1# Splice sites and intron regions information for GeneWise-21 2# Fri May 15 13:20:38 IDT 1998 3# Created by Mor Amitai (mor@compugen.co.il) 4# dataset : ~/ftp/pub/PomBase/temp/cds_cdna ~/ftp/pub/PomBase/temp/cds_ex 5# Consensi are read from top down. The value, for a sequence, 6# is the number in the line of the first consensus that 7# matches the sequence. 8# Note: the set of sequences that are represented by a consensus 9# are all the sequences that match this consensus and none of the 10# previous consensi 11# 12# the numbers in types 5SS, 3SS, CDS, and the emissions are the number of 13# occurrences of each sequence in the database. 14# In case of a consensus this is the number of occurrences of sequences 15# that are represented by the consensus in the database divided by the 16# number of sequences that are represented by the consensus. 17# *stay_prob is the probability of the transition from the state to itself. 18# No_Spacer_Prob is the probability of transition from Pyrimidine directly 19# to 3SS (no spacer). 20type 5SS 21center 3 22phase all 23begin consensus 24---GTA-GT- 0.0869141 25---GT----- 0.000821553 26end consensus 27type 5SS 28center 3 29phase 0 30begin consensus 31---GTA-GT- 0.0371094 32---GT----- 0.000356523 33end consensus 34type 5SS 35center 3 36phase 1 37begin consensus 38---GTA-GT- 0.0292969 39---GT----- 0.000294519 40end consensus 41type 5SS 42center 3 43phase 2 44begin consensus 45---GT----- 0.000488281 46end consensus 47type 5SS_codon 48phase all 49begin consensus 50AAA 1.864078 51AAC 0.621359 52AAG 6.524272 53AAT 1.864078 54AAN 2.71845 55ACA 0.932039 56ACC 0.310680 57ACG 1.553398 58ACT 0.932039 59ACN 0.932039 60AGA 1.553398 61AGC 0.310680 62AGG 1.553398 63AGT 1.864078 64AGN 1.32039 65ATA 0.932039 66ATC 0.621359 67ATG 2.796117 68ATT 1.553398 69ATN 1.47573 70ANA 1.32039 71ANC 0.46602 72ANG 3.1068 73ANT 1.5534 74ANN 1.61165 75CAA 1.242718 76CAC 0.310680 77CAG 3.417476 78CAT 0.621359 79CAN 1.39806 80CCA 0.310680 81CCC 0.310680 82CCG 0.621359 83CCT 0.310680 84CCN 0.38835 85CGA 0.621359 86CGC 0.310680 87CGG 1.242718 88CGT 0.310680 89CGN 0.621359 90CTA 0.310680 91CTC 0.310680 92CTG 1.864078 93CTT 0.621359 94CTN 0.776699 95CNA 0.621359 96CNC 0.31068 97CNG 1.78641 98CNT 0.46602 99CNN 0.796117 100GAA 0.310680 101GAC 0.621359 102GAG 3.106796 103GAT 1.242718 104GAN 1.32039 105GCA 0.621359 106GCC 0.621359 107GCG 0.310680 108GCT 0.621359 109GCN 0.543689 110GGA 0.310680 111GGC 0.310680 112GGG 0.310680 113GGT 0.310680 114GGN 0.31068 115GTA 0.310680 116GTC 0.310680 117GTG 0.932039 118GTT 0.310680 119GTN 0.46602 120GNA 0.38835 121GNC 0.46602 122GNG 1.16505 123GNT 0.621359 124GNN 0.660194 125TAA 0.621359 126TAC 0.932039 127TAG 0.932039 128TAT 0.621359 129TAN 0.776699 130TCA 0.621359 131TCC 0.310680 132TCG 0.621359 133TCT 0.932039 134TCN 0.621359 135TGA 0.621359 136TGC 0.621359 137TGG 1.242718 138TGT 0.621359 139TGN 0.776699 140TTA 0.621359 141TTC 0.621359 142TTG 3.106796 143TTT 1.864078 144TTN 1.5534 145TNA 0.621359 146TNC 0.621359 147TNG 1.47573 148TNT 1.00971 149TNN 0.932039 150NAA 1.00971 151NAC 0.621359 152NAG 3.49515 153NAT 1.08738 154NAN 1.5534 155NCA 0.621359 156NCC 0.38835 157NCG 0.776699 158NCT 0.699029 159NCN 0.621359 160NGA 0.776699 161NGC 0.38835 162NGG 1.08738 163NGT 0.776699 164NGN 0.757282 165NTA 0.543689 166NTC 0.46602 167NTG 2.17476 168NTT 1.08738 169NTN 1.06796 170NNA 0.737864 171NNC 0.46602 172NNG 1.8835 173NNT 0.912621 174NNN 1 175end consensus 176type 5SS_codon 177phase 0 178begin consensus 179AAA 0.512000 180AAC 0.512000 181AAG 6.144000 182AAT 1.536000 183AAN 2.176 184ACA 1.024000 185ACC 0.512000 186ACG 0.512000 187ACT 0.512000 188ACN 0.64 189AGA 0.512000 190AGC 0.512000 191AGG 1.536000 192AGT 1.024000 193AGN 0.896 194ATA 0.512000 195ATC 0.512000 196ATG 2.048000 197ATT 1.536000 198ATN 1.152 199ANA 0.64 200ANC 0.512 201ANG 2.56 202ANT 1.152 203ANN 1.216 204CAA 1.024000 205CAC 0.512000 206CAG 4.608000 207CAT 1.024000 208CAN 1.792 209CCA 0.512000 210CCC 0.512000 211CCG 1.024000 212CCT 0.512000 213CCN 0.64 214CGA 0.512000 215CGC 0.512000 216CGG 1.024000 217CGT 0.512000 218CGN 0.64 219CTA 0.512000 220CTC 0.512000 221CTG 1.536000 222CTT 1.024000 223CTN 0.896 224CNA 0.64 225CNC 0.512 226CNG 2.048 227CNT 0.768 228CNN 0.992 229GAA 0.512000 230GAC 0.512000 231GAG 4.096000 232GAT 1.536000 233GAN 1.664 234GCA 1.024000 235GCC 1.024000 236GCG 0.512000 237GCT 1.024000 238GCN 0.896 239GGA 0.512000 240GGC 0.512000 241GGG 0.512000 242GGT 0.512000 243GGN 0.512 244GTA 0.512000 245GTC 0.512000 246GTG 1.536000 247GTT 0.512000 248GTN 0.768 249GNA 0.64 250GNC 0.64 251GNG 1.664 252GNT 0.896 253GNN 0.96 254TAA 0.512000 255TAC 1.536000 256TAG 0.512000 257TAT 0.512000 258TAN 0.768 259TCA 0.512000 260TCC 0.512000 261TCG 0.512000 262TCT 1.536000 263TCN 0.768 264TGA 0.512000 265TGC 0.512000 266TGG 0.512000 267TGT 0.512000 268TGN 0.512 269TTA 1.024000 270TTC 0.512000 271TTG 2.048000 272TTT 1.536000 273TTN 1.28 274TNA 0.64 275TNC 0.768 276TNG 0.896 277TNT 1.024 278TNN 0.832 279NAA 0.64 280NAC 0.768 281NAG 3.84 282NAT 1.152 283NAN 1.6 284NCA 0.768 285NCC 0.64 286NCG 0.64 287NCT 0.896 288NCN 0.736 289NGA 0.512 290NGC 0.512 291NGG 0.896 292NGT 0.64 293NGN 0.64 294NTA 0.64 295NTC 0.512 296NTG 1.792 297NTT 1.152 298NTN 1.024 299NNA 0.64 300NNC 0.608 301NNG 1.792 302NNT 0.96 303NNN 1 304end consensus 305type 5SS_codon 306phase 1 307begin consensus 308AAA 1.699115 309AAC 0.566372 310AAG 3.964602 311AAT 1.132743 312AAN 1.84071 313ACA 1.132743 314ACC 0.566372 315ACG 2.265487 316ACT 1.699115 317ACN 1.41593 318AGA 1.132743 319AGC 0.566372 320AGG 1.699115 321AGT 1.132743 322AGN 1.13274 323ATA 1.699115 324ATC 1.132743 325ATG 2.831858 326ATT 1.699115 327ATN 1.84071 328ANA 1.41593 329ANC 0.707965 330ANG 2.69027 331ANT 1.41593 332ANN 1.55752 333CAA 1.132743 334CAC 0.566372 335CAG 1.132743 336CAT 0.566372 337CAN 0.849557 338CCA 0.566372 339CCC 0.566372 340CCG 0.566372 341CCT 0.566372 342CCN 0.566372 343CGA 0.566372 344CGC 0.566372 345CGG 1.699115 346CGT 0.566372 347CGN 0.849558 348CTA 0.566372 349CTC 0.566372 350CTG 2.265487 351CTT 0.566372 352CTN 0.991151 353CNA 0.707965 354CNC 0.566372 355CNG 1.41593 356CNT 0.566372 357CNN 0.814159 358GAA 0.566372 359GAC 1.132743 360GAG 1.699115 361GAT 0.566372 362GAN 0.99115 363GCA 0.566372 364GCC 0.566372 365GCG 0.566372 366GCT 0.566372 367GCN 0.566372 368GGA 0.566372 369GGC 0.566372 370GGG 0.566372 371GGT 0.566372 372GGN 0.566372 373GTA 0.566372 374GTC 0.566372 375GTG 0.566372 376GTT 0.566372 377GTN 0.566372 378GNA 0.566372 379GNC 0.707965 380GNG 0.849558 381GNT 0.566372 382GNN 0.672567 383TAA 0.566372 384TAC 0.566372 385TAG 0.566372 386TAT 1.132743 387TAN 0.707965 388TCA 0.566372 389TCC 0.566372 390TCG 0.566372 391TCT 0.566372 392TCN 0.566372 393TGA 0.566372 394TGC 0.566372 395TGG 1.699115 396TGT 0.566372 397TGN 0.849558 398TTA 0.566372 399TTC 0.566372 400TTG 3.964602 401TTT 1.699115 402TTN 1.69912 403TNA 0.566372 404TNC 0.566372 405TNG 1.69912 406TNT 0.99115 407TNN 0.955752 408NAA 0.99115 409NAC 0.707965 410NAG 1.84071 411NAT 0.849557 412NAN 1.09735 413NCA 0.707965 414NCC 0.566372 415NCG 0.991151 416NCT 0.849558 417NCN 0.778761 418NGA 0.707965 419NGC 0.566372 420NGG 1.41593 421NGT 0.707965 422NGN 0.849558 423NTA 0.849558 424NTC 0.707965 425NTG 2.40708 426NTT 1.13274 427NTN 1.27434 428NNA 0.814159 429NNC 0.637168 430NNG 1.66372 431NNT 0.884956 432NNN 1 433end consensus 434type 5SS_codon 435phase 2 436begin consensus 437AAA 2.666667 438AAC 1.333333 439AAG 2.666667 440AAT 2.000000 441AAN 2.16667 442ACA 0.666667 443ACC 0.666667 444ACG 1.333333 445ACT 0.666667 446ACN 0.833334 447AGA 2.666667 448AGC 0.666667 449AGG 0.666667 450AGT 2.666667 451AGN 1.66667 452ATA 0.666667 453ATC 0.666667 454ATG 1.333333 455ATT 0.666667 456ATN 0.833334 457ANA 1.66667 458ANC 0.833333 459ANG 1.5 460ANT 1.5 461ANN 1.375 462CAA 1.333333 463CAC 0.666667 464CAG 1.333333 465CAT 0.666667 466CAN 1 467CCA 0.666667 468CCC 0.666667 469CCG 0.666667 470CCT 0.666667 471CCN 0.666667 472CGA 1.333333 473CGC 0.666667 474CGG 0.666667 475CGT 0.666667 476CGN 0.833333 477CTA 0.666667 478CTC 0.666667 479CTG 0.666667 480CTT 0.666667 481CTN 0.666667 482CNA 1 483CNC 0.666667 484CNG 0.833333 485CNT 0.666667 486CNN 0.791667 487GAA 0.666667 488GAC 0.666667 489GAG 0.666667 490GAT 1.333333 491GAN 0.833334 492GCA 0.666667 493GCC 0.666667 494GCG 0.666667 495GCT 0.666667 496GCN 0.666667 497GGA 0.666667 498GGC 0.666667 499GGG 0.666667 500GGT 0.666667 501GGN 0.666667 502GTA 0.666667 503GTC 0.666667 504GTG 0.666667 505GTT 0.666667 506GTN 0.666667 507GNA 0.666667 508GNC 0.666667 509GNG 0.666667 510GNT 0.833333 511GNN 0.708334 512TAA 1.333333 513TAC 0.666667 514TAG 2.000000 515TAT 0.666667 516TAN 1.16667 517TCA 1.333333 518TCC 0.666667 519TCG 1.333333 520TCT 0.666667 521TCN 1 522TGA 1.333333 523TGC 1.333333 524TGG 1.333333 525TGT 1.333333 526TGN 1.33333 527TTA 0.666667 528TTC 1.333333 529TTG 0.666667 530TTT 1.333333 531TTN 1 532TNA 1.16667 533TNC 1 534TNG 1.33333 535TNT 1 536TNN 1.125 537NAA 1.5 538NAC 0.833333 539NAG 1.66667 540NAT 1.16667 541NAN 1.29167 542NCA 0.833334 543NCC 0.666667 544NCG 1 545NCT 0.666667 546NCN 0.791667 547NGA 1.5 548NGC 0.833334 549NGG 0.833334 550NGT 1.33333 551NGN 1.125 552NTA 0.666667 553NTC 0.833334 554NTG 0.833333 555NTT 0.833334 556NTN 0.791667 557NNA 1.125 558NNC 0.791667 559NNG 1.08333 560NNT 1 561NNN 1 562end consensus 563type 3SS 564center 3 565phase all 566begin consensus 567TAG--- 1.64062 568-AG--- 0.229167 569end consensus 570type 3SS 571center 3 572phase 0 573begin consensus 574TAG--- 0.765625 575-AG--- 0.09375 576end consensus 577type 3SS 578center 3 579phase 1 580begin consensus 581TAG--- 0.515625 582-AG--- 0.0885417 583end consensus 584type 3SS 585center 3 586phase 2 587begin consensus 588-AG--- 0.125 589end consensus 590type 3SS_codon 591phase all 592begin consensus 593AAA 1.802817 594AAC 1.502347 595AAG 0.300469 596AAT 1.802817 597AAN 1.35211 598ACA 0.300469 599ACC 1.802817 600ACG 0.300469 601ACT 0.901408 602ACN 0.826291 603AGA 0.600939 604AGC 0.300469 605AGG 0.600939 606AGT 1.502347 607AGN 0.751173 608ATA 1.502347 609ATC 2.103286 610ATG 1.502347 611ATT 2.103286 612ATN 1.80282 613ANA 1.05164 614ANC 1.42723 615ANG 0.676056 616ANT 1.57746 617ANN 1.1831 618CAA 2.103286 619CAC 0.300469 620CAG 0.300469 621CAT 1.201878 622CAN 0.976526 623CCA 0.600939 624CCC 0.600939 625CCG 0.901408 626CCT 0.600939 627CCN 0.676056 628CGA 0.300469 629CGC 0.300469 630CGG 0.300469 631CGT 0.901408 632CGN 0.450704 633CTA 0.901408 634CTC 0.600939 635CTG 1.201878 636CTT 1.201878 637CTN 0.976526 638CNA 0.976526 639CNC 0.450704 640CNG 0.676056 641CNT 0.976526 642CNN 0.769953 643GAA 1.802817 644GAC 0.300469 645GAG 1.201878 646GAT 2.403756 647GAN 1.42723 648GCA 0.901408 649GCC 0.300469 650GCG 1.201878 651GCT 1.502347 652GCN 0.976526 653GGA 0.901408 654GGC 0.600939 655GGG 0.600939 656GGT 1.201878 657GGN 0.826291 658GTA 1.201878 659GTC 1.502347 660GTG 0.600939 661GTT 1.502347 662GTN 1.20188 663GNA 1.20188 664GNC 0.676056 665GNG 0.901408 666GNT 1.65258 667GNN 1.10798 668TAA 0.600939 669TAC 0.300469 670TAG 0.300469 671TAT 1.502347 672TAN 0.676056 673TCA 1.201878 674TCC 0.901408 675TCG 0.901408 676TCT 1.201878 677TCN 1.05164 678TGA 0.300469 679TGC 0.300469 680TGG 0.901408 681TGT 1.502347 682TGN 0.751173 683TTA 0.600939 684TTC 0.600939 685TTG 1.201878 686TTT 2.704225 687TTN 1.277 688TNA 0.676056 689TNC 0.525821 690TNG 0.826291 691TNT 1.7277 692TNN 0.938967 693NAA 1.57746 694NAC 0.600939 695NAG 0.525821 696NAT 1.7277 697NAN 1.10798 698NCA 0.751173 699NCC 0.901408 700NCG 0.826291 701NCT 1.05164 702NCN 0.882629 703NGA 0.525821 704NGC 0.375587 705NGG 0.600939 706NGT 1.277 707NGN 0.694835 708NTA 1.05164 709NTC 1.20188 710NTG 1.12676 711NTT 1.87793 712NTN 1.31455 713NNA 0.976526 714NNC 0.769953 715NNG 0.769953 716NNT 1.48357 717NNN 1 718end consensus 719type 3SS_codon 720phase 0 721begin consensus 722AAA 1.465649 723AAC 1.465649 724AAG 0.488550 725AAT 1.954198 726AAN 1.34351 727ACA 0.488550 728ACC 1.954198 729ACG 0.488550 730ACT 0.977099 731ACN 0.977099 732AGA 0.488550 733AGC 0.488550 734AGG 0.488550 735AGT 1.954198 736AGN 0.854962 737ATA 1.465649 738ATC 0.488550 739ATG 0.977099 740ATT 1.465649 741ATN 1.09924 742ANA 0.9771 743ANC 1.09924 744ANG 0.610687 745ANT 1.58779 746ANN 1.0687 747CAA 2.931298 748CAC 0.488550 749CAG 0.488550 750CAT 0.977099 751CAN 1.22137 752CCA 0.977099 753CCC 0.488550 754CCG 0.488550 755CCT 0.977099 756CCN 0.732824 757CGA 0.488550 758CGC 0.488550 759CGG 0.488550 760CGT 0.488550 761CGN 0.48855 762CTA 1.465649 763CTC 0.977099 764CTG 0.488550 765CTT 0.977099 766CTN 0.977099 767CNA 1.46565 768CNC 0.610687 769CNG 0.48855 770CNT 0.854962 771CNN 0.854962 772GAA 1.954198 773GAC 0.488550 774GAG 0.977099 775GAT 2.931298 776GAN 1.58779 777GCA 0.977099 778GCC 0.488550 779GCG 0.977099 780GCT 0.488550 781GCN 0.732824 782GGA 0.488550 783GGC 0.977099 784GGG 0.977099 785GGT 1.465649 786GGN 0.977099 787GTA 1.465649 788GTC 0.977099 789GTG 0.488550 790GTT 1.465649 791GTN 1.09924 792GNA 1.22137 793GNC 0.732824 794GNG 0.854962 795GNT 1.58779 796GNN 1.09924 797TAA 0.488550 798TAC 0.488550 799TAG 0.488550 800TAT 0.977099 801TAN 0.610687 802TCA 1.465649 803TCC 1.465649 804TCG 0.977099 805TCT 1.954198 806TCN 1.46565 807TGA 0.488550 808TGC 0.488550 809TGG 0.977099 810TGT 0.488550 811TGN 0.610687 812TTA 0.977099 813TTC 0.488550 814TTG 0.488550 815TTT 2.931298 816TTN 1.22137 817TNA 0.854962 818TNC 0.732825 819TNG 0.732824 820TNT 1.58779 821TNN 0.977099 822NAA 1.70992 823NAC 0.732825 824NAG 0.610687 825NAT 1.70992 826NAN 1.19084 827NCA 0.977099 828NCC 1.09924 829NCG 0.732824 830NCT 1.09924 831NCN 0.977099 832NGA 0.48855 833NGC 0.610687 834NGG 0.732824 835NGT 1.09924 836NGN 0.732825 837NTA 1.34351 838NTC 0.732824 839NTG 0.610687 840NTT 1.70992 841NTN 1.09924 842NNA 1.12977 843NNC 0.793893 844NNG 0.671756 845NNT 1.40458 846NNN 1 847end consensus 848type 3SS_codon 849phase 1 850begin consensus 851AAA 1.684211 852AAC 1.122807 853AAG 0.561404 854AAT 1.684211 855AAN 1.26316 856ACA 0.561404 857ACC 1.684211 858ACG 0.561404 859ACT 0.561404 860ACN 0.842106 861AGA 1.122807 862AGC 0.561404 863AGG 1.122807 864AGT 0.561404 865AGN 0.842106 866ATA 1.122807 867ATC 2.245614 868ATG 2.245614 869ATT 1.684211 870ATN 1.82456 871ANA 1.12281 872ANC 1.40351 873ANG 1.12281 874ANT 1.12281 875ANN 1.19298 876CAA 0.561404 877CAC 0.561404 878CAG 0.561404 879CAT 1.122807 880CAN 0.701755 881CCA 0.561404 882CCC 0.561404 883CCG 1.122807 884CCT 0.561404 885CCN 0.701755 886CGA 0.561404 887CGC 0.561404 888CGG 0.561404 889CGT 1.684211 890CGN 0.842106 891CTA 0.561404 892CTC 0.561404 893CTG 2.245614 894CTT 1.684211 895CTN 1.26316 896CNA 0.561404 897CNC 0.561404 898CNG 1.12281 899CNT 1.26316 900CNN 0.877193 901GAA 1.684211 902GAC 0.561404 903GAG 1.684211 904GAT 1.122807 905GAN 1.26316 906GCA 1.122807 907GCC 0.561404 908GCG 0.561404 909GCT 1.122807 910GCN 0.842105 911GGA 1.122807 912GGC 0.561404 913GGG 0.561404 914GGT 1.122807 915GGN 0.842105 916GTA 1.122807 917GTC 1.684211 918GTG 1.122807 919GTT 1.122807 920GTN 1.26316 921GNA 1.26316 922GNC 0.842106 923GNG 0.982457 924GNT 1.12281 925GNN 1.05263 926TAA 0.561404 927TAC 0.561404 928TAG 0.561404 929TAT 0.561404 930TAN 0.561404 931TCA 0.561404 932TCC 0.561404 933TCG 0.561404 934TCT 0.561404 935TCN 0.561404 936TGA 0.561404 937TGC 0.561404 938TGG 1.122807 939TGT 1.122807 940TGN 0.842105 941TTA 0.561404 942TTC 1.122807 943TTG 2.245614 944TTT 2.245614 945TTN 1.54386 946TNA 0.561404 947TNC 0.701755 948TNG 1.12281 949TNT 1.12281 950TNN 0.877193 951NAA 1.12281 952NAC 0.701755 953NAG 0.842106 954NAT 1.12281 955NAN 0.947369 956NCA 0.701755 957NCC 0.842106 958NCG 0.701755 959NCT 0.701755 960NCN 0.736842 961NGA 0.842106 962NGC 0.561404 963NGG 0.842105 964NGT 1.12281 965NGN 0.842106 966NTA 0.842106 967NTC 1.40351 968NTG 1.96491 969NTT 1.68421 970NTN 1.47368 971NNA 0.877193 972NNC 0.877193 973NNG 1.08772 974NNT 1.15789 975NNN 1 976end consensus 977type 3SS_codon 978phase 2 979begin consensus 980AAA 1.333333 981AAC 1.333333 982AAG 0.666667 983AAT 0.666667 984AAN 1 985ACA 0.666667 986ACC 0.666667 987ACG 0.666667 988ACT 1.333333 989ACN 0.833334 990AGA 0.666667 991AGC 0.666667 992AGG 0.666667 993AGT 1.333333 994AGN 0.833334 995ATA 1.333333 996ATC 2.666667 997ATG 0.666667 998ATT 2.000000 999ATN 1.66667 1000ANA 1 1001ANC 1.33333 1002ANG 0.666667 1003ANT 1.33333 1004ANN 1.08333 1005CAA 1.333333 1006CAC 0.666667 1007CAG 0.666667 1008CAT 1.333333 1009CAN 1 1010CCA 0.666667 1011CCC 1.333333 1012CCG 1.333333 1013CCT 0.666667 1014CCN 1 1015CGA 0.666667 1016CGC 0.666667 1017CGG 0.666667 1018CGT 0.666667 1019CGN 0.666667 1020CTA 0.666667 1021CTC 0.666667 1022CTG 0.666667 1023CTT 0.666667 1024CTN 0.666667 1025CNA 0.833333 1026CNC 0.833333 1027CNG 0.833333 1028CNT 0.833333 1029CNN 0.833334 1030GAA 0.666667 1031GAC 0.666667 1032GAG 0.666667 1033GAT 1.333333 1034GAN 0.833334 1035GCA 0.666667 1036GCC 0.666667 1037GCG 2.000000 1038GCT 2.666667 1039GCN 1.5 1040GGA 1.333333 1041GGC 0.666667 1042GGG 0.666667 1043GGT 0.666667 1044GGN 0.833333 1045GTA 0.666667 1046GTC 1.333333 1047GTG 0.666667 1048GTT 1.333333 1049GTN 1 1050GNA 0.833334 1051GNC 0.833334 1052GNG 1 1053GNT 1.5 1054GNN 1.04167 1055TAA 1.333333 1056TAC 0.666667 1057TAG 0.666667 1058TAT 2.666667 1059TAN 1.33333 1060TCA 1.333333 1061TCC 0.666667 1062TCG 1.333333 1063TCT 0.666667 1064TCN 1 1065TGA 0.666667 1066TGC 0.666667 1067TGG 0.666667 1068TGT 2.666667 1069TGN 1.16667 1070TTA 0.666667 1071TTC 0.666667 1072TTG 0.666667 1073TTT 0.666667 1074TTN 0.666667 1075TNA 1 1076TNC 0.666667 1077TNG 0.833333 1078TNT 1.66667 1079TNN 1.04167 1080NAA 1.16667 1081NAC 0.833333 1082NAG 0.666667 1083NAT 1.5 1084NAN 1.04167 1085NCA 0.833334 1086NCC 0.833333 1087NCG 1.33333 1088NCT 1.33333 1089NCN 1.08333 1090NGA 0.833334 1091NGC 0.666667 1092NGG 0.666667 1093NGT 1.33333 1094NGN 0.875 1095NTA 0.833333 1096NTC 1.33333 1097NTG 0.666667 1098NTT 1.16667 1099NTN 1 1100NNA 0.916667 1101NNC 0.916667 1102NNG 0.833334 1103NNT 1.33333 1104NNN 1 1105end consensus 1106type CDS 1107phase all 1108begin consensus 1109AAA 2.386335 1110AAC 1.053160 1111AAG 1.564912 1112AAT 1.686987 1113AAN 1.67285 1114ACA 0.987639 1115ACC 0.645552 1116ACG 0.588997 1117ACT 1.051091 1118ACN 0.81832 1119AGA 1.264206 1120AGC 0.831769 1121AGG 0.727625 1122AGT 0.865564 1123AGN 0.922291 1124ATA 0.993847 1125ATC 1.040746 1126ATG 1.394558 1127ATT 1.851134 1128ATN 1.32007 1129ANA 1.40801 1130ANC 0.892807 1131ANG 1.06902 1132ANT 1.36369 1133ANN 1.18338 1134CAA 1.498701 1135CAC 0.575203 1136CAG 0.708314 1137CAT 0.951086 1138CAN 0.933326 1139CCA 0.795215 1140CCC 0.491751 1141CCG 0.455887 1142CCT 0.832459 1143CCN 0.643828 1144CGA 0.706935 1145CGC 0.368985 1146CGG 0.354502 1147CGT 0.741419 1148CGN 0.54296 1149CTA 0.836597 1150CTC 0.861426 1151CTG 0.917980 1152CTT 1.436629 1153CTN 1.01316 1154CNA 0.959362 1155CNC 0.574341 1156CNG 0.609171 1157CNT 0.990398 1158CNN 0.783318 1159GAA 1.682160 1160GAC 0.641414 1161GAG 0.823493 1162GAT 1.255930 1163GAN 1.10075 1164GCA 0.793146 1165GCC 0.515890 1166GCG 0.364847 1167GCT 0.964880 1168GCN 0.659691 1169GGA 0.946258 1170GGC 0.470370 1171GGG 0.352433 1172GGT 0.846942 1173GGN 0.654001 1174GTA 0.737281 1175GTC 0.688313 1176GTG 0.724867 1177GTT 1.275931 1178GTN 0.856598 1179GNA 1.03971 1180GNC 0.578997 1181GNG 0.56641 1182GNT 1.08592 1183GNN 0.81776 1184TAA 1.130406 1185TAC 0.999364 1186TAG 0.591066 1187TAT 1.385592 1188TAN 1.02661 1189TCA 1.159373 1190TCC 0.921429 1191TCG 0.764179 1192TCT 1.205582 1193TCN 1.01264 1194TGA 1.487666 1195TGC 0.967638 1196TGG 1.180064 1197TGT 0.966949 1198TGN 1.15058 1199TTA 1.538704 1200TTC 1.455251 1201TTG 1.566981 1202TTT 2.128391 1203TTN 1.67233 1204TNA 1.32904 1205TNC 1.08592 1206TNG 1.02557 1207TNT 1.42163 1208TNN 1.21554 1209NAA 1.6744 1210NAC 0.817285 1211NAG 0.921946 1212NAT 1.3199 1213NAN 1.18338 1214NCA 0.933843 1215NCC 0.643655 1216NCG 0.543477 1217NCT 1.0135 1218NCN 0.78362 1219NGA 1.10127 1220NGC 0.65969 1221NGG 0.653656 1222NGT 0.855218 1223NGN 0.817458 1224NTA 1.02661 1225NTC 1.01143 1226NTG 1.1511 1227NTT 1.67302 1228NTN 1.21554 1229NNA 1.18403 1230NNC 0.783016 1231NNG 0.817544 1232NNT 1.21541 1233NNN 1 1234end consensus 1235type CDS 1236phase 0 1237begin consensus 1238AAA 2.488005 1239AAC 1.039424 1240AAG 1.727552 1241AAT 2.175971 1242AAN 1.85774 1243ACA 0.874108 1244ACC 0.690194 1245ACG 0.386426 1246ACT 1.630428 1247ACN 0.895289 1248AGA 0.702593 1249AGC 0.514546 1250AGG 0.276904 1251AGT 0.880307 1252AGN 0.593587 1253ATA 0.741855 1254ATC 0.721191 1255ATG 1.264667 1256ATT 2.516935 1257ATN 1.31116 1258ANA 1.20164 1259ANC 0.741339 1260ANG 0.913887 1261ANT 1.80091 1262ANN 1.16444 1263CAA 1.702754 1264CAC 0.394692 1265CAG 0.702593 1266CAT 1.045623 1267CAN 0.961415 1268CCA 0.774918 1269CCC 0.566207 1270CCG 0.258306 1271CCT 1.444448 1272CCN 0.76097 1273CGA 0.481483 1274CGC 0.421556 1275CGG 0.171515 1276CGT 1.318395 1277CGN 0.598237 1278CTA 0.506280 1279CTC 0.477350 1280CTG 0.343031 1281CTT 1.657292 1282CTN 0.745988 1283CNA 0.866359 1284CNC 0.464951 1285CNG 0.368861 1286CNT 1.36644 1287CNN 0.766653 1288GAA 2.884763 1289GAC 1.039424 1290GAG 1.504375 1291GAT 2.576862 1292GAN 2.00136 1293GCA 1.004294 1294GCC 0.745988 1295GCG 0.291369 1296GCT 1.905266 1297GCN 0.986729 1298GGA 1.049756 1299GGC 0.599270 1300GGG 0.264506 1301GGT 1.582900 1302GGN 0.874108 1303GTA 0.762520 1304GTC 0.750121 1305GTG 0.495948 1306GTT 2.006522 1307GTN 1.00378 1308GNA 1.42533 1309GNC 0.783701 1310GNG 0.639049 1311GNT 2.01789 1312GNN 1.21649 1313TAA 0.000000 1314TAC 0.770786 1315TAG 0.000000 1316TAT 1.477511 1317TAN 0.562074 1318TCA 1.024959 1319TCC 0.772852 1320TCG 0.415356 1321TCT 1.826741 1322TCN 1.00998 1323TGA 0.000000 1324TGC 0.322366 1325TGG 0.588938 1326TGT 0.485616 1327TGN 0.34923 1328TTA 1.630428 1329TTC 0.907171 1330TTG 1.450647 1331TTT 1.965193 1332TTN 1.48836 1333TNA 0.663847 1334TNC 0.693294 1335TNG 0.613735 1336TNT 1.43877 1337TNN 0.85241 1338NAA 1.76888 1339NAC 0.811082 1340NAG 0.98363 1341NAT 1.81899 1342NAN 1.34565 1343NCA 0.91957 1344NCC 0.69381 1345NCG 0.337864 1346NCT 1.70172 1347NCN 0.913241 1348NGA 0.558458 1349NGC 0.464434 1350NGG 0.325466 1351NGT 1.0668 1352NGN 0.603791 1353NTA 0.910271 1354NTC 0.713958 1355NTG 0.888573 1356NTT 2.03649 1357NTN 1.13732 1358NNA 1.03929 1359NNC 0.670821 1360NNG 0.633883 1361NNT 1.656 1362NNN 1 1363end consensus 1364type CDS 1365phase 1 1366begin consensus 1367AAA 2.349249 1368AAC 1.177724 1369AAG 2.219080 1370AAT 1.330621 1371AAN 1.76917 1372ACA 1.167393 1373ACC 0.504148 1374ACG 0.816142 1375ACT 0.756223 1376ACN 0.810976 1377AGA 1.086812 1378AGC 0.979370 1379AGG 1.134334 1380AGT 0.735561 1381AGN 0.984019 1382ATA 1.694270 1383ATC 1.365747 1384ATG 2.539338 1385ATT 1.675674 1386ATN 1.81876 1387ANA 1.57443 1388ANC 1.00675 1389ANG 1.67722 1390ANT 1.12452 1391ANN 1.34573 1392CAA 1.200452 1393CAC 0.667377 1394CAG 1.028959 1395CAT 0.781017 1396CAN 0.919451 1397CCA 0.997966 1398CCC 0.456626 1399CCG 0.727296 1400CCT 0.595061 1401CCN 0.694237 1402CGA 0.435964 1403CGC 0.227280 1404CGG 0.378111 1405CGT 0.309927 1406CGN 0.337821 1407CTA 1.661211 1408CTC 1.413269 1409CTG 2.157094 1410CTT 1.576497 1411CTN 1.70202 1412CNA 1.0739 1413CNC 0.691138 1414CNG 1.07286 1415CNT 0.815626 1416CNN 0.913382 1417GAA 0.865730 1418GAC 0.384310 1419GAG 0.545472 1420GAT 0.440097 1421GAN 0.558902 1422GCA 0.615722 1423GCC 0.355383 1424GCG 0.475222 1425GCT 0.411170 1426GCN 0.464374 1427GGA 0.407038 1428GGC 0.245876 1429GGG 0.334722 1430GGT 0.314060 1431GGN 0.325424 1432GTA 1.076481 1433GTC 0.791348 1434GTG 1.504181 1435GTT 0.894657 1436GTN 1.06667 1437GNA 0.741243 1438GNC 0.444229 1439GNG 0.714899 1440GNT 0.514996 1441GNN 0.603842 1442TAA 1.140533 1443TAC 0.768620 1444TAG 0.964907 1445TAT 0.766554 1446TAN 0.910154 1447TCA 0.896723 1448TCC 0.595061 1449TCG 0.760355 1450TCT 0.603325 1451TCN 0.713866 1452TGA 1.037224 1453TGC 0.665311 1454TGG 1.208717 1455TGT 0.640517 1456TGN 0.887942 1457TTA 1.993866 1458TTC 1.686005 1459TTG 2.652978 1460TTT 1.812042 1461TTN 2.03622 1462TNA 1.26709 1463TNC 0.928749 1464TNG 1.39674 1465TNT 0.95561 1466TNN 1.13705 1467NAA 1.38899 1468NAC 0.749508 1469NAG 1.1896 1470NAT 0.829572 1471NAN 1.03942 1472NCA 0.919451 1473NCC 0.477804 1474NCG 0.694754 1475NCT 0.591445 1476NCN 0.670863 1477NGA 0.741759 1478NGC 0.529459 1479NGG 0.763971 1480NGT 0.500016 1481NGN 0.633801 1482NTA 1.60646 1483NTC 1.31409 1484NTG 2.2134 1485NTT 1.48972 1486NTN 1.65592 1487NNA 1.16416 1488NNC 0.767716 1489NNG 1.21543 1490NNT 0.852688 1491NNN 1 1492end consensus 1493type CDS 1494phase 2 1495begin consensus 1496AAA 2.316265 1497AAC 0.942210 1498AAG 0.745916 1499AAT 1.551753 1500AAN 1.38904 1501ACA 0.921547 1502ACC 0.743850 1503ACG 0.566152 1504ACT 0.766578 1505ACN 0.749532 1506AGA 2.002195 1507AGC 1.002131 1508AGG 0.772777 1509AGT 0.981468 1510AGN 1.18964 1511ATA 0.545490 1512ATC 1.035191 1513ATG 0.378124 1514ATT 1.357526 1515ATN 0.829083 1516ANA 1.44637 1517ANC 0.930845 1518ANG 0.615742 1519ANT 1.16433 1520ANN 1.03932 1521CAA 1.591012 1522CAC 0.665332 1523CAG 0.394654 1524CAT 1.026926 1525CAN 0.919481 1526CCA 0.613676 1527CCC 0.454575 1528CCG 0.384322 1529CCT 0.458707 1530CCN 0.47782 1531CGA 1.204623 1532CGC 0.460774 1533CGG 0.516562 1534CGT 0.597146 1535CGN 0.694776 1536CTA 0.342997 1537CTC 0.694260 1538CTG 0.254149 1539CTT 1.074450 1540CTN 0.591464 1541CNA 0.938077 1542CNC 0.568735 1543CNG 0.387422 1544CNT 0.789307 1545CNN 0.670885 1546GAA 1.293472 1547GAC 0.502099 1548GAG 0.421515 1549GAT 0.750048 1550GAN 0.741783 1551GCA 0.760380 1552GCC 0.448376 1553GCG 0.330600 1554GCT 0.578550 1555GCN 0.529477 1556GGA 1.382321 1557GGC 0.568219 1558GGG 0.460774 1559GGT 0.644670 1560GGN 0.763996 1561GTA 0.373991 1562GTC 0.524827 1563GTG 0.175631 1564GTT 0.925680 1565GTN 0.500032 1566GNA 0.952541 1567GNC 0.51088 1568GNG 0.34713 1569GNT 0.724737 1570GNN 0.633822 1571TAA 2.248079 1572TAC 1.458772 1573TAG 0.807903 1574TAT 1.911280 1575TAN 1.60651 1576TCA 1.555886 1577TCC 1.396784 1578TCG 1.117841 1579TCT 1.186027 1580TCN 1.31413 1581TGA 3.421709 1582TGC 1.915413 1583TGG 1.741848 1584TGT 1.774908 1585TGN 2.21347 1586TTA 0.989733 1587TTC 1.770775 1588TTG 0.595080 1589TTT 2.603474 1590TTN 1.48977 1591TNA 2.05385 1592TNC 1.63544 1593TNG 1.06567 1594TNT 1.86892 1595TNN 1.65597 1596NAA 1.86221 1597NAC 0.892103 1598NAG 0.592497 1599NAT 1.31 1600NAN 1.1642 1601NCA 0.962872 1602NCC 0.760896 1603NCG 0.599729 1604NCT 0.747465 1605NCN 0.767741 1606NGA 2.00271 1607NGC 0.986634 1608NGG 0.87299 1609NGT 0.999548 1610NGN 1.21547 1611NTA 0.563053 1612NTC 1.00626 1613NTG 0.350746 1614NTT 1.49028 1615NTN 0.852586 1616NNA 1.34771 1617NNC 0.911474 1618NNG 0.603991 1619NNT 1.13682 1620NNN 1 1621end consensus 1622type Intron_Corr_Term 1623phase all 1624 225.12 1625type Intron_Corr_Term 1626phase 0 1627 524.049 1628type Intron_Corr_Term 1629phase 1 1630 652.388 1631type Intron_Corr_Term 1632phase 2 1633 998.969 1634type Intron_emission 1635begin consensus 1636A 1.233115 1637C 0.595593 1638G 0.670399 1639T 1.500893 1640end consensus 1641type Pyrimidine_emission 1642begin consensus 1643A 0.261549 1644C 0.869936 1645G 0.127932 1646T 2.740583 1647end consensus 1648type Spacer_emission 1649begin consensus 1650A 1.495231 1651C 0.607484 1652G 0.513573 1653T 1.383712 1654end consensus 1655type Intron_Stay_Prob 1656 0.988929 1657type Central_Intron_Stay_Prob 1658 0.983466 1659type Pyrimidine_Stay_Prob 1660 0.904578 1661type No_Spacer_Prob 1662 0.0743243 1663type Spacer_Stay_Prob 1664 0.952081 1665