#NEXUS [written Mon Oct 06 16:53:28 CEST 2014 by Mesquite version 3.01 (build 658) at Joane-PC/134.157.120.89] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=25; TAXLABELS Oistoceras_figulinum Amaltheus_bifurcus Amaltheus_stokesi Amaltheus_talrosei Amaltheus_subbifurvus Amaltheus_repressus Amaltheus_conspectus Amaltheus_viligaensis Amaltheus_wertheri Amauroceras_ferruginum Amaltheus_subnodosus Amaltheus_striatus Amaltheus_gloriosus Amaltheus_gloriosus_morph._W Amaltheus_gibbosus Amaltheus_salebrosus Pleuroceras_becheteri Pleuroceras_transiens Pleuroceras_solare Pleuroceras_quadratum Pleuroceras_apyrenum Pleuroceras_spinatum Pleuroceras_hawskerense Pleuroceras_paucicostatum Pleuroceras_yeovilense ; END; BEGIN CHARACTERS; TITLE 'Amaltheidae without ontogeny"'; DIMENSIONS NCHAR=22; FORMAT DATATYPE = STANDARD GAP = - MISSING = ? SYMBOLS = " 0 1 2 3 4 5 6 7 8 9 A B C D E F G H I J K L M N O P Q R S T U V"; CHARSTATELABELS 1 Uw, 2 WbWh, 3 Size_ad_max, 4 Ribs, 5 Chev.D, 6 angle_Rib_Chev, 7 Tub_Type, 8 sulci, 9 Pres_engel, 10 Orn_spiral, 11 VLE.A, 12 rounded_venral_area, 13 Perlatum, 14 Con_Chev_Rib, 15 thick_chevrons, 16 Keel_individualisation, 17 Keel_chevrons, 18 Keel_cordated, 19 AccessSaddle, 20 OrnemSut, 21 Pre_Tub_Complex, 22 constrictions ; MATRIX Oistoceras_figulinum H041?0?0001001?00010?0 Amaltheus_bifurcus CD2204?0000001?00010?0 Amaltheus_stokesi 3EHO11?0010001001010?0 Amaltheus_talrosei 9FEJ2D?00?0001101010?0 Amaltheus_subbifurvus ?5B83E?00?0001101010?0 Amaltheus_repressus 8?CL?2?00?0001001010?1 Amaltheus_conspectus 0AFF?A?0010101101010?1 Amaltheus_viligaensis 4J7M?F?0010101101010?0 Amaltheus_wertheri 1304?3?0010001001010?0 Amauroceras_ferruginum 2110???001000??01010?0 Amaltheus_subnodosus B83G66?001001001101000 Amaltheus_striatus A6I7?5?011001001101000 Amaltheus_gloriosus 79JB4B1011001001101000 Amaltheus_gloriosus_morph._W 5CKD7C2011001001101010 Amaltheus_gibbosus 6HLI573011001001101010 Amaltheus_salebrosus DKNK?83011001001101010 Pleuroceras_becheteri G?D6893011101001101110 Pleuroceras_transiens ?B55???011101001101100 Pleuroceras_solare F28E???0111010?1110100 Pleuroceras_quadratum E?93???0111010?1110100 Pleuroceras_apyrenum IGAA???1111010?1110100 Pleuroceras_spinatum J7OH???20?1010?1110100 Pleuroceras_hawskerense LLMC???1??1010?1110100 Pleuroceras_paucicostatum ?469???20?1010?1110100 Pleuroceras_yeovilense KIGN???20?1010?1110100 ; END; BEGIN ASSUMPTIONS; USERTYPE matrix1 (Stepmatrix) = 22 0 1 2 3 4 5 6 7 8 9 A B C D E F G H I J K L 0 38 127 131 148 295 295 392 409 414 418 430 506 511 527 557 612 616 624 743 857 1000 38 0 89 93 110 257 257 354 371 376 380 392 468 473 489 519 574 578 586 705 819 962 127 89 0 4 21 168 168 265 282 287 291 303 379 384 400 430 485 489 497 616 730 873 131 93 4 0 17 164 164 261 278 283 287 299 375 380 396 426 481 485 493 612 726 869 148 110 21 17 0 147 147 244 261 266 270 282 358 363 379 409 464 468 476 595 709 852 295 257 168 164 147 0 0 97 114 119 123 135 211 216 232 262 317 321 329 448 562 705 295 257 168 164 147 0 0 97 114 119 123 135 211 216 232 262 317 321 329 448 562 705 392 354 265 261 244 97 97 0 17 22 26 38 114 119 135 165 220 224 232 351 465 608 409 371 282 278 261 114 114 17 0 5 9 21 97 102 118 148 203 207 215 334 448 591 414 376 287 283 266 119 119 22 5 0 4 16 92 97 113 143 198 202 210 329 443 586 418 380 291 287 270 123 123 26 9 4 0 12 88 93 109 139 194 198 206 325 439 582 430 392 303 299 282 135 135 38 21 16 12 0 76 81 97 127 182 186 194 313 427 570 506 468 379 375 358 211 211 114 97 92 88 76 0 5 21 51 106 110 118 237 351 494 511 473 384 380 363 216 216 119 102 97 93 81 5 0 16 46 101 105 113 232 346 489 527 489 400 396 379 232 232 135 118 113 109 97 21 16 0 30 85 89 97 216 330 473 557 519 430 426 409 262 262 165 148 143 139 127 51 46 30 0 55 59 67 186 300 443 612 574 485 481 464 317 317 220 203 198 194 182 106 101 85 55 0 4 12 131 245 388 616 578 489 485 468 321 321 224 207 202 198 186 110 105 89 59 4 0 8 127 241 384 624 586 497 493 476 329 329 232 215 210 206 194 118 113 97 67 12 8 0 119 233 376 743 705 616 612 595 448 448 351 334 329 325 313 237 232 216 186 131 127 119 0 114 257 857 819 730 726 709 562 562 465 448 443 439 427 351 346 330 300 245 241 233 114 0 143 1000 962 873 869 852 705 705 608 591 586 582 570 494 489 473 443 388 384 376 257 143 0 ; USERTYPE matrix2 (Stepmatrix) = 22 0 1 2 3 4 5 6 7 8 9 A B C D E F G H I J K L 0 105 185 239 242 251 283 284 314 342 362 368 498 576 653 739 794 819 876 900 914 1000 105 0 80 134 137 146 178 179 209 237 257 263 393 471 548 634 689 714 771 795 809 895 185 80 0 54 57 66 98 99 129 157 177 183 313 391 468 554 609 634 691 715 729 815 239 134 54 0 3 12 44 45 75 103 123 129 259 337 414 500 555 580 637 661 675 761 242 137 57 3 0 9 41 42 72 100 120 126 256 334 411 497 552 577 634 658 672 758 251 146 66 12 9 0 32 33 63 91 111 117 247 325 402 488 543 568 625 649 663 749 283 178 98 44 41 32 0 1 31 59 79 85 215 293 370 456 511 536 593 617 631 717 284 179 99 45 42 33 1 0 30 58 78 84 214 292 369 455 510 535 592 616 630 716 314 209 129 75 72 63 31 30 0 28 48 54 184 262 339 425 480 505 562 586 600 686 342 237 157 103 100 91 59 58 28 0 20 26 156 234 311 397 452 477 534 558 572 658 362 257 177 123 120 111 79 78 48 20 0 6 136 214 291 377 432 457 514 538 552 638 368 263 183 129 126 117 85 84 54 26 6 0 130 208 285 371 426 451 508 532 546 632 498 393 313 259 256 247 215 214 184 156 136 130 0 78 155 241 296 321 378 402 416 502 576 471 391 337 334 325 293 292 262 234 214 208 78 0 77 163 218 243 300 324 338 424 653 548 468 414 411 402 370 369 339 311 291 285 155 77 0 86 141 166 223 247 261 347 739 634 554 500 497 488 456 455 425 397 377 371 241 163 86 0 55 80 137 161 175 261 794 689 609 555 552 543 511 510 480 452 432 426 296 218 141 55 0 25 82 106 120 206 819 714 634 580 577 568 536 535 505 477 457 451 321 243 166 80 25 0 57 81 95 181 876 771 691 637 634 625 593 592 562 534 514 508 378 300 223 137 82 57 0 24 38 124 900 795 715 661 658 649 617 616 586 558 538 532 402 324 247 161 106 81 24 0 14 100 914 809 729 675 672 663 631 630 600 572 552 546 416 338 261 175 120 95 38 14 0 86 1000 895 815 761 758 749 717 716 686 658 638 632 502 424 347 261 206 181 124 100 86 0 ; USERTYPE matrix3 (Stepmatrix) = 25 0 1 2 3 4 5 6 7 8 9 A B C D E F G H I J K L M N O 0 0 301 301 380 380 380 505 505 505 505 556 556 556 602 643 643 681 699 699 699 699 748 820 1000 0 0 301 301 380 380 380 505 505 505 505 556 556 556 602 643 643 681 699 699 699 699 748 820 1000 301 301 0 0 79 79 79 204 204 204 204 255 255 255 301 342 342 380 398 398 398 398 447 519 699 301 301 0 0 79 79 79 204 204 204 204 255 255 255 301 342 342 380 398 398 398 398 447 519 699 380 380 79 79 0 0 0 125 125 125 125 176 176 176 222 263 263 301 319 319 319 319 368 440 620 380 380 79 79 0 0 0 125 125 125 125 176 176 176 222 263 263 301 319 319 319 319 368 440 620 380 380 79 79 0 0 0 125 125 125 125 176 176 176 222 263 263 301 319 319 319 319 368 440 620 505 505 204 204 125 125 125 0 0 0 0 51 51 51 97 138 138 176 194 194 194 194 243 315 495 505 505 204 204 125 125 125 0 0 0 0 51 51 51 97 138 138 176 194 194 194 194 243 315 495 505 505 204 204 125 125 125 0 0 0 0 51 51 51 97 138 138 176 194 194 194 194 243 315 495 505 505 204 204 125 125 125 0 0 0 0 51 51 51 97 138 138 176 194 194 194 194 243 315 495 556 556 255 255 176 176 176 51 51 51 51 0 0 0 46 87 87 125 143 143 143 143 192 264 444 556 556 255 255 176 176 176 51 51 51 51 0 0 0 46 87 87 125 143 143 143 143 192 264 444 556 556 255 255 176 176 176 51 51 51 51 0 0 0 46 87 87 125 143 143 143 143 192 264 444 602 602 301 301 222 222 222 97 97 97 97 46 46 46 0 41 41 79 97 97 97 97 146 218 398 643 643 342 342 263 263 263 138 138 138 138 87 87 87 41 0 0 38 56 56 56 56 105 177 357 643 643 342 342 263 263 263 138 138 138 138 87 87 87 41 0 0 38 56 56 56 56 105 177 357 681 681 380 380 301 301 301 176 176 176 176 125 125 125 79 38 38 0 18 18 18 18 67 139 319 699 699 398 398 319 319 319 194 194 194 194 143 143 143 97 56 56 18 0 0 0 0 49 121 301 699 699 398 398 319 319 319 194 194 194 194 143 143 143 97 56 56 18 0 0 0 0 49 121 301 699 699 398 398 319 319 319 194 194 194 194 143 143 143 97 56 56 18 0 0 0 0 49 121 301 699 699 398 398 319 319 319 194 194 194 194 143 143 143 97 56 56 18 0 0 0 0 49 121 301 748 748 447 447 368 368 368 243 243 243 243 192 192 192 146 105 105 67 49 49 49 49 0 72 252 820 820 519 519 440 440 440 315 315 315 315 264 264 264 218 177 177 139 121 121 121 121 72 0 180 1000 1000 699 699 620 620 620 495 495 495 495 444 444 444 398 357 357 319 301 301 301 301 252 180 0 ; USERTYPE matrix4 (Stepmatrix) = 25 0 1 2 3 4 5 6 7 8 9 A B C D E F G H I J K L M N O 0 39 118 121 152 152 161 203 209 224 233 245 261 294 345 364 379 409 455 524 530 600 603 836 1000 39 0 79 82 113 113 122 164 170 185 194 206 222 255 306 325 340 370 416 485 491 561 564 797 961 118 79 0 3 34 34 43 85 91 106 115 127 143 176 227 246 261 291 337 406 412 482 485 718 882 121 82 3 0 31 31 40 82 88 103 112 124 140 173 224 243 258 288 334 403 409 479 482 715 879 152 113 34 31 0 0 9 51 57 72 81 93 109 142 193 212 227 257 303 372 378 448 451 684 848 152 113 34 31 0 0 9 51 57 72 81 93 109 142 193 212 227 257 303 372 378 448 451 684 848 161 122 43 40 9 9 0 42 48 63 72 84 100 133 184 203 218 248 294 363 369 439 442 675 839 203 164 85 82 51 51 42 0 6 21 30 42 58 91 142 161 176 206 252 321 327 397 400 633 797 209 170 91 88 57 57 48 6 0 15 24 36 52 85 136 155 170 200 246 315 321 391 394 627 791 224 185 106 103 72 72 63 21 15 0 9 21 37 70 121 140 155 185 231 300 306 376 379 612 776 233 194 115 112 81 81 72 30 24 9 0 12 28 61 112 131 146 176 222 291 297 367 370 603 767 245 206 127 124 93 93 84 42 36 21 12 0 16 49 100 119 134 164 210 279 285 355 358 591 755 261 222 143 140 109 109 100 58 52 37 28 16 0 33 84 103 118 148 194 263 269 339 342 575 739 294 255 176 173 142 142 133 91 85 70 61 49 33 0 51 70 85 115 161 230 236 306 309 542 706 345 306 227 224 193 193 184 142 136 121 112 100 84 51 0 19 34 64 110 179 185 255 258 491 655 364 325 246 243 212 212 203 161 155 140 131 119 103 70 19 0 15 45 91 160 166 236 239 472 636 379 340 261 258 227 227 218 176 170 155 146 134 118 85 34 15 0 30 76 145 151 221 224 457 621 409 370 291 288 257 257 248 206 200 185 176 164 148 115 64 45 30 0 46 115 121 191 194 427 591 455 416 337 334 303 303 294 252 246 231 222 210 194 161 110 91 76 46 0 69 75 145 148 381 545 524 485 406 403 372 372 363 321 315 300 291 279 263 230 179 160 145 115 69 0 6 76 79 312 476 530 491 412 409 378 378 369 327 321 306 297 285 269 236 185 166 151 121 75 6 0 70 73 306 470 600 561 482 479 448 448 439 397 391 376 367 355 339 306 255 236 221 191 145 76 70 0 3 236 400 603 564 485 482 451 451 442 400 394 379 370 358 342 309 258 239 224 194 148 79 73 3 0 233 397 836 797 718 715 684 684 675 633 627 612 603 591 575 542 491 472 457 427 381 312 306 236 233 0 164 1000 961 882 879 848 848 839 797 791 776 767 755 739 706 655 636 621 591 545 476 470 400 397 164 0 ; USERTYPE matrix5 (Stepmatrix) = 9 0 1 2 3 4 5 6 7 8 0 75 94 151 355 564 611 624 1000 75 0 19 76 280 489 536 549 925 94 19 0 57 261 470 517 530 906 151 76 57 0 204 413 460 473 849 355 280 261 204 0 209 256 269 645 564 489 470 413 209 0 47 60 436 611 536 517 460 256 47 0 13 389 624 549 530 473 269 60 13 0 376 1000 925 906 849 645 436 389 376 0 ; USERTYPE matrix6 (Stepmatrix) = 16 0 1 2 3 4 5 6 7 8 9 A B C D E F 0 62 62 62 250 438 688 688 688 688 750 750 750 1000 1000 1000 62 0 0 0 188 376 626 626 626 626 688 688 688 938 938 938 62 0 0 0 188 376 626 626 626 626 688 688 688 938 938 938 62 0 0 0 188 376 626 626 626 626 688 688 688 938 938 938 250 188 188 188 0 188 438 438 438 438 500 500 500 750 750 750 438 376 376 376 188 0 250 250 250 250 312 312 312 562 562 562 688 626 626 626 438 250 0 0 0 0 62 62 62 312 312 312 688 626 626 626 438 250 0 0 0 0 62 62 62 312 312 312 688 626 626 626 438 250 0 0 0 0 62 62 62 312 312 312 688 626 626 626 438 250 0 0 0 0 62 62 62 312 312 312 750 688 688 688 500 312 62 62 62 62 0 0 0 250 250 250 750 688 688 688 500 312 62 62 62 62 0 0 0 250 250 250 750 688 688 688 500 312 62 62 62 62 0 0 0 250 250 250 1000 938 938 938 750 562 312 312 312 312 250 250 250 0 0 0 1000 938 938 938 750 562 312 312 312 312 250 250 250 0 0 0 1000 938 938 938 750 562 312 312 312 312 250 250 250 0 0 0 ; TYPESET * UNTITLED = unord: 9 - 22, ord: 7 - 8, matrix1: 1, matrix2: 2, matrix3: 3, matrix4: 4, matrix5: 5, matrix6: 6; TYPESET mytypes = unord: 1 - 6 9 - 22, ord: 7 - 8; WTSET * UNTITLED = 1: 1 - 6, 1000: 7 - 22 ; WTSET myweighs = 1: 1 - 6, 1000: 7 - 22 ; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1 - 22; END; BEGIN TREES; Title 'Trees from "amalt2.nex"'; LINK Taxa = Taxa; TRANSLATE [0] 1 Oistoceras_figulinum, [1] 2 Amaltheus_bifurcus, [2] 3 Amaltheus_stokesi, [3] 4 Amaltheus_talrosei, [4] 5 Amaltheus_subbifurvus, [5] 6 Amaltheus_repressus, [6] 7 Amaltheus_conspectus, [7] 8 Amaltheus_viligaensis, [8] 9 Amaltheus_wertheri, [9] 10 Amauroceras_ferruginum, [10] 11 Amaltheus_subnodosus, [11] 12 Amaltheus_striatus, [12] 13 Amaltheus_gloriosus, [13] 14 Amaltheus_gloriosus_morph._W, [14] 15 Amaltheus_gibbosus, [15] 16 Amaltheus_salebrosus, [16] 17 Pleuroceras_becheteri, [17] 18 Pleuroceras_transiens, [18] 19 Pleuroceras_solare, [19] 20 Pleuroceras_quadratum, [20] 21 Pleuroceras_apyrenum, [21] 22 Pleuroceras_spinatum, [22] 23 Pleuroceras_hawskerense, [23] 24 Pleuroceras_paucicostatum, [24] 25 Pleuroceras_yeovilense; TREE Without_ontogeny = (1,2,(((3,6),(((4,(7,8)),5),(11,((12,13),(14,((15,16),(17,(18,((19,((21,23),((22,25),24))),20))))))))),(9,10))); END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1412607208495; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 4846998916635280493; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 5417955242743704218; mqVersion 301; checksumv 0 3 838612416 null getNumChars 22 numChars 22 getNumTaxa 25 numTaxa 25 short false bits 33554431 states 33554431 sumSquaresStatesOnly 7.62329493668879E14 sumSquares 7.62329493668879E14 longCompressibleToShort false usingShortMatrix false NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 100; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1493 817; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #4846998916635280493 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #4846998916635280493; getWindow; tell It; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1393 745; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TaxonList.TaxonListWindow.ibeam; endTell; setActive; endTell; showWindow; getEmployee #mesquite.lists.ColorTaxon.ColorTaxon; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.lists.TaxonListAnnotPanel.TaxonListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; getEmployee #mesquite.trees.ManageTrees.ManageTrees; tell It; showTrees 0 #mesquite.lists.TreesList.TreesList; tell It; setTreeBlock 1; getWindow; tell It; newAssistant #mesquite.lists.NumForTreeList.NumForTreeList; tell It; suppress; setValueTask #mesquite.trees.NumberOfTaxa.NumberOfTaxa; desuppress; endTell; newAssistant #mesquite.lists.TreeListRooted.TreeListRooted; newAssistant #mesquite.lists.TreeListPolys.TreeListPolys; newAssistant #mesquite.lists.TreeListPolyAssumption.TreeListPolyAssumption; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1393 745; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TreesList.TreesListWindow.ibeam; endTell; endTell; showWindow; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; showCharacters #5417955242743704218 #mesquite.lists.CharacterList.CharacterList; tell It; setData 0; getWindow; tell It; newAssistant #mesquite.lists.DefaultCharOrder.DefaultCharOrder; newAssistant #mesquite.lists.CharListInclusion.CharListInclusion; newAssistant #mesquite.lists.CharListPartition.CharListPartition; newAssistant #mesquite.parsimony.CharListParsModels.CharListParsModels; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1393 745; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; endTell; showWindow; getEmployee #mesquite.lists.CharListAnnotPanel.CharListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; endTell; end;