_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: e-106 Query name: gi|998742239|ref|XP_015470629.1| PREDICTED: selenoprotein P [Parus major] Query range: 1-393 (total 393) Target: /data/www-rg/seblastian_results/97176917/tempfiles/temptarget.fasta Chromosome: CM003740.1:subseq_13395940,104377_ Strand: - Positions: -Exon 1 54187 54377 -Exon 2 52787 52999 -Exon 3 51105 51222 -Exon 4 49568 50224 Redox box: YES Query MWAGLGLVLALCVLPGGGTEIQNCQEPPEWRIGEEDPMWNSRGSVTVVALLQASUSLCLRQASS <---Intron---> LEDLRVKLENEGLVNISYVV |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 1187bp > |||||||||||||||||||| Target MWAGLGLVLALCVLPGGGTEIQNCQEPPEWRIGEEDPMWNSRGSVTVVALLQASUSLCLRQASS LEDLRVKLENEGLVNISYVV atggcgcgcgctgccgggagacatcgccgtcaggggcatatagtgagggcccgattttcccgta tggccgatgaggtgaattgg tgcgtgtttctgttcgggcataagaaccaggtgaaactgacggctcttcttacggctgtgaccg taatgtataaagttatcatt ggatggatgcctccaaagagcgccggcaagttgggcaggccacggaggtccgtcaagcgggtc tggcgcagagtaagcccgtgt * Query VNHQGPQSQREFHLLKERVSDYITVYQQDEQQEDVWTTLNGNKDDFLIYDR <---Intron---> CGRLVYHLGLPYSFLHFQYVEESIKIAYCENKC ||||||||||||||||||||||||||||||||||||||||||||||||||| < 1564bp > ||||||||||||||||||||||||||||||||| Target VNHQGPQSQREFHLLKERVSDYITVYQQDEQQEDVWTTLNGNKDDFLIYDR CGRLVYHLGLPYSFLHFQYVEESIKIAYCENKC gaccgcctcagtcccagcgtgtaagtccggccgggtaatagaaggtcatga tgccgtccgcctttcctctgggtaaagttgaat taaagcacagatattaagtcaatctaaaaaaaaatgcctagaaaatttaag gggttaatgtcacttataataactatcagaaag cctgatacggatcaaaattacctcccgatggagtcgttatacgtctcctc acctagctctgccccgttgtgaattgtaccgcgt Query GNCSYT <---Intron---> EPDIDGVCENITKKAGEELSEIEPKPTGQHSHPNLHRHGHHHRRHHHHHHMGSRDPKHEDHQAASQTERHHPHGGWRH |||||| < 880bp > |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Target GNCSYT EPDIDGVCENITKKAGEELSEIEPKPTGQHSHPNLHRHGHHHRRHHHHHHMGSRDPKHEDHQAASQTERHHPHGGWRH gattta gcgagggtgaaaaaggggctgagcacagcctccaccacgcccccccccccagacgcacggccggtcagaccccggtcc gagcac acatagtgaatcaacgaatcatacaccgaacacatagagaaaggaaaaaatgggacaaaaaacccacagaacagggga accccg acttttatacctaaataggagaacgagtgtctccgcatacctcccccctcgctttcacgccgtttatgatttcccgtc Query RLFGRHRHDQIGSQEHVDTAPPGEIVEIAQDRKLRKKGKNSCKNQLTUNWETGSGSASSSUSCHCRHLLFEELGNSVTUQCRGTLPNSCRUHGQLAAEDI |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Target RLFGRHRHDQIGSQEHVDTAPPGEIVEIAQDRKLRKKGKNSCKNQLTUNWETGSGSASSSUSCHCRHLLFEELGNSVTUQCRGTLPNSCRUHGQLAAEDI actgccacgcagacgcggagccggaggagcgaaccaagaaataactatatgagtgtgtaatttctcccttggcgatgatctcgaccattatcgccgggga gttggagaaatggaaataccccgattatcaagatgaagaaggaaatcgagacgcgcccgggcgaggatttaatgactcgagggctcacgggagatccaat gttctcattgattggcactctaaatgataataaaagagacccacgatatggaaacacttcactttactgtagagttctagtttaaattcgatgagaagcc * * * * Query TESUQURLLSAAUHSSPAGASETSDTUQUQEKARNUSUKTN ||||||||||||||||||||||||||||||||||||||||| Target TESUQURLLSAAUHSSPAGASETSDTUQUQEKARNUSUKTN agttctccctggtcttcgggagaagatctcgagaatttaaa cacgaggttcccgaccccgcgacgacgagaaacgagcgaca tgtagatgcttcataaaaaatattccagagaagacacaaac * * * * * * * Sequence until next stop: TAA * Distance CDS-SECIS: 313 ; UGA-SECIS: 322 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = CM003740.1:subseq_13395940,104377_ Strand = - Positions = 49254 - 49183 Found by: Infernal (score=34.84) Covels (score=33.86) Stem2 length = 11 Apical loop length = 14 Insertion in stem2 = 0, 0 Free Energy = -20.94 ..(((((((.......(((((((((((((((...............)))))))))))))))........))))))).. model uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc ..(({(((((--....{[[(((((((((([(.....-.........)]))))))))))]]}..--..-)))))})).. target UCUGCUUGCA--UUUGUGAGGACAGGAGCAUAAACU-AUGACCUAGGGGCUCCUGUUUGAUGU--UU-UGCAAUCAAG **** ^^^ **** _________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:2 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: e-106 Query name: gi|998742239|ref|XP_015470629.1| PREDICTED: selenoprotein P [Parus major] Query range: 1-393 (total 393) Target: /data/www-rg/seblastian_results/97176917/tempfiles/temptarget.fasta Chromosome: CM003740.1:subseq_13395940,104377_ Strand: - Positions: -Exon 1 54187 54377 -Exon 2 52787 52999 -Exon 3 51105 51222 -Exon 4 49568 50224 Redox box: YES Query MWAGLGLVLALCVLPGGGTEIQNCQEPPEWRIGEEDPMWNSRGSVTVVALLQASUSLCLRQASS <---Intron---> LEDLRVKLENEGLVNISYVV |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 1187bp > |||||||||||||||||||| Target MWAGLGLVLALCVLPGGGTEIQNCQEPPEWRIGEEDPMWNSRGSVTVVALLQASUSLCLRQASS LEDLRVKLENEGLVNISYVV atggcgcgcgctgccgggagacatcgccgtcaggggcatatagtgagggcccgattttcccgta tggccgatgaggtgaattgg tgcgtgtttctgttcgggcataagaaccaggtgaaactgacggctcttcttacggctgtgaccg taatgtataaagttatcatt ggatggatgcctccaaagagcgccggcaagttgggcaggccacggaggtccgtcaagcgggtc tggcgcagagtaagcccgtgt * Query VNHQGPQSQREFHLLKERVSDYITVYQQDEQQEDVWTTLNGNKDDFLIYDR <---Intron---> CGRLVYHLGLPYSFLHFQYVEESIKIAYCENKC ||||||||||||||||||||||||||||||||||||||||||||||||||| < 1564bp > ||||||||||||||||||||||||||||||||| Target VNHQGPQSQREFHLLKERVSDYITVYQQDEQQEDVWTTLNGNKDDFLIYDR CGRLVYHLGLPYSFLHFQYVEESIKIAYCENKC gaccgcctcagtcccagcgtgtaagtccggccgggtaatagaaggtcatga tgccgtccgcctttcctctgggtaaagttgaat taaagcacagatattaagtcaatctaaaaaaaaatgcctagaaaatttaag gggttaatgtcacttataataactatcagaaag cctgatacggatcaaaattacctcccgatggagtcgttatacgtctcctc acctagctctgccccgttgtgaattgtaccgcgt Query GNCSYT <---Intron---> EPDIDGVCENITKKAGEELSEIEPKPTGQHSHPNLHRHGHHHRRHHHHHHMGSRDPKHEDHQAASQTERHHPHGGWRH |||||| < 880bp > |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Target GNCSYT EPDIDGVCENITKKAGEELSEIEPKPTGQHSHPNLHRHGHHHRRHHHHHHMGSRDPKHEDHQAASQTERHHPHGGWRH gattta gcgagggtgaaaaaggggctgagcacagcctccaccacgcccccccccccagacgcacggccggtcagaccccggtcc gagcac acatagtgaatcaacgaatcatacaccgaacacatagagaaaggaaaaaatgggacaaaaaacccacagaacagggga accccg acttttatacctaaataggagaacgagtgtctccgcatacctcccccctcgctttcacgccgtttatgatttcccgtc Query RLFGRHRHDQIGSQEHVDTAPPGEIVEIAQDRKLRKKGKNSCKNQLTUNWETGSGSASSSUSCHCRHLLFEELGNSVTUQCRGTLPNSCRUHGQLAAEDI |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Target RLFGRHRHDQIGSQEHVDTAPPGEIVEIAQDRKLRKKGKNSCKNQLTUNWETGSGSASSSUSCHCRHLLFEELGNSVTUQCRGTLPNSCRUHGQLAAEDI actgccacgcagacgcggagccggaggagcgaaccaagaaataactatatgagtgtgtaatttctcccttggcgatgatctcgaccattatcgccgggga gttggagaaatggaaataccccgattatcaagatgaagaaggaaatcgagacgcgcccgggcgaggatttaatgactcgagggctcacgggagatccaat gttctcattgattggcactctaaatgataataaaagagacccacgatatggaaacacttcactttactgtagagttctagtttaaattcgatgagaagcc * * * * Query TESUQURLLSAAUHSSPAGASETSDTUQUQEKARNUSUKTN ||||||||||||||||||||||||||||||||||||||||| Target TESUQURLLSAAUHSSPAGASETSDTUQUQEKARNUSUKTN agttctccctggtcttcgggagaagatctcgagaatttaaa cacgaggttcccgaccccgcgacgacgagaaacgagcgaca tgtagatgcttcataaaaaatattccagagaagacacaaac * * * * * * * Sequence until next stop: TAA * Distance CDS-SECIS: 948 ; UGA-SECIS: 957 ------- SECIS element -- id:2 -- grade:A ---- Chromosome = CM003740.1:subseq_13395940,104377_ Strand = - Positions = 48619 - 48551 Found by: Infernal (score=21.68) Covels (score=15.64) Stem2 length = 10 Apical loop length = 10 Insertion in stem2 = 0, 0 Free Energy = -15.1 ..(((((((.......((((((((((.(((((...............))))).))))))))))........))))))).. model uucggucaugcgUuaAUGAcGgccug-gcccuAAAcCcuuuuuggggcgggc-caggcCuGAUGuuuuuucaugaccggc .((({((((---....([[{((((({{(((((........-----..)))))}})))))}]])..--..-.))))}))). target ACACCAUAA---UUAAUGAUGGUUUAAUAGGGAAAUUACU-----ACUCCUACAAAACCUGAAUC--UU-UUUAUUGUGA **** ^^^ ****