Mercurial > repos > ucsb-phylogenetics > osiris_phylogenetics
diff orthologs/ucsb_hamster/lib/wisecfg/worm.gf @ 0:5b9a38ec4a39 draft default tip
First commit of old repositories
author | osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu> |
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date | Tue, 11 Mar 2014 12:19:13 -0700 |
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children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/orthologs/ucsb_hamster/lib/wisecfg/worm.gf Tue Mar 11 12:19:13 2014 -0700 @@ -0,0 +1,898 @@ +# Splice sites and intron regions information for GeneWise-21 +# Tue Jan 14 16:50:39 IST 1997 +# Created by Mor Amitai (mor@compugen.co.il) +# dataset : C.Elegans data from the Sanger Centre. given by Ewan Birney +# preliminary results. For Ewan's use only +# Consensi are read from top down. The value, for a sequence, +# is the number in the line of the first consensus that +# matches the sequence. +# Note: the set of sequences that are represented by a consensus +# are all the sequences that match this consensus and none of the +# previous consensi +# +# the numbers in types 5SS, 3SS, CDS, and the emissions are the number of +# occurrences of each sequence in the database. +# In case of a consensus this is the number of occurrences of sequences +# that are represented by the consensus in the database divided by the +# number of sequences that are represented by the consensus. +# *stay_prob is the probability of the transition from the state to itself. +# No_Spacer_Prob is the probability of transition from Pyrimidine directly +# to 3SS (no spacer). +type 5SS +center 3 +phase all +begin consensus +AAAGTGAGTT 61 +GATGTAAGTT 51 +A-TGTAAGTT 28.25 +-AAGTGAGTT 28 +-AAGTAAGTT 24.75 +A-AGTGAGTT 22.3333 +AA-GTGAGTT 22 +TTGGT-AGTT 20.25 +AAGGTTTGT- 19.75 +-AGGTAATTT 19.25 +T-TGTAAGTT 19 +A-AGTAAGTT 18.3333 +AT-GTGAGTT 17 +GA-GTGAGTT 17 +-AGGTAAATT 16.75 +A-GGTTAGTT 16.75 +AAGGTAA-AA 13.5 +AAGGTAA-AT 13.25 +T--GTAAGTT 10.4 +-A-GTAAGTT 11.1429 +-T-GTAAGTT 10.3 +--GGTGAGTT 10.1667 +--AGTGAGTT 9.22222 +-C-GTAAGTT 8.8 +-T-GTGAGTT 8.33333 +--GGTTAGTT 8 +AA-GTAAG-A 7.73333 +-AGGTTTGT- 7.41667 +-AGGTGAG-A 7.0625 +CAGGTAA-A- 6.5625 +AA-GTA-GTT 6.5 +-A-GTTAGTT 6.41667 +-G-GTAAGTT 6.4 +-AGGTATTT- 6 +AA-GTAAG-T 5.54545 +-AGGTAAA-A 5.5 +-AAGTAAGT- 5.45455 +-A-GTAAGAA 5.36364 +--GGTATGTT 5.26667 +-TGGTGAGT- 5.25 +-AAGTGAGT- 5.16667 +-ATGTAAGT- 5.09091 +AAGGT-AGT- 5.09091 +-AGGTGAGA- 4.75 +-TGGTAAGT- 4.58333 +-AGGTAATT- 4.5 +-AGGTATGT- 4.41667 +--GGTAAGAT 4.28571 +--GGTAAGAA 4.25 +---GTGAGTT 4.2 +--GGTTGGTT 3.5625 +-AGGTTTGA- 3.4375 +A--GTAAGT- 3.28571 +AAGGTAT-A- 3.125 +-AGGT-AGT- 2.61111 +--GGTAA-TT 2.575 +T--GTAAGT- 2.5 +--GGTT-GTT 2.42857 +-A-GTA-GTT 2.42424 +-AGGTAAG-- 2.23529 +---GTTAGTT 2.16667 +---GTAAGAT 2.04444 +A--GTGAGT- 1.97436 +A--GTA-GTT 1.9697 +-AGGTA--TT 1.84375 +-AGGTAA-A- 1.82143 +C--GTAAGT- 1.80556 +AA-GTGAG-- 1.7619 +AAGGTA---A 1.7234 +--GGTGAG-A 1.64286 +G--GTAAGT- 1.63889 +T--GTA-GTT 1.63636 +-TGGTAAG-- 1.625 +CAGGTA---A 1.54902 +--GGTGAG-T 1.54762 +AAGGTA---T 1.52632 +AAGGTT-G-- 1.46 +AA-GT-A-TT 1.45833 +CAGGTA---T 1.42857 +A--GTAAGA- 1.37838 +---GTGAGTG 1.35897 +-AGGTG-GT- 1.16667 +--GGTATG-A 1.07407 +-AGGTT-TT- 0.952381 +-A-GTAAG-- 0.794118 +-AGGTAA--- 0.790698 +--GGTA-GT- 0.734375 +-A-GT-AGT- 0.731183 +--GGT-AGT- 0.696629 +-AGGTA-G-- 0.66 +---GTAAG-A 0.643478 +-AGGT-AG-- 0.59375 +--GGTA-G-T 0.58871 +--GGTAA--A 0.583333 +AA-GTA-G-- 0.555556 +-AGGTAT--- 0.532787 +-A-GT--GTT 0.525 +--GGTT-GT- 0.515873 +-A-GTGAG-- 0.481481 +--GGTAA-A- 0.466667 +-AGGT-A-T- 0.466667 +-A-GTAA-T- 0.407407 +---GTGAG-A 0.4 +-AGGTTT--- 0.39 +A-GGTA--T- 0.362319 +---GTATGT- 0.326797 +---GTAAG-- 0.221854 +-AAGTA--A- 0.219298 +---GT--GTT 0.209402 +--GGTA-G-- 0.1875 +--GGT-AG-- 0.155556 +--GGTA--T- 0.15493 +-AGGT---A- 0.1375 +A--GTAA--- 0.116838 +-A-GTA--T- 0.109053 +---GTT-GT- 0.0944444 +-AAGT-A--- 0.0761905 +---GT--GAT 0.0670886 +-AGGT----- 0.0541575 +--GGTA---- 0.0411523 +---GTA-G-- 0.037037 +---GTAA--- 0.0363757 +---GT-A-T- 0.0309423 +A--GT----T 0.0201761 +---GTG-G-- 0.0192593 +---GT--G-- 0.00953471 +---GT---T- 0.0090535 +---GT----- 0.00283019 +end consensus +type 5SS +center 3 +phase 0 +begin consensus +GATGTAAGTT 43 +AA-GTGAGTT 15.25 +A-TGTAAGTT 14.75 +AAGGTTTGT- 13.5 +GA-GTGAGTT 11.25 +AAGGTAA-TT 11 +CAGGTAA-TT 10.25 +A-AGTAAGTT 9.5 +-AGGTTAGTT 9 +-TGGTGAGTT 9 +AAGGTAA-AT 8.75 +GC-GTAAGTT 8.5 +T-TGTAAGTT 8.5 +-AGGTATTTT 7.75 +A--GTGAGTT 5.90909 +--GGTAAGTT 4.92308 +-A-GTAAGTT 5.25 +--GGTTAGTT 4.66667 +AAGGTAA--A 4.5 +-AGGTTTGT- 4.25 +--GGTGAGTT 4.125 +-A-GTAAGAA 3.73333 +AAGGTT-GT- 3.54545 +-AGGTGAGA- 3.5 +-ATGTAAGT- 3.41667 +--GGTATGTT 3.3125 +GAGGTAA-T- 3.26667 +CA-GT-AGTT 3.2 +-AGGTAAAA- 3.14286 +-TGGTGAGT- 2.75 +CAGGTAA--A 2.71429 +-AGGTGAG-A 2.66667 +-ATGTA-GTT 2.66667 +AAGGTAT-T- 2.5 +AAGGTT-GA- 2.4375 +CAGGTAT-T- 2.35714 +---GTAAGTT 2.29167 +--GGTAAGAT 2.26667 +---GTGAGTT 1.7 +-A-GT-AGTT 1.47619 +AA-GTAAG-- 1.40816 +-AGGTGAG-- 1.40625 +--TGTAAGT- 1.38889 +--GGTAAG-A 1.32075 +--GGTT-GTT 1.21429 +-A-GTGAGT- 1.16667 +--GGTAA-TT 1.12821 +AAGGTAT--- 1.125 +A--GTA-GTT 1.09756 +CAGGTA---T 1.05556 +AAGGTA---T 1 +CAGGT--GT- 1 +GAGGTA--T- 0.956522 +A-GGTA-GT- 0.871795 +AAGGT-A-T- 0.866667 +CAGGTA--A- 0.857143 +GA-GTAAG-- 0.829787 +-AGGTTTG-- 0.818182 +A--GTAAGA- 0.809524 +--GGTGAG-A 0.795455 +-A-GTGAGA- 0.75 +-TGGTA-G-T 0.74 +GAGGTAT--- 0.729167 +--GGT-AGTG 0.695652 +--AGTAAG-A 0.607843 +-AGGTTTT-- 0.546875 +---GT-AGTT 0.488095 +---GTAAGT- 0.45 +---GTA-GTT 0.415929 +---GTGAGT- 0.413793 +AAGGTA---- 0.40566 +CAGGTA---- 0.375 +GAGGTA---- 0.367188 +-AGGTT-G-- 0.337838 +--GGT-AG-T 0.289855 +-A-GT-A-TT 0.28655 +---GTAAG-T 0.282051 +--GGTAA-T- 0.264957 +--GGTATG-- 0.264368 +AA-GT--GT- 0.259887 +--GGTAA-A- 0.244186 +A--GTAA--A 0.212644 +-ATGTA-G-- 0.171123 +-A-GTGA--A 0.15493 +--GGT--GT- 0.107914 +-AGGTT---- 0.0951684 +--GGTA-G-- 0.0941176 +-A-GT-AG-- 0.0711297 +--GGTA--T- 0.0663812 +-AAGTA---- 0.0590164 +---GTT-GT- 0.0509259 +--TGTAA--- 0.0499376 +-AGGTG---- 0.0425532 +--GGTA---- 0.0223793 +---GT-AG-- 0.0221502 +---GTA-G-- 0.0173088 +---GT-A-T- 0.0157715 +A--GT----T 0.0103437 +---GT--G-- 0.00594251 +---GT---T- 0.00467836 +---GT----- 0.00116399 +end consensus +type 5SS +center 3 +phase 1 +begin consensus +A-AGTGAGTT 9.25 +TT-GTAAGTT 9.25 +-TGGTGAGTT 8.25 +A-TGTAAGTT 8 +-T-GTAAGTT 5.09091 +--AGTGAGTT 4.33333 +A--GTAAGTT 3.66667 +--GGTTAGTT 3.125 +-AGGTAA-TT 2.66667 +TTGGTAAG-- 2.2 +--GGTTTGTT 2.1875 +CA-GTAAGT- 2.06667 +T--GTAAGTT 2.81818 +--GGTGAGTA 1.9375 +---GTGAGTT 1.70455 +-AGGTAA-A- 1.17188 +A--GTAAGT- 1.16667 +--AGT-AGTT 1 +-TGGTAAG-- 0.928571 +AA-GTAAG-- 0.909091 +--GGTA-GTT 0.884615 +---GTAAGTA 0.878049 +--GGTGAGA- 0.796875 +A--GTGAGT- 0.727273 +AAGGTAT--- 0.714286 +-TGGTT-GT- 0.696429 +--AGTA-GTT 0.6875 +---GTAAGAT 0.679245 +-AGGTT-GT- 0.660714 +---GTAAGT- 0.521739 +--GGTATG-A 0.516667 +-AGGTAA--- 0.403846 +--GGTGAG-- 0.342105 +--GGTA--TT 0.316384 +A--GT--GTT 0.283333 +---GTAAG-A 0.245283 +-AGGTA-G-- 0.228758 +-TGGTA-G-- 0.207317 +-A-GTGAG-- 0.19883 +-AGGTT-G-- 0.1875 +-TGGTAA--- 0.183333 +-AGGTG--T- 0.130802 +-AGGTA---- 0.109091 +---GT-AGT- 0.103792 +---GTAAG-- 0.103774 +---GT--GTT 0.0700637 +-A-GTA--T- 0.0614035 +-AGGTT---- 0.0442708 +---GTATG-- 0.0401554 +--GGTA---- 0.0193694 +--GGT--G-- 0.0173797 +A--GT-A--- 0.0144654 +---GT-A--- 0.0048218 +---GT--G-- 0.00395005 +---GT----- 0.00155651 +end consensus +type 5SS +center 3 +phase 2 +begin consensus +-AAGTGAGTT 17.25 +-AAGTAAGTT 13.75 +-GAGTGAGTT 8.5 +TG-GTAAGTT 7.75 +A--GTAAGTT 4.26667 +T--GTAAGTT 4.09091 +-A-GTGAGTT 3.58333 +T--GTGAGTT 3.09091 +-AAGTAAGT- 3.08333 +-AAGTGAGT- 3 +A--GTGAGTT 2.90909 +-A-GTTAGTT 2.6875 +-AGGTAA-TT 2.5 +-A-GTAAGAA 2.4375 +-A-GTAAGAT 2.1875 +-A-GTATGTT 2.125 +A--GTAAGT- 1.24444 +--TGTAAGT- 1.13636 +--AGT-AGTT 1.13158 +-AGGTGAG-- 1.03333 +-AGGTAA--A 0.983051 +-AGGTT-GT- 0.966667 +--CGT-AGTT 0.857143 +-G-GTA-GTT 0.7 +--GGTAAGA- 0.660714 +--GGTT-GTT 0.645833 +-AGGTA-TT- 0.642857 +T--GT-AGTA 0.581818 +---GTAAGT- 0.5 +---GTA-GTT 0.429688 +---GTGAGT- 0.427711 +-A-GTAAG-- 0.381944 +-AGGTAA--- 0.298387 +-AGGTA-G-- 0.272222 +A--GTAAG-- 0.25 +-A-GT--GTT 0.228571 +-AAGTA-G-- 0.2 +---GTAA-TT 0.194444 +---GTGAG-A 0.194444 +---GTTAGT- 0.19209 +-AGGTTT--- 0.158333 +---GT-AGAT 0.153488 +-AGGTA---- 0.100379 +---GTAAG-- 0.097561 +--GGTAA--- 0.0759259 +-A-GT-A-T- 0.0700549 +--GGT--GT- 0.0628019 +AA-GTA---- 0.052381 +---GTATG-- 0.0413437 +--GGT--G-- 0.0202815 +-A-GT-A--- 0.0149254 +---GT---TT 0.0146813 +---GT---T- 0.00532449 +---GTA---- 0.00401891 +---GT----- 0.00131086 +end consensus +type 3SS +center 3 +phase all +begin consensus +CAGAAA 372 +CAGATT 316 +CAGATG 290 +CAGATC 263 +CAGGAA 253 +CAGAAT 246 +CAGAAC 221 +CAGGTT 218 +CAGATA 215 +CAGAGA 200 +CAGGAT 175 +CAGAAG 167 +CAGACA 160 +CAGCAA 158 +CAGACT 151 +CAGGT- 148.667 +CAGGAG 139 +CAGCTC 129 +CAGAGT 127 +CAGGCT 125 +CAGGCA 124 +CAGCTT 116 +CAG-TC 115 +CAGAGC 112 +CAGGGA 112 +CAGACG 109 +CAGCCA 106 +CAG-TT 100 +CAGGAC 100 +CAGCTG 96 +CAGCAT 95 +CAGACC 90 +CAGTGA 89 +CAGCTA 85 +CAGGGT 85 +CAGCAC 80 +TAGAAA 80 +CAGGCC 77 +CAG-TG 73 +CAGAGG 72 +CAG-CA 70 +TAGGAA 66 +CAGGCG 65 +CAG-AC 62 +CAGTTA 62 +CAG-AT 61 +CAGTG- 60.3333 +CAGCGT 55 +TAGGTT 53 +TAGAAT 51 +CAGCCG 50 +TAGAT- 49.25 +CAGTC- 43 +TAGGT- 40.6667 +CAGC-- 37 +TAGG-T 32.3333 +TAGAC- 24.75 +TAG-AC 19.25 +TAG-CA 19 +TAG-GA 17.5 +TAGCT- 16 +-AGGGC 15 +AAGGT- 14.25 +TAG-A- 13 +AAGAT- 12.5 +TAG--T 10 +TAG--- 7.9375 +AAGA-- 5.25 +AAGG-- 4.63636 +AAG--- 1.84375 +-AG--- 1.60606 +end consensus +type 3SS +center 3 +phase 0 +begin consensus +CAGAAA 167 +CAGATT 160 +CAGGTT 160 +CAGATG 145 +CAGATC 143 +CAGGAA 139 +CAGAAT 113 +CAGGAT 111 +CAGAAC 100 +CAGGT- 86.3333 +CAGGCT 82 +CAGGCA 80 +CAGA-A 79.3333 +CAGCTT 79 +CAGGGA 79 +CAGGAG 77 +CAGCAA 75 +CAGCTC 72 +CAGACT 70 +CAGCCA 64 +CAGGGT 59 +CAGAAG 58 +CAG-TC 57 +CAGAGT 49 +CAG-AC 48.6667 +CAGGCC 48 +CAG-TT 45 +CAGACC 45 +TAGGAA 41 +CAGAGC 39 +CAGCAT 34 +CAGGCG 33 +CAGTTG 33 +TAGAAA 33 +TAGGAT 33 +TAGGT- 26.75 +CAG-TA 26 +TAGAT- 23.25 +CAGT-T 21.6667 +CAG-C- 19.7143 +CAG-GC 16.6667 +CAGC-- 15.2 +TAGAA- 14.6667 +TAGG-- 12.2 +TAGAC- 10 +AAGGT- 9.5 +TAG-T- 6.375 +TAG--A 5.85714 +CAG-GG 10 +TAG--T 4.57143 +AAGG-- 3.16667 +AAGA-- 2.875 +-AG--- 0.575221 +end consensus +type 3SS +center 3 +phase 1 +begin consensus +CAGATG 88 +CAGAAA 86 +CAGGAA 80 +CAGGTG 60 +CAGAA- 56.6667 +CAGAT- 56.3333 +CAGCTG 55 +CAGACG 53 +CAGGAG 52 +CAGCAA 43 +CAGGAT 43 +CAG-TC 37.3333 +CAGACT 33 +CAG-T- 26.8571 +CAGT-A 23.6667 +CAG-CA 24.6667 +CAG-AT 24 +CAGAG- 22 +CAG-CG 21.3333 +CAGTG- 19.6667 +CAG-AC 19 +CAG-CT 15 +TAG-AA 12.75 +TAGAT- 12.5 +CAG-CC 11.25 +CAGCG- 11.75 +TAGGT- 9.25 +CAGGG- 8 +TAGA-- 6 +TAG-T- 4.375 +TAGG-- 4.27273 +-AGCA- 2.75 +TAG--- 2.10526 +-AG-A- 1.44 +AAG--- 0.875 +-AG--- 0.145833 +end consensus +type 3SS +center 3 +phase 2 +begin consensus +CAGAAA 119 +CAGAGA 114 +CAGATT 100 +CAGAAT 79 +CAGAAC 76 +CAGAT- 66.3333 +CAGTGA 60 +CAGAG- 49 +CAGCAA 40 +CAGAAG 38 +CAGAC- 36.5 +CAG--A 23.1 +CAGTG- 24 +CAG--T 20 +TAGA-A 17.5 +CAG-TG 16.3333 +CAG--C 14.5455 +TAGA-T 12.5 +CAG--G 8.875 +TAGA-C 8.5 +TAGG-A 8.5 +TAG-T- 4.33333 +AAGA-- 2.5 +TAG--- 2.5 +AAG--- 0.6875 +-AG--- 0.15625 +end consensus +type CDS +phase all +begin consensus +AAA 84633.000000 +AAC 46592.000000 +AAG 60437.000000 +AAT 62516.000000 +ACA 46370.000000 +ACC 24553.000000 +ACG 26490.000000 +ACT 35930.000000 +AGA 58310.000000 +AGC 33692.000000 +AGG 25680.000000 +AGT 32467.000000 +ATA 28413.000000 +ATC 49079.000000 +ATG 55085.000000 +ATT 57612.000000 +CAA 70444.000000 +CAC 32088.000000 +CAG 36967.000000 +CAT 39211.000000 +CCA 41062.000000 +CCC 12109.000000 +CCG 20902.000000 +CCT 16745.000000 +CGA 38937.000000 +CGC 16213.000000 +CGG 19184.000000 +CGT 23512.000000 +CTA 19576.000000 +CTC 36258.000000 +CTG 35452.000000 +CTT 37193.000000 +GAA 78165.000000 +GAC 30372.000000 +GAG 41478.000000 +GAT 54272.000000 +GCA 33687.000000 +GCC 21235.000000 +GCG 14088.000000 +GCT 33925.000000 +GGA 53236.000000 +GGC 16915.000000 +GGG 11380.000000 +GGT 18746.000000 +GTA 18214.000000 +GTC 27126.000000 +GTG 28827.000000 +GTT 37436.000000 +TAA 21016.000000 +TAC 24215.000000 +TAG 11205.000000 +TAT 34251.000000 +TCA 57624.000000 +TCC 32884.000000 +TCG 36367.000000 +TCT 41910.000000 +TGA 53826.000000 +TGC 36079.000000 +TGG 43985.000000 +TGT 36905.000000 +TTA 24513.000000 +TTC 56201.000000 +TTG 51452.000000 +TTT 46581.000000 +end consensus +type CDS +phase 0 +begin consensus +AAA 29214.000000 +AAC 14368.000000 +AAG 21430.000000 +AAT 23711.000000 +ACA 15287.000000 +ACC 7556.000000 +ACG 6113.000000 +ACT 15236.000000 +AGA 13083.000000 +AGC 6073.000000 +AGG 2390.000000 +AGT 9505.000000 +ATA 5289.000000 +ATC 14308.000000 +ATG 19502.000000 +ATT 24404.000000 +CAA 23759.000000 +CAC 6982.000000 +CAG 11123.000000 +CAT 11541.000000 +CCA 22932.000000 +CCC 2834.000000 +CCG 6380.000000 +CCT 7320.000000 +CGA 9565.000000 +CGC 4160.000000 +CGG 2879.000000 +CGT 10219.000000 +CTA 5048.000000 +CTC 11747.000000 +CTG 8079.000000 +CTT 18194.000000 +GAA 35701.000000 +GAC 13432.000000 +GAG 19257.000000 +GAT 31475.000000 +GCA 16802.000000 +GCC 10031.000000 +GCG 5651.000000 +GCT 20774.000000 +GGA 28462.000000 +GGC 4276.000000 +GGG 2708.000000 +GGT 9185.000000 +GTA 7376.000000 +GTC 10825.000000 +GTG 10041.000000 +GTT 20526.000000 +TAA 0.000000 +TAC 10158.000000 +TAG 0.000000 +TAT 12776.000000 +TCA 16414.000000 +TCC 7520.000000 +TCG 9109.000000 +TCT 14215.000000 +TGA 0.000000 +TGC 6122.000000 +TGG 7942.000000 +TGT 8393.000000 +TTA 6535.000000 +TTC 18524.000000 +TTG 15014.000000 +TTT 14468.000000 +end consensus +type CDS +phase 1 +begin consensus +AAA 27124.000000 +AAC 17085.000000 +AAG 28251.000000 +AAT 16214.000000 +ACA 16360.000000 +ACC 5893.000000 +ACG 13413.000000 +ACT 9274.000000 +AGA 18727.000000 +AGC 12003.000000 +AGG 12559.000000 +AGT 8521.000000 +ATA 16240.000000 +ATC 19315.000000 +ATG 28352.000000 +ATT 15596.000000 +CAA 24103.000000 +CAC 13923.000000 +CAG 18346.000000 +CAT 15063.000000 +CCA 10417.000000 +CCC 4057.000000 +CCG 9508.000000 +CCT 3959.000000 +CGA 9972.000000 +CGC 4083.000000 +CGG 7638.000000 +CGT 5560.000000 +CTA 8897.000000 +CTC 15780.000000 +CTG 22899.000000 +CTT 9969.000000 +GAA 18216.000000 +GAC 8305.000000 +GAG 14912.000000 +GAT 9677.000000 +GCA 6876.000000 +GCC 4330.000000 +GCG 5051.000000 +GCT 4374.000000 +GGA 5662.000000 +GGC 3760.000000 +GGG 3721.000000 +GGT 2776.000000 +GTA 6705.000000 +GTC 9254.000000 +GTG 14905.000000 +GTT 6438.000000 +TAA 7340.000000 +TAC 4898.000000 +TAG 5780.000000 +TAT 6230.000000 +TCA 20217.000000 +TCC 9131.000000 +TCG 15798.000000 +TCT 10258.000000 +TGA 18951.000000 +TGC 9200.000000 +TGG 15809.000000 +TGT 8676.000000 +TTA 11663.000000 +TTC 21772.000000 +TTG 29546.000000 +TTT 14611.000000 +end consensus +type CDS +phase 2 +begin consensus +AAA 28295.000000 +AAC 15139.000000 +AAG 10756.000000 +AAT 22591.000000 +ACA 14723.000000 +ACC 11104.000000 +ACG 6964.000000 +ACT 11420.000000 +AGA 26500.000000 +AGC 15616.000000 +AGG 10731.000000 +AGT 14441.000000 +ATA 6884.000000 +ATC 15456.000000 +ATG 7231.000000 +ATT 17612.000000 +CAA 22582.000000 +CAC 11183.000000 +CAG 7498.000000 +CAT 12607.000000 +CCA 7713.000000 +CCC 5218.000000 +CCG 5014.000000 +CCT 5466.000000 +CGA 19400.000000 +CGC 7970.000000 +CGG 8667.000000 +CGT 7733.000000 +CTA 5631.000000 +CTC 8731.000000 +CTG 4474.000000 +CTT 9030.000000 +GAA 24248.000000 +GAC 8635.000000 +GAG 7309.000000 +GAT 13120.000000 +GCA 10009.000000 +GCC 6874.000000 +GCG 3386.000000 +GCT 8777.000000 +GGA 19112.000000 +GGC 8879.000000 +GGG 4951.000000 +GGT 6785.000000 +GTA 4133.000000 +GTC 7047.000000 +GTG 3881.000000 +GTT 10472.000000 +TAA 13676.000000 +TAC 9159.000000 +TAG 5425.000000 +TAT 15245.000000 +TCA 20993.000000 +TCC 16233.000000 +TCG 11460.000000 +TCT 17437.000000 +TGA 34875.000000 +TGC 20757.000000 +TGG 20234.000000 +TGT 19836.000000 +TTA 6315.000000 +TTC 15905.000000 +TTG 6892.000000 +TTT 17502.000000 +end consensus +type Intron_Corr_Term +phase all + 93.3478 +type Intron_Corr_Term +phase 0 + 194.143 +type Intron_Corr_Term +phase 1 + 362.18 +type Intron_Corr_Term +phase 2 + 357.052 +type Intron_emission +begin consensus +A 572525.000000 +C 267017.000000 +G 250100.000000 +T 588809.000000 +end consensus +type Pyrimidine_emission +begin consensus +A 0.000000 +C 0.000000 +G 0.000000 +T 22799.000000 +end consensus +type Spacer_emission +begin consensus +A 117.000000 +C 183.000000 +G 73.000000 +T 172.000000 +end consensus +type Central_Intron_Stay_Prob + 0.994723 +type Pyrimidine_Stay_Prob + 0.719098 +type No_Spacer_Prob + 0.687177 +type Spacer_Stay_Prob + 0.163615