Blastx evalue: 2e-59 Query name: gi|992181352|ref|XP_007236187.2| PREDICTED: type I iodothyronine deiodinase [Astyanax mexicanus] Query range: 1-254 (total 254) Target: /data/www-rg/seblastian_results/939324534/tempfiles/temptarget.fasta Chromosome: your_sequence Strand: - Positions: -Exon 1 51377 51731 -Exon 2 50383 50526 -Exon 3 50003 50202 -Exon 4 48676 48738 Redox box: no Query MWTAVGFTLRRLKVYLSSIYMLHLLLFQFCVLNLLVVLAPGLARRIMLRLGVKSTMALNPLFRFEDWAPSFTTARFLLAVLRGCWICFGDSAFVGFRAPD ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||| Target MWTAVGFTLRRLKVYLSSIYMLHLLLFQFCVLNLLVVLAPGLARRIMLRLGVKSTMALNPLFRFEDWAPSFTTARFLLAVLRGCWSCFGDSAFVGFRAPD atagggtaccacagtcatataccctctcttgcaccggcgcgcgcaaacccggaaaagcacctctggtgcttaagctccggccgttattggtgtggtcgcg tgcctgtctggtatatgctattattttatgttatttttccgtcggtttgtgtagctctacttgtaagccctcccgtttcttggggggtgaccttgtgcca ggctggtcccggactactttgttgggcgcttgcggcggcgtgcggcgcgggggctgcccggcccacgtgtccaggcgggcggccgcttgtcgtgctgtgt Query TPLITMKGDKTSVHQFIRG <---Intron---> NRPLILSFGSCTUPPFLFKLDEFKQLVRDFGDVADFLVIYISEAHATD <---Intron---> D ||||||||||||||||||| < 850bp > |||||||||||||||||||||||||||||||||||||||||||||||| < 180bp > | Target TPLITMKGDKTSVHQFIRG NRPLILSFGSCTUPPFLFKLDEFKQLVRDFGDVADFLVIYISEAHATD D actaaaaggaaagcctaag acccacatgatatcctctacggtaccgagtgggggtcgatatggcgag g ccttctagaacgtaattg gagctttgtgggcgcctttataataattgatgatcattttatcacacc aa ctaccgggcaccccatca ttccccgctacccatgtgcgtcgcggccgcctcgcccccccctaataa tc * Query WAFGNNVDIKQHRDLSERLTAAQSLVEKDPLCPVVVDEMSNITASRYGALPERLYVLQGGNVMYK <---Intron---> GGKGPWGYSPEEVRMVLQK ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 1264bp > ||||||||||||||||||| Target WAFGNNVDIKQHRDLSERLTAAQSLVEKDPLCPVVVDEMSNITASRYGALPERLYVLQGGNVMYK GGKGPWGYSPEEVRMVLQK tgtgaaggaacccgctgacaggctcggagcctcgggggaaaaagaatggccgcctgccggagata ggagctgtacgggcagcca gctgaatataaagatcagtcccacttaaactgctttaatgatccggagctcagtattaggattaa ggagcggagcaatgtttaa gctcctaccggcgtgagagcatgcttaacatttgggtggtcaaccatacttgcgccggcatcgcg tagttgcctaaaatggggg Query MK || Target MK aa ta gg Sequence until next stop: TAA * Distance CDS-SECIS: 845 ; UGA-SECIS: 1211 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = your_sequence Strand = - Positions = 47830 - 47753 Found by: Infernal (score=31.74) Covels (score=23.48) Stem2 length = 10 Apical loop length = 10 Insertion in stem2 = 0, 1 Free Energy = -15.63 ..(((((((..........(((((((((((((((...............))))))))).))))))..........))))))).. model uucggucaugcg---UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccagg-cCuGAUGuu-u-uuucaugaccggc .(((((((((.........([[{((((((((({(........-----..)}))))))).))}]])......-..))))))))). target AACAGCUAUCUGCAGUAGAUGACGUUUACAGUGGAAACCCCU-----GGUGACUGUAAAACUGAAGUUUUG-UUGGUAGUUGUG **** ^^^ **** _________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:2 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 2e-59 Query name: gi|992181352|ref|XP_007236187.2| PREDICTED: type I iodothyronine deiodinase [Astyanax mexicanus] Query range: 1-254 (total 254) Target: /data/www-rg/seblastian_results/939324534/tempfiles/temptarget.fasta Chromosome: your_sequence Strand: - Positions: -Exon 1 51377 51731 -Exon 2 50383 50526 -Exon 3 50003 50202 -Exon 4 48676 48738 Redox box: no Query MWTAVGFTLRRLKVYLSSIYMLHLLLFQFCVLNLLVVLAPGLARRIMLRLGVKSTMALNPLFRFEDWAPSFTTARFLLAVLRGCWICFGDSAFVGFRAPD ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||| Target MWTAVGFTLRRLKVYLSSIYMLHLLLFQFCVLNLLVVLAPGLARRIMLRLGVKSTMALNPLFRFEDWAPSFTTARFLLAVLRGCWSCFGDSAFVGFRAPD atagggtaccacagtcatataccctctcttgcaccggcgcgcgcaaacccggaaaagcacctctggtgcttaagctccggccgttattggtgtggtcgcg tgcctgtctggtatatgctattattttatgttatttttccgtcggtttgtgtagctctacttgtaagccctcccgtttcttggggggtgaccttgtgcca ggctggtcccggactactttgttgggcgcttgcggcggcgtgcggcgcgggggctgcccggcccacgtgtccaggcgggcggccgcttgtcgtgctgtgt Query TPLITMKGDKTSVHQFIRG <---Intron---> NRPLILSFGSCTUPPFLFKLDEFKQLVRDFGDVADFLVIYISEAHATD <---Intron---> D ||||||||||||||||||| < 850bp > |||||||||||||||||||||||||||||||||||||||||||||||| < 180bp > | Target TPLITMKGDKTSVHQFIRG NRPLILSFGSCTUPPFLFKLDEFKQLVRDFGDVADFLVIYISEAHATD D actaaaaggaaagcctaag acccacatgatatcctctacggtaccgagtgggggtcgatatggcgag g ccttctagaacgtaattg gagctttgtgggcgcctttataataattgatgatcattttatcacacc aa ctaccgggcaccccatca ttccccgctacccatgtgcgtcgcggccgcctcgcccccccctaataa tc * Query WAFGNNVDIKQHRDLSERLTAAQSLVEKDPLCPVVVDEMSNITASRYGALPERLYVLQGGNVMYK <---Intron---> GGKGPWGYSPEEVRMVLQK ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 1264bp > ||||||||||||||||||| Target WAFGNNVDIKQHRDLSERLTAAQSLVEKDPLCPVVVDEMSNITASRYGALPERLYVLQGGNVMYK GGKGPWGYSPEEVRMVLQK tgtgaaggaacccgctgacaggctcggagcctcgggggaaaaagaatggccgcctgccggagata ggagctgtacgggcagcca gctgaatataaagatcagtcccacttaaactgctttaatgatccggagctcagtattaggattaa ggagcggagcaatgtttaa gctcctaccggcgtgagagcatgcttaacatttgggtggtcaaccatacttgcgccggcatcgcg tagttgcctaaaatggggg Query MK || Target MK aa ta gg Sequence until next stop: TAA * Distance CDS-SECIS: 386 ; UGA-SECIS: 752 ------- SECIS element -- id:2 -- grade:A ---- Chromosome = your_sequence Strand = - Positions = 48289 - 48218 Found by: Infernal (score=29.06) Covels (score=23.31) Stem2 length = 10 Apical loop length = 11 Insertion in stem2 = 0, 0 Free Energy = -11.5 ..(((((((.......(((((((((((((((................)))))))))))))))..........))))))).. model uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc ..([(((((---(...{[[{((((([((({(.........-----..)})))])))))}]]}......-..))))))]).. target UGGGUUGUG---UUUAUGAUGAUUAAAGAUGAAACCUCAU-----GGCCUCUGUAGUCUGAUGUAGAA-AUGCACAAACAC **** ^^^ ****