999994289357158 0 na Y 2.7685531965957994e-30 46 5, 40, 264, 483, 534, 547, 579, 585, 591, 594, 601, 605, 609, 610, 702, 821, 944, 945, 956, 1000, 1010, 1075, 1086, 1111, 1116, 1158, 1185, 1306, 1314, 2073, 2176, 2358, 2472, 2493, 2503, 2531, 2547, 2639, 2663, 2709, 2739, 2964, 2975, 2978, 2989, 2992 N 1.0 0 na N 0.5236142656478218 0 na
FBN2_sequences_filtered_longestORFs_mafft_prank FBN2 FBN2 3160.0 12 0.023665389839 0.023 N 0.0771 0 na N 0.9999997339728351 0 na Y 0.0014312589561602672 1 557 N 1.0 0 na Y 0.00012666053537745443 0
FBXL12_sequences_filtered_longestORFs_mafft_prank FBXL12 FBXL12 448.0 11 0.180408268769 0.178 N 0.9491 2 126, 217 N 0.9999997133555054 0 na N 0.9999958146114571 0 na N 1.0 0 na N 1.0 0 na
FKBP10_sequences_filtered_longestORFs_mafft_prank FKBP10 FKBP10 762.0 12 0.072710369966 0.065 N 1.0000 2 292, 534 N 0.999999733494441 0 na Y 1.7077542347156384e-05 4 13, 404, 633, 654 N 1.0 0 na N 0.07368176001775298 0 na
FKBP15_sequences_filtered_longestORFs_mafft_prank FKBP15 FKBP15 1713.0 11 0.405532667972 0.414 N 0.7179 18 529, 685, 729, 739, 831, 910, 1016, 1261, 1270, 1277, 1299, 1345, 1397, 1401, 1425, 1460, 1484, 1710 N 0.9925079224056861 0 na N 0.7717260901757526 0 na N 0.8428215734729201 0 na N 0.3555817849784105 0 na
FKBP7_sequences_filtered_longestORFs_mafft_prank FKBP7 FKBP7 240.0 12 0.180121006561 0.171 N 1.0000 1 46 N 0.9999996374315945 0 na N 0.6213643144580647 0 na N 0.6077449349025996 0 na N 0.2265023406764399 0 na
FOXRED2_sequences_filtered_longestORFs_mafft_prank FOXRED2 FOXRED2 755.0 12 0.134359965249 0.121 N 0.8980 3 87, 120, 740 N 0.9999998008388701 0 na Y 0.001575189368270399 2 84, 700 N 0.2822392961406876 0 na Y 0.0009046160123937779 1 700
FYCO1_sequences_filtered_longestORFs_mafft_prank FYCO1 FYCO1 1559.0 12 0.200940115292 0.178 N 1.0000 12 426, 548, 555, 617, 739, 838, 1100, 1119, 1143, 1288, 1337, 1491 N 0.999999143834796 0 na Y 0.0015300410923087886 2 654, 658 N 1.0 0 na Y 0.0014840209753573341 0
G3BP1_sequences_filtered_longestORFs_mafft_prank G3BP1 G3BP1 627.0 12 0.069912136916 0.076 N 0.0511 1 228 N 0.9999993102139902 0 na Y 0.0024806339846634813 3 228, 279, 295 N 1.0 0 na N 0.3649481464542307 0 na
G3BP2_sequences_filtered_longestORFs_mafft_prank G3BP2 G3BP2 764.0 12 0.034798575288 0.037 N 0.0772 1 297 N 0.9999995021181678 0 na Y 0.0012394486334593303 6 102, 297, 321, 322, 361, 362 N 1.0 0 na N 0.1439916452768443 0 na
GCC1_sequences_filtered_longestORFs_mafft_prank GCC1 GCC1 777.0 12 0.131322794958 0.116 N 1.0000 5 122, 295, 452, 560, 773 N 0.9999986720449392 0 na Y 0.004154874385133235 3 115, 635, 773 N 1.0 0 na N 0.1115815014935742 0 na
GCC2_sequences_filtered_longestORFs_mafft_prank GCC2 GCC2 1964.0 12 0.348634040936 0.353 N 1.0000 10 4, 168, 359, 572, 754, 835, 844, 1088, 1648, 1771 N 0.9999955911541166 0 na N 0.9928567907992257 0 na N 0.7467685359751176 0 na N 0.05825065161934166 0 na
GDF15_sequences_filtered_longestORFs_mafft_prank GDF15 GDF15 497.0 10 0.319838196439 0.315 Y 0.0174 0 na N 0.9999993294002226 0 na N 0.20622425783304632 0 na N 0.12938018997736164 0 na Y 0.002459001268223089 0
GFER_sequences_filtered_longestORFs_mafft_prank GFER GFER 399.0 12 0.226737253726 0.174 N 0.0642 9 25, 43, 51, 81, 96, 98, 100, 183, 235 N 0.999999819256589 0 na N 0.9999843940257892 0 na N 1.0 0 na N 0.38558253897972294 0 na
GGCX_sequences_filtered_longestORFs_mafft_prank GGCX GGCX 789.0 12 0.188048507476 0.197 N 0.3047 7 3, 6, 44, 73, 369, 559, 602 N 0.9999999635792853 0 na Y 0.0015589109782107025 2 3, 6 N 1.0 0 na N 0.09008514502924835 0 na
GGH_sequences_filtered_longestORFs_mafft_prank GGH GGH 368.0 12 0.591154988946 0.537 Y 0.0004 17 39, 43, 59, 64, 77, 137, 190, 199, 208, 212, 214, 233, 235, 237, 251, 304, 360 Y 1.5180867978519774e-05 2 181, 306 Y 1.792342416742801e-07 6 39, 60, 181, 306, 343, 360 Y 1.6129997609789524e-07 3 39, 181, 306 Y 5.747015887185025e-08 7 39, 60, 142, 181, 306, 343, 360
GHITM_sequences_filtered_longestORFs_mafft_prank GHITM GHITM 388.0 12 0.167849730148 0.173 N 0.9976 2 75, 82 N 0.9999967320267126 0 na N 0.7529621985552206 0 na N 1.0 0 na N 0.8113952356431783 0 na
GIGYF2_sequences_filtered_longestORFs_mafft_prank GIGYF2 GIGYF2 1775.0 12 0.101148943720 0.095 Y 0.0007 8 376, 460, 492, 751, 847, 1554, 1571, 1579 N 0.9999998979728896 0 na N 0.2678306633449832 0 na N 1.0 0 na N 1.0 0 na
GLA_sequences_filtered_longestORFs_mafft_prank GLA GLA 484.0 12 0.348782356590 0.332 N 0.1253 10 31, 48, 188, 197, 245, 300, 307, 309, 439, 446 N 0.15476483315065273 0 na Y 0.0009800253365856771 7 32, 48, 56, 200, 300, 446, 474 N 0.13642230780341247 0 na N 0.06148266584972039 0 na
GNB1_sequences_filtered_longestORFs_duplication_remainingsequences_prank GNB1_rem Yes for duplication, only lost 3 seq from 2 species in another group GNB1. Readd 2 seq that were lost in another group of dupl. As is GNB1 340.0 10 0.003038843207 0.003 N 1.0000 0 na N 0.9999999939736881 0 na N 0.9999991007775357 0 na N 0.997004495503217 0 na N 0.9980019986673803 0 na
GNG5_sequences_filtered_longestORFs_mafft_prank GNG5 Recombination triggered by two shorter seq with diff Nter GNG5 113.0 12 0.326582203040 0.361 N 0.0987 3 54, 56, 97 N 0.9999964835763402 0 na N 0.9990756526614606 0 na N 1.0 0 na N 0.9588697805725648 0 na
GOLGA2_sequences_filtered_longestORFs_mafft_prank GOLGA2 GOLGA2 1260.0 12 0.283638729032 0.247 Y 0.0006 28 77, 79, 125, 126, 139, 144, 148, 149, 211, 217, 224, 322, 330, 335, 364, 479, 519, 530, 534, 819, 835, 852, 960, 1027, 1153, 1185, 1198, 1206 N 0.999999815638165 0 na N 0.16516295628386798 0 na N 0.7565399032147061 0 na Y 0.00012577700758464264 0
GOLGA3_sequences_filtered_longestORFs_mafft_prank GOLGA3 GOLGA3 1770.0 12 0.198279547667 0.161 N 1.0000 18 26, 55, 58, 85, 140, 199, 341, 684, 777, 816, 823, 847, 986, 1232, 1245, 1335, 1636, 1673 N 0.999999400046543 0 na N 0.5381094011389551 0 na N 1.0 0 na N 0.09965909171569372 0 na
GOLGA7_sequences_filtered_longestORFs_D146gp2_prank GOLGA7_146-2 Yes for duplication, but groups are not greatly assigned. Very interesting and perfect balancing selection. Each species has F and I at position 123 GOLGA7. Readd seq that were lost in dupl groups. As is GOLGA7 149.0 10 0.276518009025 0.258 N 1.0000 0 na Y 1.2317600598841758e-06 1 123 Y 6.394648628268408e-08 1 123 Y 1.9524708068805767e-07 1 123 Y 1.1030682896016363e-07 1 123
GOLGB1_sequences_filtered_longestORFs_mafft_prank GOLGB1 GOLGB1 3379.0 12 0.358672957821 0.382 N 0.6564 0 na N 0.9999982494643379 0 na N 0.9977185838627639 0 na Y 0.012765615648940824 0 Y 0.00020903685120196526 1 1864
GORASP1_sequences_filtered_longestORFs_mafft_prank GORASP1 GORASP1 812.0 11 0.313024592727 0.279 N 0.8267 5 196, 462, 553, 599, 615 N 0.7718451596308276 0 na N 0.28935504135190926 0 na N 0.29258501645347795 0 na N 0.07715028546888042 0 na
GPAA1_sequences_filtered_longestORFs_mafft_prank GPAA1 GPAA1 725.0 11 0.079230590578 0.076 N 0.8016 2 389, 642 N 0.9999999804449546 0 na Y 0.008941563540158914 2 384, 642 N 1.0 0 na Y 0.00018632837199053192 2 384, 642
GPX1_sequences_filtered_longestORFs_D150gp2_prank GPX1_150-2 Yes duplication, not perfect groups but ok GPX1 258.0 8 0.167942454881 0.134 N 1.0000 0 na N 0.9999995266942944 0 na N 0.9999786426592591 0 na N 1.0 0 na N 1.0 0 na
GRIPAP1_sequences_filtered_longestORFs_mafft_prank GRIPAP1 yes PS GRIPAP1 1409.0 12 0.146610466542 0.131 N 0.8681 6 299, 305, 396, 397, 744, 902 N 0.9712566374068777 0 na Y 0.00014917901856823743 6 73, 288, 297, 299, 305, 520 Y 0.04411303332245541 0 Y 0.0009509966671486873 5 288, 297, 299, 305, 520
GRPEL1_sequences_filtered_longestORFs_mafft_prank GRPEL1 yes PS GRPEL1 387.0 12 0.153021798728 0.141 Y 0.0000 2 334, 380 N 0.9999989885773742 0 na Y 0.02362956206208953 2 334, 380 N 0.2059750982048984 0 na Y 0.011631946006600644 1 380
GTF2F2_sequences_filtered_longestORFs_mafft_prank GTF2F2 GTF2F2 368.0 12 0.052374130123 0.046 N 1.0000 0 na N 0.9999989068598161 0 na N 0.9954021165346404 0 na N 0.9990004998331715 0 na N 0.9990004998336257 0 na
HDAC2_sequences_filtered_longestORFs_D132gp2_prank HDAC2_132-2 Yes for duplication, only lost 2 species in another group HDAC2 545.0 10 0.065456573033 0.056 N 0.9160 2 134, 351 N 0.9999973836886631 0 na N 0.2806779038483537 0 na N 1.0 0 na N 0.9464851479532084 0 na
HEATR3_sequences_filtered_longestORFs_mafft_prank HEATR3 surprised not under PS, but aln is good HEATR3 842.0 12 0.158810119780 0.175 Y 0.0000 6 21, 128, 224, 689, 691, 781 N 0.9999991490643861 0 na N 0.3385670045597787 0 na N 1.0 0 na N 0.5168513344917745 0 na
HECTD1_sequences_filtered_longestORFs_mafft_prank HECTD1 HECTD1 2748.0 11 0.018804604118 0.017 N 1.0000 2 1642, 1647 N 0.14299421412322735 0 na Y 4.6782268893524087e-07 1 1647 N 0.3266062376117585 0 na Y 0.00015118595329833632 1 1647
HMOX1_sequences_filtered_longestORFs_mafft_prank HMOX1 HMOX1 314.0 12 0.169891781425 0.147 Y 0.0019 5 100, 197, 229, 240, 268 N 0.9999980288149674 0 na N 0.6946305916846283 0 na N 1.0 0 na N 0.8402968976584497 0 na
HOOK1_sequences_filtered_longestORFs_mafft_prank HOOK1 HOOK1 884.0 12 0.092760665115 0.086 N 0.0686 1 471 N 0.9999989485682889 0 na N 0.10257076456806259 0 na N 1.0 0 na N 0.42912801555982616 0 na
HS2ST1_sequences_filtered_longestORFs_mafft_prank HS2ST1 HS2ST1 460.0 12 0.031896401046 0.030 Y 0.0201 1 92 N 0.9999989824287415 0 na Y 0.04683669540407693 1 154 N 0.8504412045400103 0 na N 0.5786832586839825 0 na
HS6ST2_sequences_filtered_longestORFs_mafft_prank HS6ST2 ok, One seq is gene 3 HS6ST2 815.0 9 0.122994671159 0.120 N 1.0000 3 280, 434, 474 N 0.9999994672208741 0 na N 0.8009033507567138 0 na N 1.0 0 na N 0.14926978092209653 0 na
HSBP1_sequences_filtered_longestORFs_mafft_prank HSBP1 ok, no PS, aln affected by a seq that has nothing to do here HSBP1. Took out one seq. HSBP1 495.0 12 0.143113165531 0.148 N 1.0000 0 na N 0.9999997273122662 0 na N 0.9999920901830326 0 na N 1.0 0 na N 0.9990004998331715 0 na
HYOU1_sequences_filtered_longestORFs_mafft_prank HYOU1 HYOU1 1034.0 12 0.186537649602 0.170 N 1.0000 4 683, 971, 993, 1024 N 0.9999995483232053 0 na Y 0.0329969447075339 1 993 N 1.0 0 na Y 0.031054858792339112 0
IDE_sequences_filtered_longestORFs_mafft_prank IDE "Recombination: Not surprising given the aln. And it makes sense. PRANK aln from DGINN very different from the one with Muscle that is super conservative. Mostly due to splicing variants with some very cool domains that change within a species. This is what brings the recombination marks.
Lots of splicing variants within and between species: at Nter and middle too.
- PS: PS per se does not look much present.
But Genetic Innovation by splicing variants YES.
" IDE 1637.0 12 0.095078927531 0.098 Y 0.0000 6 158, 206, 996, 1000, 1002, 1583 Y 1.1435776810227844e-27 1 1000 Y 2.952064946346253e-41 3 996, 1000, 1002 Y 8.372002990590578e-34 3 996, 1000, 1002 na na 0 na
IDE_sequences_filtered_longestORFs_mafft_prank_frag0to2343 IDE[0-2343] IDE[0-2343] 781.0 12 0.107544646690 0.098 N 1.0000 0 na N 0.9999976929984095 0 na N 0.13026738400942509 0 na N 0.08681290441412229 0 na N 0.76337949433652 0 na
IDE_sequences_filtered_longestORFs_mafft_prank_frag2342to3240 IDE[2342-3240] IDE[2342-3240] 299.0 12 0.009507244401 0.676 N 0.9256 0 na N 0.9999996551129327 0 na N 0.9999999235783179 0 na N 0.32497728220613026 0 na N 0.3246524673583498 0 na
IDE_sequences_filtered_longestORFs_mafft_prank_frag3239to4911 IDE[3239-4911] IDE[3239-4911] 557.0 12 0.037340186694 0.038 N 0.9980 0 na N 0.9999996445067786 0 na N 0.7042574716702156 0 na N 1.0 0 na N 0.9990004998336257 0 na
IL17RA_sequences_filtered_longestORFs_mafft_prank IL17RA IL17RA 1140.0 12 0.387082487423 0.291 Y 0.0017 21 112, 225, 227, 229, 280, 298, 324, 329, 343, 447, 470, 574, 852, 878, 905, 915, 917, 927, 935, 946, 1024 N 0.9999996775405244 0 na N 0.6967350668837281 0 na N 1.0 0 na N 0.0725122330231234 0 na
IMPDH2_sequences_filtered_longestORFs_mafft_prank_part2_prank IMPDH2_part2 Yes duplication, perfect separation of groups IMPDH2 538.0 12 0.026754574269 0.025 Y 0.0000 2 356, 360 Y 0.0006852185108705853 1 360 Y 5.378308196075921e-16 7 183, 192, 240, 270, 284, 292, 360 Y 6.114608498512458e-08 1 360 N nan 0 na
INHBE_sequences_filtered_longestORFs_mafft_prank INHBE INHBE 369.0 12 0.390243108621 0.369 Y 0.0017 6 5, 72, 101, 204, 222, 224 Y 0.022636878720498972 1 222 Y 0.028198594818389013 1 222 Y 0.0018941217582224507 1 222 Y 0.0014721961698403688 1 222
INTS4_sequences_filtered_longestORFs_mafft_prank INTS4 Recomb because two short seq detected (not true recom). But no PS appears. INTS4. One seq out INTS4 1069.0 11 0.076437101342 0.079 N 0.9809 2 218, 774 N 0.9999972029020693 0 na Y 0.0041343046914296445 4 25, 564, 1041, 1042 N 1.0 0 na N 0.6004955788121349 0 na
ITGB1_sequences_filtered_longestORFs_mafft_prank ITGB1 Highly conserved gene. PS triggered by one site that is G/Q toggling furing bat evolution over both ancient and recent times as it seems polymorphic now too. ITGB1 880.0 12 0.062427808503 0.057 Y 0.0000 3 576, 716, 783 Y 7.350255927039871e-10 1 783 na na 0 na Y 2.825276423737631e-13 1 783 Y 1.5699807337461194e-36 1 783
JAKMIP1_sequences_filtered_longestORFs_mafft_prank JAKMIP1 JAKMIP1 1144.0 9 0.056908187727 0.055 Y 0.0000 11 704, 908, 910, 925, 926, 928, 953, 974, 991, 1014, 1100 N 0.9999998754210615 0 na Y 0.02067784386692642 2 640, 1012 N 1.0 0 na N 0.9130177108989469 0 na
LARP1_sequences_filtered_longestORFs_mafft_prank LARP1 LARP1 1482.0 12 0.100719600329 0.091 N 0.4329 0 na N 0.9999980706798364 0 na Y 1.1845531058214244e-05 8 474, 638, 642, 727, 729, 736, 1449, 1450 N 1.0 0 na N 0.804125441667414 0 na
LARP4B_sequences_filtered_longestORFs_mafft_prank LARP4B LARP4B 2439.0 12 0.218732299035 0.214 N 0.9753 4 382, 1330, 1967, 2425 N 0.999998634645658 0 na N 0.9999977869790131 0 na N 1.0 0 na N 1.0 0 na
LARP7_sequences_filtered_longestORFs_mafft_prank LARP7 LARP7 680.0 11 0.171027104028 0.155 N 0.3683 7 143, 285, 294, 485, 487, 488, 566 N 0.9999998387802537 0 na N 0.6801137687220536 0 na N 1.0 0 na N 0.2621076452154077 0 na
LMAN2_sequences_filtered_longestORFs_D100gp1_prank LMAN2_100-1 Duplication YES. Group ok. PS triggered by a single site. Rest conserved LMAN2 400.0 11 0.047004307549 0.044 N 0.0542 2 9, 144 Y 0.036766070641131875 1 144 Y 7.544550390677595e-05 1 144 Y 0.00912260390270626 1 144 Y 0.00012390443189913585 1 144
LOX_sequences_filtered_longestORFs_mafft_prank LOX LOX 487.0 12 0.114354273651 0.097 N 0.4111 4 80, 136, 160, 371 N 0.9999992464989301 0 na Y 0.0020561936709213246 5 27, 86, 108, 115, 136 N 1.0 0 na N 0.39534360742614594 0 na
MAP7D1_sequences_filtered_longestORFs_mafft_prank MAP7D1 MAP7D1 1468.0 12 0.198984283374 0.197 N 0.9293 5 363, 724, 911, 1278, 1347 N 0.9999996340230369 0 na N 0.9999999762640076 0 na N 1.0 0 na N 0.8302735949806761 0 na
MARK1_sequences_filtered_longestORFs_mafft_prank_part2_prank MARK1_part2 Duplication YES. Group ok. MARK1 1171.0 12 0.052460524012 0.051 N 0.2210 2 787, 1071 N 0.9999997083260012 0 na Y 0.028467597972819232 1 293 N 1.0 0 na N 0.7795799733848592 0 na
MARK2_sequences_filtered_longestORFs_mafft_prank_part1_prank MARK2_part1 Duplication YES. Group ok. 106 seq total so many within sp (indels / splices). Does not look PS positive. MARK2 1481.0 12 0.023250118338 0.025 Y 0.0000 13 105, 115, 367, 558, 566, 574, 577, 674, 689, 1320, 1370, 1418, 1437 N 0.9999997391569535 0 na Y 0.0010837373321862945 3 105, 574, 1320 Y 3.195299245325374e-08 0 na na 0 na
MARK3_sequences_filtered_longestORFs_mafft_prank_part1_prank MARK3_part1 Duplication YES. Group ok. MARK3 1275.0 12 0.052301784234 0.047 Y 0.0163 2 443, 672 N 0.9999998830280743 0 na Y 0.0003415665249197995 5 639, 646, 649, 954, 1171 N 1.0 0 na N 0.9990004998331715 0 na
MAT2B_sequences_filtered_longestORFs_mafft_prank MAT2B MAT2B 577.0 12 0.069577506008 0.083 N 1.0000 0 na N 0.9999995800122605 0 na N 0.46121680811375965 0 na N 1.0 0 na N 1.0 0 na
MDN1_sequences_filtered_longestORFs_mafft_prank MDN1 MDN1 5692.0 12 0.215443695281 0.219 N 0.0659 41 2, 75, 465, 530, 1027, 1285, 1396, 1410, 1942, 2053, 2155, 2246, 2449, 2623, 2743, 2745, 2866, 2867, 2946, 2957, 2992, 3071, 3166, 3197, 3338, 3458, 3476, 3519, 3757, 3833, 4058, 4564, 4894, 4999, 5018, 5072, 5093, 5200, 5241, 5266, 5333 N 0.9999999534120445 0 na Y 1.1414171459035473e-05 7 2943, 3032, 3070, 3071, 3197, 3476, 4042 N 1.0 0 na Y 0.020181276709079873 0
MEPCE_sequences_filtered_longestORFs_mafft_prank MEPCE MEPCE 726.0 12 0.219093876368 0.204 N 0.9352 2 87, 456 N 0.2688036084056731 0 na Y 0.04508406397524983 1 105 N 0.1435603176558531 0 na Y 0.02266349043863414 0
MFGE8_sequences_filtered_longestORFs_mafft_prank MFGE8 MFGE8 646.0 11 0.330234703292 0.207 Y 0.0112 9 130, 138, 154, 189, 204, 211, 529, 619, 621 N 0.9999972678525444 0 na Y 0.013757050385994894 1 339 N 1.0 0 na Y 0.0013508787126702152 1 339
MIB1_sequences_filtered_longestORFs_mafft_prank MIB1 Highly conserved gene. MIB1 1141.0 12 0.010708089720 0.010 N 1.0000 0 na N 0.3131853669743744 0 na Y 3.9565815165420535e-06 2 1015, 1045 N 1.0 0 na Y 0.00020407969064175605 0
MIPOL1_sequences_filtered_longestORFs_mafft_prank MIPOL1 MIPOL1 749.0 12 0.468056639244 0.460 Y 0.0008 6 93, 99, 436, 610, 611, 664 N 0.36946219962943133 0 na N 0.16022450488042922 0 na Y 0.00033815709241324894 1 677 Y 0.00011077604581825765 2 668, 677
MOGS_sequences_filtered_longestORFs_mafft_prank MOGS MOGS 846.0 12 0.226899466104 0.236 N 0.3783 8 13, 210, 426, 535, 639, 712, 751, 794 N 0.9999999935716914 0 na N 0.39973598777987807 0 na N 0.9464851479540692 0 na N 0.4950977802807309 0 na
MOV10_sequences_filtered_longestORFs_mafft_prank MOV10 No idea why it is not picked up. Clearly under PS MOV10. Cut partly one seq that has not good cds fragment MOV10 1358.0 12 0.217396621756 0.198 Y 0.0005 15 7, 34, 41, 145, 293, 449, 632, 662, 704, 760, 842, 846, 1331, 1332, 1333 N 0.9999998319472211 0 na N 0.055595070235242044 0 na N 1.0 0 na Y 0.04234097439328205 0
MPHOSPH10_sequences_filtered_longestORFs_mafft_prank MPHOSPH10 Also looks under PS from my eyes! MPHOSPH10 797.0 11 0.219365486705 0.214 Y 0.0000 19 4, 58, 69, 92, 117, 128, 156, 161, 177, 305, 329, 346, 348, 358, 359, 383, 635, 659, 671 N 0.9999997545747038 0 na N 0.5769195293685707 0 na N 1.0 0 na N 0.16202575093392788 0 na
MRPS2_sequences_filtered_longestORFs_mafft_prank MRPS2 MRPS2 721.0 12 0.082667692251 0.091 N 0.0504 9 319, 328, 340, 341, 349, 554, 582, 594, 700 N 0.9999999342931026 0 na N 0.08515687462553476 0 na N 1.0 0 na N 0.7649077811028417 0 na
MRPS25_sequences_filtered_longestORFs_mafft_prank MRPS25 MRPS25 230.0 10 0.154765506724 0.135 Y 0.0102 1 60 N 0.29016377677605226 0 na N 0.0547567968301941 0 na N 0.8436648165963223 0 na N 0.34438329921892946 0 na
MRPS27_sequences_filtered_longestORFs_mafft_prank MRPS27 MRPS27 443.0 11 0.256108512123 0.261 Y 0.0000 6 10, 49, 74, 413, 425, 436 N 0.9999995383751568 0 na N 0.9273291898408674 0 na N 1.0 0 na N 1.0 0 na
MRPS5_sequences_filtered_longestORFs_mafft_prank MRPS5 MRPS5 821.0 11 0.223685298522 0.209 N 0.9599 3 362, 609, 795 N 0.9999982520286537 0 na Y 0.023335640922836146 2 647, 795 N 0.43127902868882784 0 na Y 0.03449296116373417 0
MTARC1_sequences_filtered_longestORFs_D78gp2_prank MTARC1_78-2 Duplication ok. One seq is rubbish MTARC1. 1 seq out MARC1 394.0 9 0.179814797921 0.188 N 0.0673 9 7, 30, 41, 91, 179, 232, 239, 272, 373 N 0.9999996827528369 0 na N 0.9999956236734115 0 na N 1.0 0 na N 1.0 0 na
MTCH1_sequences_filtered_longestORFs_mafft_prank MTCH1 MTCH1 581.0 12 0.025674791478 0.033 Y 0.0002 2 63, 157 N 0.99999996765655 0 na N 0.5322534343704919 0 na N 1.0 0 na N 0.9990004998336257 0 na
MYCBP2_sequences_filtered_longestORFs_D280gp2_prank MYCBP2_280-2 Duplication ok. No real PS MYCBP2 5479.0 10 0.035837925402 0.031 Y 0.0000 7 734, 735, 736, 3321, 3777, 4000, 4588 N 0.9980245232149526 0 na Y 7.416232479052216e-06 3 1709, 2296, 3321 N 0.9970044955063907 0 na N 0.7505117288341411 0 na
NARS2_sequences_filtered_longestORFs_mafft_prank NARS2 NARS2 541.0 12 0.245685946598 0.250 N 1.0000 4 10, 45, 210, 486 N 0.3264457921530277 0 na Y 0.021080669666269154 2 212, 317 N 0.19378615920637357 0 na N 0.052971565997802054 0 na
NAT14_sequences_filtered_longestORFs_mafft_prank NAT14 NAT14 277.0 10 0.093943119706 0.101 N 1.0000 0 na N 0.9999993868888911 0 na N 0.1984537133922413 0 na N 0.9940179640540763 0 na N 0.13002871087843063 0 na
NDFIP2_sequences_filtered_longestORFs_mafft_prank NDFIP2 Of interest to Andrea? Looks quite variable NDFIP2 392.0 12 0.306558540650 0.282 N 0.9512 3 3, 6, 86 N 0.2918213098589899 0 na N 0.11952480216458904 0 na N 0.7527666447064592 0 na N 0.4542988670758048 0 na
NDUFAF1_sequences_filtered_longestORFs_mafft_prank NDUFAF1 NDUFAF1 340.0 12 0.313655866051 0.283 N 0.2280 6 25, 38, 59, 118, 180, 234 N 0.9999979631704998 0 na N 0.980061480187931 0 na N 1.0 0 na N 1.0 0 na
NDUFAF2_sequences_filtered_longestORFs_mafft_prank NDUFAF2 NDUFAF2 255.0 12 0.480516895624 0.440 N 1.0000 2 143, 189 N 0.7654496880176566 0 na N 0.6815024673967645 0 na N 0.33420523455571843 0 na N 0.09594309727222568 0 na
NDUFB9_sequences_filtered_longestORFs_mafft_prank NDUFB9 NDUFB9 179.0 13 0.127899789326 0.123 N 0.4610 2 147, 179 N 0.9999998990183536 0 na N 0.08365571153288943 0 na N 0.967538559589127 0 na N 0.5015760690660281 0 na
NEK9_sequences_filtered_longestORFs_mafft_prank NEK9 NEK9 1304.0 12 0.105241457601 0.107 Y 0.0000 2 1229, 1301 N 0.9289259680065098 0 na Y 0.0004107944994979139 5 198, 454, 763, 1210, 1229 N 0.87197022613315 0 na N 0.42485812046202354 0 na
NEU1_sequences_filtered_longestORFs_mafft_prank NEU1 NEU1 656.0 12 0.153652799692 0.140 Y 0.0000 3 134, 163, 173 N 0.9999992702499119 0 na Y 0.008246702419223753 2 135, 299 N 1.0 0 na N 0.0704395770339975 0 na
NGDN_sequences_filtered_longestORFs_mafft_prank NGDN NGDN 540.0 12 0.205667666328 0.206 N 0.8850 2 65, 74 N 0.9999970287943627 0 na N 0.9990045122531841 0 na N 1.0 0 na N 1.0 0 na
NGLY1_sequences_filtered_longestORFs_mafft_prank NGLY1 NGLY1 881.0 11 0.301206874793 0.271 Y 0.0203 10 271, 293, 296, 352, 360, 441, 467, 731, 770, 801 N 0.9999972767764821 0 na N 0.21002568368470978 0 na N 0.9342604735770164 0 na N 0.5792622313806218 0 na
NIN_sequences_filtered_longestORFs_mafft_prank NIN na explained from aln. 83 seq total for only 12 sp NIN 4996.0 12 0.261282750429 0.277 Y 0.0000 17 799, 1201, 2720, 2848, 3016, 3075, 3253, 3304, 3433, 3600, 3670, 3674, 3711, 3736, 4477, 4809, 4927 N 0.9999998423954946 0 na N 0.9997736992394146 0 na na na 0 na na na 0 na
NINL_sequences_filtered_longestORFs_mafft_prank NINL NINL 1320.0 9 0.291186931610 0.330 N 0.9073 9 66, 178, 186, 398, 475, 557, 679, 750, 896 N 0.9999973543625383 0 na N 0.9984432776236783 0 na N 1.0 0 na N 0.8286147072325962 0 na
NLRX1_sequences_filtered_longestORFs_mafft_prank NLRX1 NLRX1 1159.0 12 0.174592688656 0.141 Y 0.0000 10 187, 222, 224, 375, 430, 860, 946, 978, 1142, 1147 N 0.9999986254943348 0 na N 0.738781808329577 0 na N 1.0 0 na N 0.9665715046378442 0 na
NOL10_sequences_filtered_longestORFs_mafft_prank NOL10 NOL10 729.0 12 0.063202933312 0.060 N 0.2658 3 154, 215, 703 N 0.999999928002583 0 na Y 4.5613424449856195e-06 5 215, 495, 559, 703, 723 N 1.0 0 na N 0.36240242983237164 0 na
NPC2_sequences_filtered_longestORFs_mafft_prank NPC2 NPC2 165.0 12 0.315560158487 0.305 N 0.5947 2 24, 127 N 0.9999973983449045 0 na N 0.9965413927524406 0 na N 1.0 0 na N 1.0 0 na
NPTX1_sequences_filtered_longestORFs_mafft_prank NPTX1 Mix of 2 genes. Was not automatically separated because less than 8 sp on one side. (which makes sense from bat seq). NPTX1 1097.0 10 0.023105165192 0.040 N 1.0000 3 828, 836, 1039 N 0.999999886609664 0 na N 0.4011492862110374 0 na N 1.0 0 na Y 2.8919339494199573e-05 1 237
NSD2_sequences_filtered_longestORFs_mafft_prank NSD2 NSD2 1967.0 11 0.148197094993 0.115 N 1.0000 0 na N 0.9999995612362053 0 na Y 0.029190967734365886 0 N 1.0 0 na Y 0.03699398304371079 1 603
NUP210_sequences_filtered_longestORFs_mafft_prank NUP210 NUP210 2228.0 12 0.177550614839 0.172 N 0.4556 0 na N 0.9999997886771094 0 na Y 8.160634990754697e-05 3 658, 2019, 2113 N 1.0 0 na Y 4.6409796015133775e-05 0
NUP214_sequences_filtered_longestORFs_mafft_prank NUP214 Interesting One NUP214 2724.0 12 0.210062800297 0.217 Y 0.0000 25 390, 481, 516, 521, 750, 942, 972, 997, 1022, 1366, 1490, 1531, 1546, 1647, 1663, 1690, 1712, 1731, 1739, 1740, 1749, 1764, 1873, 2079, 2398 N 0.999970409340112 0 na N 0.1098127018402205 0 na Y 8.395727754465127e-32 0 Y 7.202171687694045e-28 0
NUP54_sequences_filtered_longestORFs_mafft_prank NUP54 NUP54 916.0 12 0.108833344666 0.099 N 1.0000 0 na N 0.9999996841821074 0 na N 0.941432132856242 0 na N 1.0 0 na N 0.912105149544586 0 na
NUP58_sequences_filtered_longestORFs_mafft_prank NUP58 NUP58 895.0 12 0.132254962191 0.137 Y 0.0000 4 119, 300, 493, 494 N 0.6561255751539898 0 na N 0.0912602799029464 0 na N 0.7053931302698415 0 na N 0.16316391010000333 0 na
NUP62_sequences_filtered_longestORFs_mafft_prank NUP62 Recent duplications in the Myo. Quite variable for PS NUP62 580.0 12 0.235365629051 0.174 Y 0.0000 10 48, 115, 120, 218, 265, 397, 398, 430, 530, 554 N 0.9999989763287668 0 na N 0.9999982760524598 0 na N 1.0 0 na N 0.7921535735248961 0 na
NUP88_sequences_filtered_longestORFs_mafft_prank NUP88 NUP88 900.0 12 0.144093639598 0.145 N 0.9989 2 45, 421 N 0.9999997299401366 0 na N 0.06441114316564217 0 na N 1.0 0 na N 0.15755195533034877 0 na
NUP98_sequences_filtered_longestORFs_mafft_prank NUP98 NUP98 1981.0 12 0.140604995886 0.138 N 0.8774 4 362, 861, 1046, 1619 N 0.999997564956411 0 na N 0.09109567087173494 0 na N 1.0 0 na N 0.8833798408829309 0 na
NUTF2_sequences_filtered_longestORFs_mafft_prank NUTF2 NUTF2 127.0 12 0.098253734861 0.086 N 0.3257 0 na N 0.9999954361577017 0 na N 0.997820688169417 0 na N 1.0 0 na N 1.0 0 na
OS9_sequences_filtered_longestORFs_mafft_prank OS9 OS9 727.0 12 0.221563948134 0.211 N 0.2167 4 198, 333, 340, 465 N 0.9999988034940425 0 na N 0.18063582562350763 0 na N 1.0 0 na N 0.18544443195606533 0 na
PABPC1_sequences_filtered_longestORFs_D194gp1_prank PABPC1_194-1 Duplication yes. But group includes 4 in mix. No PS. Ok PAPBC1. 4 out from other pralogue PABPC1 790.0 12 0.328001632099 0.330 N 0.9013 18 62, 65, 155, 269, 292, 301, 386, 446, 476, 486, 505, 544, 665, 696, 700, 741, 747, 759 N 0.9999979938722504 0 na N 0.999958803717195 0 na N 1.0 0 na N 1.0 0 na
PABPC4_sequences_filtered_longestORFs_duplication_remainingsequences_prank PABPC4_rem Duplication yes. Group ok. PABPC4 1601.0 12 0.063778768571 0.068 Y 0.0362 2 20, 363 N 0.9999988545411919 0 na N 0.9296422664654556 0 na N 0.9990004998349886 0 na N 1.0 0 na
PCNT_sequences_filtered_longestORFs_mafft_prank PCNT PCNT 3992.0 12 0.405046328649 0.376 Y 0.0151 12 80, 82, 158, 381, 417, 1478, 1660, 1961, 2385, 2758, 2853, 3877 N 0.999999364496236 0 na N 0.10267715781616366 0 na N 1.0 0 na Y 8.293819160781511e-06 0
PCSK6_sequences_filtered_longestORFs_mafft_prank PCSK6 Group mix. Gene name: warning. No PS PCSK6. Correct ortho retained. PCSK5 2988.0 12 0.071524736578 0.089 Y 0.0000 10 506, 697, 889, 896, 940, 972, 977, 1830, 1831, 2483 N 0.9999998047424206 0 na N 0.9750946580856525 0 na N 1.0 0 na N 0.14015588661579498 0 na
PDE4DIP_sequences_filtered_longestORFs_mafft_prank PDE4DIP PS ++? Allows identification of a gene (only LOC in there). Many variants per species which may affect analyses. Lots of PS in my view. I remade the aln PDE5DIP. Select seq. Check future needed PDE4DIP 3932.0 11 0.249230175028 0.250 Y 0.0000 29 223, 573, 596, 656, 1075, 1287, 1875, 1937, 2246, 2287, 2406, 2409, 2547, 2591, 2741, 2772, 2777, 2845, 2872, 2886, 2924, 3067, 3179, 3183, 3236, 3245, 3307, 3322, 3371 N 0.9999998695639164 0 na N 0.8246064109422081 0 na N 1.0 0 na N 0.09442022319624739 0 na
PDZD11_sequences_filtered_longestORFs_mafft_prank PDZD11 PDZD11 194.0 12 0.049745910610 0.049 N 0.0543 1 188 N 0.9999997555486587 0 na N 0.9999754442623039 0 na N 1.0 0 na N 1.0 0 na
PIGO_sequences_filtered_longestORFs_mafft_prank PIGO PIGO 1196.0 12 0.219447199292 0.242 N 0.9565 8 156, 368, 557, 564, 572, 751, 1046, 1078 N 0.9999965921255213 0 na N 0.999991909166045 0 na N 1.0 0 na N 0.8228346580562579 0 na
PIGS_sequences_filtered_longestORFs_mafft_prank PIGS PIGS 630.0 12 0.161492159517 0.148 N 0.9830 6 16, 144, 196, 206, 362, 552 N 0.9999977841650427 0 na N 0.999601889878112 0 na N 1.0 0 na N 0.9841273200556575 0 na
PITRM1_sequences_filtered_longestORFs_mafft_prank PITRM1 PITRM1 1084.0 10 0.163972160325 0.146 N 1.0000 12 41, 346, 361, 549, 554, 627, 649, 709, 821, 831, 887, 1012 N 0.9999999867613952 0 na N 0.1819655863451437 0 na Y 1.5117468506889957e-09 0 N 0.16332715561929245 0 na
PKP2_sequences_filtered_longestORFs_mafft_prank PKP2 Only very few sequences PKP2 894.0 7 0.167343436613 0.154 N 1.0000 5 58, 61, 65, 320, 340 N 0.9999997007180802 0 na N 0.9999999889741958 0 na N 1.0 0 na N 1.0 0 na
PLAT_sequences_filtered_longestORFs_mafft_prank PLAT PLAT 598.0 12 0.406866539433 0.374 Y 0.0254 23 6, 32, 120, 150, 184, 195, 204, 219, 220, 234, 250, 253, 277, 317, 342, 396, 418, 428, 497, 510, 538, 559, 594 N 0.9999978119564111 0 na N 0.1520578715323859 0 na N 1.0 0 na N 0.628763554467135 0 na
PLD3_sequences_filtered_longestORFs_mafft_prank PLD3 PLD3 547.0 12 0.087847326366 0.074 N 1.0000 3 44, 127, 161 N 0.9999997026416609 0 na N 0.0606732522644502 0 na N 1.0 0 na N 0.08689976073955778 0 na
PLEKHA5_sequences_filtered_longestORFs_mafft_prank PLEKHA5 PLEKHA5 2947.0 11 0.147404980383 0.132 N 1.0000 9 433, 461, 2453, 2757, 2761, 2784, 2828, 2837, 2873 N 0.9999997266277579 0 na N 0.12842097333294247 0 na N 1.0 0 na N 0.45384479528361066 0 na
PLEKHF2_sequences_filtered_longestORFs_mafft_prank PLEKHF2 PLEKHF2 249.0 12 0.048943152846 0.037 N 1.0000 0 na N 0.22983455572188574 0 na Y 0.006996295069881674 1 218 N 0.20331475164727103 0 na Y 0.020506774172182902 1 218
PLOD2_sequences_filtered_longestORFs_mafft_prank PLOD2 PLOD2 836.0 10 0.095937946781 0.082 N 0.0718 5 64, 79, 80, 84, 673 N 0.9999986137900636 0 na Y 0.0006372406189584631 6 54, 64, 69, 80, 308, 365 N 1.0 0 na N 0.15366198369305042 0 na
PMPCA_sequences_filtered_longestORFs_mafft_prank PMPCA PMPCA 885.0 10 0.072861463768 0.085 N 0.8983 6 153, 154, 503, 521, 662, 776 N 0.9999991202916366 0 na N 0.4562990412926383 0 na N 1.0 0 na N 1.0 0 na
PMPCB_sequences_filtered_longestORFs_mafft_prank PMPCB Looks like there is indeed some PS. But some of the MEME and BioppM7M8 signal in the middle/Cter portion is weird PMPCB 496.0 12 0.154664421420 0.126 Y 0.0000 19 24, 25, 29, 42, 43, 168, 211, 264, 289, 300, 343, 346, 376, 382, 439, 448, 457, 461, 496 N 0.9999994096448896 0 na Y 0.0001485699424057094 28 3, 4, 9, 10, 12, 15, 17, 18, 21, 23, 24, 26, 29, 37, 38, 51, 264, 265, 269, 273, 300, 346, 376, 382, 388, 457, 486, 496 N 1.0 0 na N 0.6859160738960525 0 na
POFUT1_sequences_filtered_longestORFs_mafft_prank POFUT1 POFUT1 670.0 12 0.150592576223 0.136 N 0.2747 1 580 N 0.999999332628472 0 na Y 0.044397322861119 2 462, 465 N 0.911193500295451 0 na Y 0.03043993138796614 0
POGLUT2_sequences_filtered_longestORFs_mafft_prank POGLUT2 Yes two annotations for the same gene KDELC1 580.0 12 0.138485204386 0.134 Y 0.0082 2 63, 508 N 0.9999973182870723 0 na N 0.9909607594669252 0 na N 1.0 0 na N 1.0 0 na
POGLUT3_sequences_filtered_longestORFs_mafft_prank POGLUT3 KDELC2 874.0 12 0.148704946994 0.168 N 0.9757 4 85, 515, 633, 636 N 0.9999981306108758 0 na N 0.11188339523965174 0 na N 1.0 0 na N 0.8607079764245881 0 na
POLA1_sequences_filtered_longestORFs_mafft_prank POLA1 yes PS POLA1 1573.0 12 0.275408633142 0.261 N 0.0588 20 174, 208, 224, 247, 294, 321, 360, 362, 540, 620, 743, 891, 1164, 1330, 1374, 1494, 1532, 1535, 1538, 1573 Y 0.00029491151462736847 2 294, 341 Y 4.708850802002232e-09 4 294, 341, 1133, 1330 Y 2.5055557293228085e-06 0 Y 7.047554970330143e-08 5 294, 341, 360, 1133, 1573
POLA2_sequences_filtered_longestORFs_mafft_prank POLA2 POLA2 858.0 12 0.203525948892 0.214 Y 0.0008 6 108, 114, 131, 150, 162, 164 N 0.9999999185247395 0 na N 0.9806751585650236 0 na N 1.0 0 na N 0.15350839851485368 0 na
POR_sequences_filtered_longestORFs_mafft_prank POR POR 921.0 11 0.086809958980 0.083 N 0.7166 4 217, 367, 377, 774 N 0.9999998038529349 0 na Y 0.013382069942123242 2 249, 305 N 1.0 0 na Y 0.017474720242549 1 249
PPIL3_sequences_filtered_longestORFs_mafft_prank PPIL3 PPIL3 235.0 12 0.108093140816 0.110 N 1.0000 0 na N 0.9999978561116012 0 na N 0.9579717769964547 0 na N 1.0 0 na N 0.8940442575002858 0 na
PPT1_sequences_filtered_longestORFs_mafft_prank PPT1 PPT1 382.0 12 0.303232389071 0.308 Y 0.0013 4 69, 90, 129, 170 N 0.9999996432607713 0 na N 0.4664126912175116 0 na N 1.0 0 na N 0.9851119396031881 0 na
PRIM1_sequences_filtered_longestORFs_mafft_prank PRIM1 yes PS PRIM1 467.0 12 0.229678204850 0.221 N 0.1124 2 302, 327 Y 0.0032052637220846263 1 323 Y 3.0435982275610693e-08 9 3, 299, 302, 323, 326, 327, 335, 337, 338 N 0.9427067691573432 0 na Y 0.00028844676858805923 4 3, 302, 323, 337
PRIM2_sequences_filtered_longestORFs_mafft_prank PRIM2 PRIM2 620.0 11 0.270987796562 0.247 N 0.0887 13 83, 88, 97, 111, 145, 146, 148, 171, 228, 259, 294, 379, 526 N 0.5062462656940934 0 na N 0.07151864304986696 0 na N 0.2961171872901758 0 na N 0.052812889433677984 0 na
PRKACA_sequences_filtered_longestORFs_mafft_prank_part2_prank PRKACA_part2 PRKACA 435.0 12 0.032086701525 0.027 Y 0.0000 1 64 N 0.9999995230988361 0 na N 0.24706495671427373 0 na N 1.0 0 na N 0.9990004998336257 0 na
PRKAR2A_sequences_filtered_longestORFs_duplication_remainingsequences_prank PRKAR2A_rem yes duplication ok PRKAR2A 428.0 12 0.191067386740 0.186 N 0.8393 5 68, 259, 305, 424, 427 N 0.718417650460873 0 na na na 0 na N 0.39971639333816755 0 na Y 0.01412230241016088 0
PRKAR2B_sequences_filtered_longestORFs_duplication_remainingsequences_prank PRKAR2B_rem PRKAR2B 445.0 12 0.051934715957 0.057 Y 0.0023 1 432 N 0.9999980988359194 0 na N 0.11799096386319853 0 na N 1.0 0 na N 1.0 0 na
PRRC2B_sequences_filtered_longestORFs_mafft_prank PRRC2B PRRC2B 2626.0 9 0.173459583148 0.158 Y 0.0145 0 na N 0.9999989880530511 0 na N 0.0791555736912109 0 na N 1.0 0 na N 0.20638746062598415 0 na
PSMD8_sequences_filtered_longestORFs_mafft_prank PSMD8 PSMD8 366.0 12 0.111408772558 0.081 Y 0.0000 5 25, 43, 58, 64, 130 N 0.9616347107394698 0 na Y 5.771337692709617e-05 39 3, 6, 8, 9, 10, 23, 24, 25, 26, 28, 29, 35, 36, 37, 38, 43, 50, 55, 56, 57, 58, 60, 65, 66, 68, 77, 80, 82, 83, 84, 88, 92, 93, 96, 98, 117, 130, 131, 190 N 0.2687429318443122 0 na N 0.8807336725971986 0 na
PTBP2_sequences_filtered_longestORFs_mafft_prank_part1_prank PTBP2_part1 Yes TB PTBP2 702.0 12 0.006126637877 0.007 N 1.0000 0 na N 0.9999999988476702 0 na N 0.07994692970857444 0 na N 0.7482635675785925 0 na N 0.7475156780179659 0 na
PTGES2_sequences_filtered_longestORFs_mafft_prank PTGES2 "Recombination: Triggered by Nter variation before the M start. Between and within species. The Frag1 aln has no sense to be made because there is no common history within that aln in bats (and it is expected to crash in the PS because no common site with PRANK here).
- PS: Yes frag2 should be under PS. Aln is afftected by lots and lots of structural variants within species. I made a handcurated one with only one ID per species and we can keep that in mind if needed for later analyses.
" PTGES2 690.0 12 0.055491753823 0.091 Y 0.0000 1 70 N 0.9999999546357695 0 na Y 0.004400481161938919 3 114, 202, 411 N 1.0 0 na N 1.0 0 na
PTGES2_sequences_filtered_longestORFs_mafft_prank_frag0to513 PTGES2[0-513] PTGES2[0-513] 171.0 12 0.007322973305 na N 0.9104 0 na na na 0 na na na 0 na na na 0 na na na 0 na
PTGES2_sequences_filtered_longestORFs_mafft_prank_frag512to2070 PTGES2[512-2070] PTGES2[512-2070] 519.0 12 0.058843866113 0.065 N 1.0000 0 na N 0.9999996668335016 0 na Y 0.04241071351595013 2 31, 240 N 1.0 0 na N 0.7131952878984691 0 na
PUSL1_sequences_filtered_longestORFs_mafft_prank PUSL1 Most of the signal comes from the Cter that has lots and lots of variability and does not allow for a good aln. PUSL1 733.0 11 0.159830842553 0.171 Y 0.0015 7 127, 462, 495, 496, 515, 585, 588 N 0.9999986238163193 0 na N 0.9694927663741583 0 na Y 0.00012316323113359992 0 Y 6.000996057124083e-05 0
PVR_sequences_filtered_longestORFs_mafft_prank PVR PVR 1556.0 9 0.386585296754 0.326 Y 0.0000 33 96, 105, 203, 204, 232, 236, 246, 248, 304, 305, 346, 350, 357, 386, 423, 430, 434, 439, 447, 449, 705, 715, 716, 717, 956, 978, 992, 993, 1006, 1222, 1323, 1361, 1367 N 0.9999995019953861 0 na N 0.3687676595580579 0 na N 1.0 0 na Y 0.024649467035636845 0
QSOX2_sequences_filtered_longestORFs_mafft_prank QSOX2 QSOX2 1759.0 10 0.174916503505 0.185 Y 0.0000 46 203, 206, 213, 246, 302, 548, 256, 307, 671, 299, 475, 484, 488, 494, 552, 563, 710, 639, 665, 666, 711, 797, 801, 802, 818, 820, 892, 1040, 1041, 1053, 1055, 1059, 1060, 1068, 1089, 1095, 1131, 1136, 1446, 1490, 1507, 1534, 1543, 1557, 1569, 1693 N 0.9999987586905691 0 na N 0.46478328146480163 0 na N 1.0 0 na N 0.5694980045294837 0 na
RAB10_sequences_filtered_longestORFs_D230gp2_prank RAB10_230-2 RAB10 252.0 12 0.223251295327 0.241 N 0.7640 0 na N 0.9999995267941113 0 na N 0.9992598280309021 0 na N 1.0 0 na N 1.0 0 na
RAB14_sequences_filtered_longestORFs_mafft_prank RAB14 RAB14 215.0 12 0.001000000000 0.000 N 1.0000 0 na N 0.999999999998181 0 na N 0.9994603195966442 0 na N 0.9990004998333987 0 na N 0.9990004998333987 0 na
RAB18_sequences_filtered_longestORFs_mafft_prank RAB18 PS triggered by isoforms (or dupl -would need check) RAB18 438.0 12 0.080104837126 0.155 Y 0.0000 1 437 Y 0.018516087317630797 1 334 Y 4.0106557145248056e-07 2 191, 334 Y 0.00013302147188878514 1 334 Y 0.00011335342106918821 2 191, 334
RAB1A_sequences_filtered_longestORFs_mafft_prank RAB1A RAB1A 248.0 12 0.008701779692 0.013 N 1.0000 0 na N 0.9999991876894572 0 na N 0.9965697068625546 0 na N 1.0 0 na N 1.0 0 na
RAB2A_sequences_filtered_longestORFs_D110gp1_prank RAB2A_110-1 RAB2A 244.0 12 0.010122299972 0.009 N 1.0000 0 na N 0.9999999970061708 0 na N 0.9999900238903716 0 na N 1.0 0 na N 1.0 0 na
RAB5C_sequences_filtered_longestORFs_D182gp1_prank RAB5C_182-1 RAB5C 259.0 12 0.044332860160 0.047 N 0.7699 1 142 N 0.9999998383773476 0 na N 0.93761480231155 0 na N 0.2317722663433577 0 na N 0.838617983337132 0 na
RAB7A_sequences_filtered_longestORFs_mafft_prank RAB7A RAB7A 331.0 12 0.006214970371 0.016 N 1.0000 0 na N 0.9999985599914817 0 na N 0.9996263598542194 0 na N 0.9990004998336257 0 na N 0.9990004998331715 0 na
RAB8A_sequences_filtered_longestORFs_D247gp2_prank RAB8A_247-2 RAB8A 390.0 12 0.053497369772 0.049 Y 0.0129 2 200, 346 N 0.9999988784667871 0 na N 0.9991451123344435 0 na N 0.9990004998331715 0 na N 0.9990004998336257 0 na
RAE1_sequences_filtered_longestORFs_mafft_prank RAE1 RAE1 476.0 12 0.011550421850 0.012 N 0.5495 0 na N 0.9999999992505764 0 na Y 0.009703953190307929 1 84 N 1.0 0 na N 0.9990004998331715 0 na
RALA_sequences_filtered_longestORFs_D112gp1_prank RALA_112-1 yes dupl TB RALA 206.0 12 0.003695573472 0.004 N 0.7222 0 na N 0.9999999962080892 0 na N 0.9999994631977265 0 na N 1.0 0 na N 0.9990004998333987 0 na
RAP1GDS1_sequences_filtered_longestORFs_mafft_prank RAP1GDS1 NO PS. Only triggered by M/A at codon 2. RAP1GDS1 790.0 12 0.127207844325 0.115 Y 0.0000 0 na Y 5.872399224899566e-29 1 2 Y 2.611186477612738e-36 1 2 Y 1.5055192914142404e-31 1 2 Y 5.2137953716818936e-33 2 2, 461
RBM28_sequences_filtered_longestORFs_mafft_prank RBM28 yes. Good aln by Prank. RBM28 1044.0 12 0.273591811038 0.249 N 0.0582 6 102, 266, 338, 367, 720, 901 N 0.999998611995633 0 na N 0.09829807686258053 0 na Y 0.03597251875340349 1 720 Y 0.006207481629437576 1 720
RBM41_sequences_filtered_longestORFs_mafft_prank RBM41 RBM41 673.0 12 0.223739767189 0.227 N 0.7329 2 602, 608 N 0.9999970189945865 0 na N 0.9997120617250892 0 na N 0.9990004998331715 0 na N 1.0 0 na
RBX1_sequences_filtered_longestORFs_mafft_prank RBX1 RBX1 148.0 12 0.262676108294 0.243 N 0.2864 4 17, 59, 66, 129 N 0.9999998085004519 0 na N 0.9997255824184248 0 na N 1.0 0 na N 1.0 0 na
RDX_sequences_filtered_longestORFs_D156gp2_prank RDX_156-2 Yes dupl, but desRot phyDis minNat are put aside. Cter isoforms RDX. Selected the ortho RDX 780.0 8 0.072940972041 0.065 N 1.0000 0 na N 0.9999969415172405 0 na N 0.2579631451412845 0 na N 1.0 0 na N 1.0 0 na
REEP5_sequences_filtered_longestORFs_duplication_remainingsequences_prank REEP5_rem REEP5 284.0 7 0.309153558643 0.255 N 0.9701 3 79, 81, 96 N 0.9999999417607358 0 na N 0.86557876645096 0 na N 0.7174873228543663 0 na N 0.3937653915324635 0 na
REEP6_sequences_filtered_longestORFs_D210gp1_prank REEP6_210-1 This is a mes. Further duplication REEP6. Made two aln. One A and one B. Correspond to two paralogues. One being more closely to REEP5 REEP6 1253.0 12 0.211580967901 0.428 Y 0.0069 13 256, 398, 835, 913, 953, 1031, 1037, 1044, 1050, 1061, 1172, 1231, 1236 N 0.9999998989028478 0 na N 0.8292887769349311 0 na N 1.0 0 na N 0.054748790601554014 0 na
RETREG3_sequences_filtered_longestORFs_mafft_prank RETREG3 allows annotation RETREG3 567.0 12 0.191546856009 0.204 N 0.8222 2 225, 478 N 0.9999998216717517 0 na N 0.29974396289270483 0 na N 1.0 0 na N 0.16880686976312853 0 na
RHOA_sequences_filtered_longestORFs_D151gp1_prank RHOA_151-1 RHOA 200.0 9 0.001000000000 0.000 N 1.0000 0 na N 0.999999999994543 0 na N 1.0 0 na N 0.9980019986673803 0 na N 0.9990004998333987 0 na
RIPK1_sequences_filtered_longestORFs_mafft_prank RIPK1 PS RIPK1 822.0 12 0.352982795589 0.331 Y 0.0075 15 16, 127, 230, 276, 281, 288, 372, 402, 482, 484, 490, 633, 638, 697, 821 N 0.5725600367528054 0 na N 0.07959362938950036 0 na N 0.13439124424530172 0 na Y 0.006402927316412248 1 818
RNF41_sequences_filtered_longestORFs_mafft_prank RNF41 RNF41 317.0 12 0.010419376844 0.010 N 1.0000 0 na N 0.9999999999888587 0 na N 0.999977440892537 0 na N 1.0 0 na N 0.9990004998333987 0 na
RPL36_sequences_filtered_longestORFs_mafft_prank RPL36 RPL36 276.0 12 0.237378633047 0.146 N 1.0000 0 na N 0.9999998049668383 0 na N 0.3601113013498369 0 na N 1.0 0 na Y 0.01942877625150621 0
RRP9_sequences_filtered_longestORFs_mafft_prank RRP9 RRP9 566.0 11 0.057771262846 0.052 N 1.0000 3 87, 457, 557 N 0.9999999895417204 0 na Y 0.006302127209825691 2 88, 523 N 1.0 0 na Y 0.007335717892413876 0
RTN4_sequences_filtered_longestORFs_mafft_prank RTN4 RTN4 2805.0 12 0.125832250975 0.407 Y 0.0174 12 1855, 1915, 1917, 1948, 1969, 1982, 2231, 2430, 2440, 2508, 2515, 2804 N 0.9999991902524111 0 na N 0.998503285710714 0 na N 0.6281351051895494 0 na N 0.15945396804603182 0 na
SAAL1_sequences_filtered_longestORFs_mafft_prank SAAL1 SAAL1 507.0 12 0.261629641069 0.266 Y 0.0000 7 119, 156, 195, 330, 488, 499, 500 N 0.2584666678037798 0 na N 0.06451407067002299 0 na N 0.09965909171569372 0 na N 0.349238573021875 0 na
SBNO1_sequences_filtered_longestORFs_mafft_prank SBNO1 SBNO1 1580.0 12 0.026378112791 0.026 Y 0.0000 1 1212 N 0.9999998961866422 0 na Y 0.0005303875917709041 3 252, 856, 862 N 1.0 0 na N 0.9990004998331715 0 na
SCAP_sequences_filtered_longestORFs_mafft_prank SCAP SCAP 1286.0 10 0.084236433526 0.061 N 0.0636 4 687, 934, 1044, 1074 N 0.9999995101171698 0 na Y 0.0033378470176263285 1 863 N 1.0 0 na N 0.11281567351170993 0 na
SCARB1_sequences_filtered_longestORFs_mafft_prank SCARB1 PS. Splicing variants SCARB1 763.0 10 0.218091439138 0.155 Y 0.0000 19 5, 7, 132, 133, 137, 157, 176, 236, 277, 417, 476, 509, 592, 674, 688, 724, 740, 741, 763 N 0.9999998503026403 0 na N 0.4515726499701246 0 na N 1.0 0 na Y 0.0002460440433622239 1 763
SCARB1_sequences_filtered_longestORFs_mafft_prank_frag0to2004 SCARB1[0-2004] "Recombination: Mostly triggered by Cter splicing variants or something like that. So OK that GARD detects that.
- PS: Yes PS on the gene from visual inspection.
" SCARB1[0-2004] 668.0 10 0.213907939247 0.145 Y 0.0000 12 5, 7, 132, 133, 137, 157, 176, 236, 273, 277, 417, 509 N 0.9999999882084013 0 na N 0.3940874985693054 0 na N 1.0 0 na N 0.3125471316182796 0 na
SCARB1_sequences_filtered_longestORFs_mafft_prank_frag2003to2289 SCARB1[2003-2289] "Recombination: Mostly triggered by Cter splicing variants or something like that. So OK that GARD detects that.
- PS: Yes PS on the gene from visual inspection.
" SCARB1[2003-2289] 95.0 10 0.135675513373 0.337 N 0.2219 2 6, 73 N 0.9999999989745731 0 na N 0.9999819188136163 0 na N 0.9194312560951741 0 na N 0.5593387480547172 0 na
SCCPDH_sequences_filtered_longestORFs_mafft_prank SCCPDH PS ok. Splice variants SCCPDH 654.0 12 0.281129406592 0.291 N 0.1315 11 46, 70, 87, 228, 229, 231, 238, 327, 379, 594, 644 N 0.0747269312417341 0 na Y 0.005045637026761042 1 367 Y 0.047028569511397056 0 Y 0.0063709925831932045 1 367
SDF2_sequences_filtered_longestORFs_mafft_prank SDF2 Two SDF2L1 retained in the aln by error SDF2. Took out 2 seq that were recent paralogues SDF2 276.0 12 0.073692911032 0.069 N 0.1823 1 61 N 0.9999999113815686 0 na N 0.9999997798672908 0 na N 1.0 0 na N 0.9990004998331715 0 na
SELENOS_sequences_filtered_longestORFs_mafft_prank SELENOS Annotation. Aln with lots of indels SELENOS. Cleaned many sequences out. Not great at all. SELENOS 379.0 11 0.237091874739 0.249 N 1.0000 4 126, 148, 154, 353 N 0.7962529879753625 0 na N 0.4129926693138526 0 na N 1.0 0 na N 0.5455286251594202 0 na
SELENOS_sequences_filtered_longestORFs_mafft_prank_frag0to927 SELENOS[0-927] Recomb triggered by aln with lots of indels SELENOS[0-927] 309.0 11 0.213235744659 0.250 Y 0.0085 3 126, 148, 154 N 0.3022734485269354 0 na N 0.1168296305173564 0 na N 1.0 0 na N 0.24268280925769264 0 na
SELENOS_sequences_filtered_longestORFs_mafft_prank_frag926to1137 SELENOS[926-1137] SELENOS[926-1137] 70.0 11 0.233147569842 0.246 N 1.0000 0 na N 0.9999999153342323 0 na N 0.9999906640992244 0 na N 0.9694755730759651 0 na N 0.3348743138811512 0 na
SEPSECS_sequences_filtered_longestORFs_mafft_prank SEPSECS SEPSECS 642.0 12 0.207760285718 0.221 Y 0.0113 0 na N 0.4067707665111908 0 na Y 0.00326458340100601 2 577, 585 N 0.4269877306527835 0 na N 0.0707218996108505 0 na
SIGMAR1_sequences_filtered_longestORFs_mafft_prank SIGMAR1 SIGMAR1 463.0 11 0.063555782622 0.062 N 1.0000 0 na N 0.9999998523637823 0 na Y 0.03935837746698778 3 28, 43, 296 N 1.0 0 na N 0.3163202908753499 0 na
SIL1_sequences_filtered_longestORFs_mafft_prank SIL1 SIL1 670.0 12 0.168133221490 0.160 Y 0.0000 5 212, 241, 273, 568, 647 N 0.8329986992390037 0 na N 0.10828949711717219 0 na N 0.3426656803484229 0 na N 0.05535435177850455 0 na
SIRT5_sequences_filtered_longestORFs_mafft_prank SIRT5 SIRT5 845.0 12 0.237387191711 0.279 Y 0.0217 3 109, 146, 637 N 0.999997756691088 0 na N 0.9791150997954938 0 na N 1.0 0 na N 0.9990004998331715 0 na
SLC25A21_sequences_filtered_longestORFs_mafft_prank SLC25A21 SLC25A21 547.0 12 0.215093302523 0.201 N 1.0000 1 265 N 0.9999977171495311 0 na N 0.40225889818633837 0 na N 1.0 0 na N 0.9694755730760753 0 na
SLC27A2_sequences_filtered_longestORFs_mafft_prank SLC27A2 yes PS SLC27A2 727.0 12 0.385009529186 0.376 Y 0.0005 23 26, 31, 40, 53, 79, 125, 196, 217, 247, 249, 250, 262, 281, 460, 471, 476, 499, 503, 567, 600, 610, 685, 699 Y 0.00037576903711733885 1 125 Y 6.522716428873516e-07 20 31, 40, 125, 201, 236, 247, 249, 250, 251, 255, 281, 335, 372, 460, 499, 503, 538, 567, 583, 619 Y 8.231147755842365e-05 1 125 Y 5.562767025688191e-07 3 40, 125, 249
SLC30A6_sequences_filtered_longestORFs_mafft_prank SLC30A6 SLC30A6 630.0 12 0.095903435060 0.098 N 0.5871 1 137 N 0.9999993722715014 0 na N 0.9999999439819491 0 na N 1.0 0 na N 0.9990004998331715 0 na
SLC30A7_sequences_filtered_longestORFs_mafft_prank SLC30A7 SLC30A7 571.0 11 0.062338889596 0.070 N 0.9806 2 99, 316 N 0.9642172717055939 0 na Y 0.002494839297655659 1 467 N 1.0 0 na N 0.05276010294187835 0 na
SLC30A9_sequences_filtered_longestORFs_mafft_prank SLC30A9 SLC30A9 604.0 12 0.194459441780 0.172 Y 0.0462 3 73, 119, 406 N 0.39689306361734966 0 na Y 0.0002480848189910309 10 33, 55, 63, 100, 102, 125, 267, 325, 406, 439 N 0.053183876599911716 0 na Y 0.04084380996513176 1 406
SLC44A2_sequences_filtered_longestORFs_mafft_prank SLC44A2 Would consider the FL instead of recomb. PS yes SLC44A2 1264.0 12 0.114209694102 0.110 Y 0.0000 8 308, 312, 377, 579, 581, 585, 972, 982 Y 4.816663466237386e-45 3 972, 982, 984 Y 3.1935157674114988e-59 3 972, 982, 984 Y 4.758968983193939e-65 3 308, 972, 982 Y 5.018372006645229e-60 3 308, 972, 982
SLC44A2_sequences_filtered_longestORFs_mafft_prank_frag0to2820 SLC44A2[0-2820] Recomb aln SLC44A2[0-2820] 940.0 12 0.133823203630 0.107 N 0.6206 7 308, 312, 377, 579, 581, 585, 799 N 0.14406182963374692 0 na Y 7.702462206985215e-07 5 308, 377, 577, 579, 585 Y 0.008463436349092706 0 Y 0.0009312339717154412 1 308
SLC44A2_sequences_filtered_longestORFs_mafft_prank_frag2819to3792 SLC44A2[2819-3792] SLC44A2[2819-3792] 324.0 12 0.056657504384 0.063 Y 0.0377 1 32 N 0.9999999997122586 0 na Y 0.003086369162383884 4 7, 11, 32, 42 N 1.0 0 na N 0.9380049995306561 0 na
SLC9A3R1_sequences_filtered_longestORFs_mafft_prank SLC9A3R1 SLC9A3R1 374.0 12 0.130757231892 0.099 Y 0.0000 6 119, 135, 136, 181, 282, 374 N 0.9999993029603202 0 na Y 0.010308287959785774 1 282 N 1.0 0 na Y 0.004566537590817452 1 282
SLU7_sequences_filtered_longestORFs_mafft_prank SLU7 SLU7 629.0 12 0.085159487610 0.073 N 1.0000 1 136 N 0.9999985890654847 0 na Y 5.791404197879968e-07 23 45, 61, 136, 140, 144, 158, 188, 196, 201, 491, 493, 505, 511, 513, 515, 516, 521, 530, 538, 564, 587, 597, 600 N 1.0 0 na N 0.7046880897184571 0 na
SMOC1_sequences_filtered_longestORFs_mafft_prank SMOC1 SMOC1 700.0 12 0.053224388859 0.055 N 1.0000 0 na N 0.9999999988494892 0 na N 0.12892934950160578 0 na N 0.9801986733063274 0 na N 0.522045776761206 0 na
SNIP1_sequences_filtered_longestORFs_mafft_prank SNIP1 SNIP1 430.0 12 0.120126641213 0.118 N 0.6703 1 167 N 0.9999999406377373 0 na N 0.5714013295616718 0 na N 1.0 0 na N 0.489681548585542 0 na
SPART_sequences_filtered_longestORFs_mafft_prank SPART SPART 817.0 12 0.134754866524 0.134 N 0.5048 9 2, 66, 167, 363, 383, 599, 664, 728, 767 N 0.9999987601675867 0 na Y 0.0042226296605877315 4 122, 383, 728, 767 N 1.0 0 na N 0.9930244429327221 0 na
SRP19_sequences_filtered_longestORFs_mafft_prank SRP19 SRP19 382.0 11 0.304060283095 0.309 N 1.0000 4 128, 133, 235, 312 N 0.9999993469480019 0 na N 0.7188032909860891 0 na N 1.0 0 na N 0.6262535236576515 0 na
SRP54_sequences_filtered_longestORFs_mafft_prank SRP54 SRP54 514.0 12 0.001692026331 0.002 N 1.0000 0 na N 0.9999999921756171 0 na N 0.999999957015917 0 na N 0.9990004998336257 0 na N 0.9990004998331715 0 na
SRP72_sequences_filtered_longestORFs_mafft_prank SRP72 SRP72 710.0 12 0.068652587280 0.067 N 0.9841 0 na N 0.6279854210644857 0 na Y 5.701113701438703e-05 5 225, 394, 477, 569, 658 N 0.4529380127763897 0 na N 0.051560469245106696 0 na
STC2_sequences_filtered_longestORFs_mafft_prank STC2 STC2 464.0 11 0.136088221159 0.132 N 1.0000 3 383, 396, 402 N 0.9999998138109905 0 na N 0.9999950043472564 0 na N 1.0 0 na N 0.9920319148367972 0 na
STOM_sequences_filtered_longestORFs_mafft_prank STOM STOM 311.0 12 0.174826037559 0.182 N 0.1021 5 8, 15, 48, 55, 70 N 0.6102022672127836 0 na Y 7.793291706831177e-06 10 7, 8, 17, 47, 50, 62, 70, 83, 202, 311 N 0.657704195267903 0 na N 0.06959935353327155 0 na
STOML2_sequences_filtered_longestORFs_mafft_prank STOML2 STOML2 356.0 12 0.071134004860 0.074 N 0.9980 1 21 N 0.9999989277008645 0 na N 0.11249452518709809 0 na N 1.0 0 na N 1.0 0 na
SUN2_sequences_filtered_longestORFs_mafft_prank SUN2 Quite variable SUN2 950.0 12 0.130189836997 0.120 Y 0.0148 10 171, 178, 228, 296, 297, 491, 546, 569, 613, 757 N 0.9999999386345754 0 na N 0.10281740478528173 0 na N 0.6900439415580961 0 na Y 0.020241911445811743 0
TAPT1_sequences_filtered_longestORFs_mafft_prank TAPT1 TAPT1 847.0 12 0.053518355661 0.077 N 1.0000 1 101 N 0.9999999048982363 0 na Y 0.0022989368127261907 2 684, 795 N 1.0 0 na N 0.7032801219764382 0 na
TARS2_sequences_filtered_longestORFs_mafft_prank TARS2 Not clear why did not run. Aln ok. TARS2. Same. Aln re TARS2 1782.0 11 na na N 1.0000 4 166, 571, 749, 1051 na na 0 na na na 0 na na na 0 na na na 0 na
TBCA_sequences_filtered_longestORFs_mafft_prank TBCA Do not count. The Nter reported sites under PS are triggered by a single seq TBCA. Same. Aln re TBCA 190.0 12 0.131601247745 0.232 Y 0.0000 1 112 N 0.9999996847649797 0 na N 0.9854565238357061 0 na Y 6.290846566711477e-07 3 2, 3, 4 Y 3.4732670047668205e-07 3 2, 3, 4
TBK1_sequences_filtered_longestORFs_mafft_prank TBK1 ok for PS. First site only due to alternative start site (splicing) TBK1 760.0 12 0.160775310865 0.123 Y 0.0000 4 283, 289, 635, 682 Y 0.01649150184328647 1 19 Y 1.5887590517440409e-06 3 19, 283, 406 Y 0.035154593024559 0 Y 1.450771742364061e-07 3 19, 283, 406
TBKBP1_sequences_filtered_longestORFs_mafft_prank TBKBP1 TBKBP1 787.0 12 0.050225800517 0.055 N 0.9686 0 na N 0.9999998864691471 0 na N 0.9313942790654101 0 na N 1.0 0 na N 0.9970044955027636 0 na
TCF12_sequences_filtered_longestORFs_mafft_prank TCF12 TCF12 1743.0 12 0.090814965700 0.085 N 0.1396 4 1526, 1611, 1689, 1690 N 0.999997598744967 0 na N 0.08447404722561117 0 na N 1.0 0 na N 1.0 0 na
THTPA_sequences_filtered_longestORFs_mafft_prank THTPA THTPA 279.0 12 0.399843538338 0.416 N 1.0000 4 64, 66, 129, 276 N 0.9999959784148735 0 na N 0.9987236270706843 0 na N 1.0 0 na N 0.9870841350203666 0 na
TIMM10_sequences_filtered_longestORFs_mafft_prank TIMM10 TIMM10 156.0 12 0.025368776757 0.022 N 1.0000 0 na N 0.9999980569046563 0 na N 0.999396690041851 0 na Y 0.0017963472167066177 0 N 1.0 0 na
TIMM10B_sequences_filtered_longestORFs_mafft_prank TIMM10B TIMM10B 217.0 12 0.203079808533 0.260 N 1.0000 3 14, 67, 164 N 0.9999997065308865 0 na N 0.9610584460379168 0 na N 0.9493288668429777 0 na N 0.3961350858554927 0 na
TIMM29_sequences_filtered_longestORFs_mafft_prank TIMM29 TIMM29 282.0 12 0.108850147192 0.078 N 0.8387 2 62, 270 N 0.9999996952501997 0 na N 0.9999316309689258 0 na Y 0.023237219430594515 0 N 1.0 0 na
TIMM8B_sequences_filtered_longestORFs_mafft_prank TIMM8B TIMM8B 113.0 12 0.034615966404 0.039 N 1.0000 0 na N 0.9999999999095053 0 na N 0.9999998429372122 0 na N 1.0 0 na N 1.0 0 na
TIMM9_sequences_filtered_longestORFs_mafft_prank TIMM9 TIMM9 89.0 12 0.136125645835 0.107 N 1.0000 0 na N 0.9999998509868075 0 na N 0.9978432465154056 0 na N 1.0 0 na N 0.9990004998333987 0 na
TLE1_sequences_filtered_longestORFs_mafft_prank_part4_prank TLE1_part4 ok for dupl TLE1 1349.0 12 0.021379127643 0.021 Y 0.0096 0 na N 0.999999737427095 0 na N 0.10001183858193749 0 na Y 5.373667079033846e-06 0 na na 0 na
TLE3_sequences_filtered_longestORFs_D556gp2_prank TLE3_556-2 TLE3 1952.0 12 0.013531340208 0.012 N 1.0000 2 211, 1011 N 0.9999999944566298 0 na N 0.9999999965148163 0 na na na 0 na na na 0 na
TLE5_sequences_filtered_longestORFs_D98gp1_prank TLE5_98-1 TLE5 283.0 12 0.002111890609 0.002 N 1.0000 0 na N 0.9999999994261088 0 na N 0.9999997057343968 0 na N 0.9990004998333987 0 na N 0.9930244429331737 0 na
TM2D3_sequences_filtered_longestORFs_mafft_prank TM2D3 TM2D3 437.0 12 0.072524501738 0.095 N 1.0000 2 51, 168 N 0.9999999844217201 0 na N 0.4403563462071517 0 na Y 0.00020489764422076452 0 N 0.4404316545061274 0 na
TMED5_sequences_filtered_longestORFs_mafft_prank TMED5 TMED5 484.0 11 0.215128279257 0.216 Y 0.0379 3 81, 92, 149 N 0.9809204583363237 0 na Y 0.016520072309041865 16 77, 79, 81, 92, 93, 94, 98, 103, 118, 119, 149, 378, 379, 418, 430, 443 N 0.7725952321070743 0 na N 0.6107912690656443 0 na
TMEM39B_sequences_filtered_longestORFs_mafft_prank TMEM39B NO PS. Triggered by splicing only in 5ter TMEM39B. Same TMEM39B 897.0 12 0.027232067259 0.043 Y 0.0000 3 237, 368, 369 N 0.9999999961323738 0 na N 0.9997034765269571 0 na Y 1.16942310898168e-06 2 176, 236 Y 3.734749484649388e-08 2 176, 236
TMEM97_sequences_filtered_longestORFs_mafft_prank TMEM97 TMEM97 236.0 12 0.420879156212 0.471 N 0.9586 11 5, 29, 31, 42, 104, 107, 120, 157, 179, 188, 205 N 0.7340928477677238 0 na N 0.34471649535720056 0 na N 0.31254713161813774 0 na N 0.12681829056798818 0 na
TMPRSS2_sequences_filtered_longestORFs_mafft_prank TMPRSS2 Recent dupl in hipArm. Surprised no PS detected!!! Try again by taking out the recent dupl (MARVELD2) TMPRSS2. Made 2 aln. One same as before. The other one with the two recent duppl out + cut in pteVam TMPRSS2 1173.0 12 0.128331074848 0.145 N 0.9352 11 630, 644, 649, 688, 774, 887, 920, 1002, 1050, 1065, 1172 N 0.9999999999881766 0 na N 0.3918697807782936 0 na N 0.9990004998331715 0 na N 0.8138330762828142 0 na
TOMM70_sequences_filtered_longestORFs_mafft_prank TOMM70 TOMM70 723.0 11 0.029882210583 0.030 N 1.0000 0 na N 0.9999995844483192 0 na N 0.9999999321098608 0 na N 1.0 0 na N 1.0 0 na
TOR1A_sequences_filtered_longestORFs_duplication_remainingsequences_prank TOR1A_rem dupl ok TOR1A 604.0 12 0.066585977696 0.080 N 0.5671 2 121, 365 N 0.9999999594665504 0 na N 0.9355750222791034 0 na N 1.0 0 na Y 0.02670244886475937 0
TOR1AIP1_sequences_filtered_longestORFs_mafft_prank TOR1AIP1 PS yes TOR1AIP1 743.0 12 0.558329321702 0.531 Y 0.0000 0 na Y 0.0018966215330895428 1 509 Y 0.00023452293549997097 2 509, 515 Y 0.00014848895196983343 2 509, 515 Y 7.610360616693669e-06 4 317, 501, 509, 515
TRIM59_sequences_filtered_longestORFs_mafft_prank TRIM59 TRIM59 439.0 12 0.316982231988 0.274 N 0.9550 4 239, 256, 354, 380 N 0.9999949480425412 0 na N 0.05724083315647518 0 na N 1.0 0 na N 0.08492387601959336 0 na
TRMT1_sequences_filtered_longestORFs_mafft_prank TRMT1 TRMT1 704.0 12 0.212290337739 0.192 Y 0.0000 12 2, 3, 24, 37, 54, 253, 254, 289, 324, 529, 652, 686 N 0.9999996975075649 0 na N 0.526395175937924 0 na N 1.0 0 na N 0.9920319148372483 0 na
TUBGCP2_sequences_filtered_longestORFs_mafft_prank TUBGCP2 TUBGCP2 1035.0 12 0.055037331258 0.044 N 0.8328 1 954 N 0.9999999146402879 0 na N 0.9999999871270121 0 na N 1.0 0 na N 0.9910403787728692 0 na
TUBGCP3_sequences_filtered_longestORFs_mafft_prank TUBGCP3 TUBGCP3 1156.0 12 0.073030126757 0.072 N 1.0000 2 387, 430 N 0.33879849700735243 0 na Y 1.2025913118475392e-07 3 387, 464, 490 N 0.5147880584569597 0 na Y 0.018949078056685893 1 387
TYSND1_sequences_filtered_longestORFs_mafft_prank TYSND1 one seq is of low quality TYSND1. One seq out. TYSND1 727.0 9 0.221550182839 0.191 N 0.0697 5 99, 101, 126, 228, 332 Y 0.03635559896645531 1 101 Y 0.00019136926927334618 1 101 Y 5.343738303974895e-05 3 101, 228, 353 Y 1.2437060236033232e-07 2 101, 353
UBAP2_sequences_filtered_longestORFs_mafft_prank UBAP2 UBAP2 1504.0 12 0.237830734331 0.242 N 1.0000 0 na N 0.9999996078168666 0 na N 0.9998839629323042 0 na N 0.9980019986687417 0 na N 1.0 0 na
UBAP2L_sequences_filtered_longestORFs_mafft_prank UBAP2L could be cut at nt 5346 to reanalyze the 5-ter. Crashed because aln too long I think UBAP2L. Could not cut in the end. Many slice variants. Decided to keep whole and re-run. If too long, quit UBAP2L 3418.0 12 na na Y 0.0000 3 271, 476, 3110 na na 0 na na na 0 na na na 0 na na na 0 na
UBXN8_sequences_filtered_longestORFs_mafft_prank UBXN8 UBXN8 305.0 12 0.404541986019 0.393 N 1.0000 1 142 N 0.8595500425717232 0 na N 0.570834465560978 0 na N 0.8253068684916764 0 na N 0.48772673462580574 0 na
UGGT2_sequences_filtered_longestORFs_mafft_prank UGGT2 UGGT2 1721.0 12 0.271849324024 0.248 Y 0.0150 15 154, 156, 623, 677, 691, 738, 780, 876, 915, 932, 1051, 1174, 1301, 1329, 1349 N 0.9999994895407719 0 na N 0.4009484925650369 0 na N 1.0 0 na N 0.3686159363035691 0 na
UPF1_sequences_filtered_longestORFs_mafft_prank UPF1 UPF1 1268.0 12 0.005967468791 0.004 N 1.0000 0 na N 0.9999999999008651 0 na N 0.9999900181399214 0 na N 0.9940179640545284 0 na N 0.9940179640545284 0 na
USP13_sequences_filtered_longestORFs_mafft_prank USP13 USP13 957.0 12 0.037174112882 0.037 N 1.0000 2 374, 873 N 0.9999987827948775 0 na Y 0.0190013570231371 2 586, 706 N 1.0 0 na N 0.99900049983408 0 na
USP54_sequences_filtered_longestORFs_mafft_prank USP54 USP54 2053.0 11 0.366806019369 0.362 Y 0.0301 11 845, 1129, 1160, 1290, 1291, 1405, 1412, 1732, 1823, 1939, 1985 N 0.9997345689145414 0 na N 0.15291027386116157 0 na N 0.5927396589958697 0 na N 0.31192266203294183 0 na
VPS11_sequences_filtered_longestORFs_mafft_prank VPS11 VPS11 1166.0 12 0.078603582166 0.072 N 0.0824 5 27, 304, 314, 591, 596 N 0.9999993365374775 0 na Y 0.012111394464395 4 21, 63, 342, 596 N 1.0 0 na N 0.5117085777865054 0 na
VPS39_sequences_filtered_longestORFs_mafft_prank VPS39 position 115 due to internal splice variant VPS39 1042.0 12 0.056596878456 0.060 Y 0.0000 4 79, 115, 930, 933 Y 0.0036263867910577537 1 115 Y 3.2872363224224216e-11 3 115, 464, 723 Y 0.002538961855010523 1 115 Y 1.5934882242290877e-05 1 115
WASHC4_sequences_filtered_longestORFs_mafft_prank WASHC4 WASHC4 1291.0 12 0.047673831087 0.043 Y 0.0002 1 37 N 0.9999992783153051 0 na Y 9.046577638308179e-07 16 37, 242, 245, 389, 506, 578, 630, 1073, 1084, 1152, 1176, 1207, 1208, 1267, 1275, 1278 N 0.9990004998331715 0 na N 0.5127330190420621 0 na
WFS1_sequences_filtered_longestORFs_mafft_prank WFS1 WFS1 1109.0 11 0.115587068116 0.087 Y 0.0287 10 166, 217, 483, 542, 647, 749, 768, 790, 888, 893 N 0.9999992486685281 0 na Y 0.03804197055110089 1 166 N 1.0 0 na N 0.5449833692075639 0 na
YIF1A_sequences_filtered_longestORFs_mafft_prank_part2_prank YIF1A_part2 dupl yes YIF1A 307.0 12 0.092980087519 0.083 N 1.0000 0 na N 0.9999994430788052 0 na N 0.9999999928145371 0 na N 1.0 0 na N 1.0 0 na
ZC3H18_sequences_filtered_longestORFs_mafft_prank ZC3H18 ZC3H18 1226.0 11 0.200106682861 0.187 Y 0.0016 4 54, 654, 771, 1080 N 0.9999991996195169 0 na N 0.5258352764131282 0 na N 1.0 0 na N 0.05596661089965757 0 na
ZC3H18_sequences_filtered_longestORFs_mafft_prank_frag0to1101 ZC3H18[0-1101] ZC3H18[0-1101] 367.0 11 0.229802082341 0.219 Y 0.0191 3 54, 148, 163 N 0.9999990616263259 0 na N 0.24086994381226873 0 na Y 0.0005745060096894928 1 188 Y 0.00030751090743914297 1 188
ZC3H18_sequences_filtered_longestORFs_mafft_prank_frag1100to3678 ZC3H18[1100-3678] ZC3H18[1100-3678] 859.0 11 0.204731954234 0.189 N 0.7392 4 287, 404, 713, 744 N 0.9999982891136908 0 na N 0.781377329393951 0 na N 1.0 0 na N 0.46301306831102595 0 na
ZC3H7A_sequences_filtered_longestORFs_mafft_prank ZC3H7A ZC3H7A 1018.0 12 0.207349246144 0.173 N 0.9537 6 194, 313, 318, 464, 606, 884 N 0.9999992934629285 0 na Y 0.04687509899081552 6 92, 183, 216, 299, 318, 464 N 0.9314618921276734 0 na N 0.3305491224578773 0 na
ZDHHC5_sequences_filtered_longestORFs_mafft_prank ZDHHC5 ZDHHC5 768.0 12 0.080123114130 0.080 N 1.0000 1 95 N 0.8751057533143412 0 na Y 0.00028950851490339055 3 95, 387, 688 N 1.0 0 na N 0.26820598310847715 0 na
ZNF318_sequences_filtered_longestORFs_mafft_prank ZNF318 ZNF318 2395.0 11 0.361499795329 0.353 N 0.1184 0 na N 0.8750270725798085 0 na N 0.5452621832627409 0 na N 0.6505090947231271 0 na N 0.11567161588366141 0 na
ZNF503_sequences_filtered_longestORFs_mafft_prank ZNF503 ZNF503 682.0 9 0.036470300914 0.033 N 1.0000 0 na N 0.9999987418249204 0 na N 0.7780311233967817 0 na N 1.0 0 na N 1.0 0 na
ZYG11B_sequences_filtered_longestORFs_mafft_prank ZYG11B ZYG11B 854.0 12 0.019630434764 0.021 N 1.0000 0 na N 0.9999984077343413 0 na N 0.1157682212961436 0 na N 1.0 0 na N 0.6750287475861135 0 na