_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:1     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 2e-63
 Query name: gi|171451963|dbj|BAG15906.1| iodothyronine deiodinase type I [Paralichthys olivaceus]
 Query range: 1-247  (total 248)

 Target: /data/www-rg/seblastian_results/665525911/tempfiles/temptarget.fasta
 Chromosome: WARS01000029.1:subseq_15817126,200000_:subseq_0,120000_ Strand: -
 Positions:
 -Exon 1  100002       100338
 -Exon 2  99772        99915
 -Exon 3  98900        99099
 -Exon 4  98489        98548

 Redox box: no

Query   MWLQKLLVYVSTAGMLCFMVGLSAILRVMHFISPSLSKKQILRMGEKTTMTQNQKFRYEDWGLTFLSFDFIKTASQHMWLSLGQEAFVGGEAPDSPVVTM
        |/|/| /||/||  / |/|  /| |||/ ||/||||/|| ||/| |||||||| ||/||||||||/|| |||||/ ||||||||||| ||/|||/|||||
Target  MFLRKPMVYLSTVCLFCYMTAISVILRITHFLSPSLAKKIILKMNEKTTMTQNPKFKYEDWGLTFISFKFIKTATYHMWLSLGQEAFEGGKAPDTPVVTM
        atcaacagtttagtttttaagaagacaaactttcacgaaaacaaagaaaaacacatatggtgcatattataaagatcatctcgcggtgggagcgacggaa
        tttgacttatcctgttgatcctgtttgtcattccgtcaatttataaacctcaacataaaaggtcttctattacccaatgtctgaactaggaccaccttct
        gtggaggctggaacgttcgaactcccgtgtcaaacccggcccagtagccgcgtcgtgtacgtgttagtgccacgttcgggttaagttgaaatgtatggcg
                                                                                                            

Query   EGKKSSVCKFIRG <---Intron---> SRPLVLSFGSCTUPPFIYKLDEFKQLVRDFSDVADFMVVYIAEAHSTD <---Intron---> GWAFTNN
        ||/|/|/|| //| <    86bp    > /||||||||||||||||/||/||| ||/|| |||||/||||||||||| <   672bp    > |||||||
Target  EGEKTSICKSLKG                NRPLVLSFGSCTUPPFIFKLEEFKHLVKDFRDVADFLVVYIAEAHSTD                GWAFTNN
        gggaaaatatcag                acccgtatgatatcctatacggtaccgagtcggggtcggtagggctag                gtgtaaa
        agaacgtgacta                gagctttgtgggcgcctttataataattaatgatcattttatcacacc                aggctcaa
        gagagtccgcga                tcaggggctatccacgtccatggcgcccgccctatcttgccccgataa                ttgatccc
                                                 *                                                          

Query   FDINQHRSLEERLSAAQILVQQEPLCPVVVDEMNDVSAIKYGALPERLYVLQAGKVIYK <---Intron---> GGMGPWGYNPLEVRSLLEKM
        ||| |||||||||||||||||//|||||||||||/|/||||||||||||/||||||/|| <   351bp    > | /|||||||/|||| ||||
Target  FDIKQHRSLEERLSAAQILVQKDPLCPVVVDEMNNVTAIKYGALPERLYILQAGKVVYK                GMVGPWGYNPMEVRSFLEKM
        tgaacccacggactggcacgcagcctcgggggaaagagaatggccgactaccggaggta                gaggctgtacaggcttcgaa
        tataaaggtaagtcccatttaaactgctttaataatcctaagctcagtattacgattaa                gttgcggaactatgcttaat
        tccaatgcggagttaagcgtggtcgtagtgcagctctcagcctgcggtcaggtgatccg                ggggtgcctagggtttgggg
                                                                                                       
 Sequence until next stop: 
AAATAA
 K  * 

 Distance CDS-SECIS: 307 ; UGA-SECIS: 670

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = WARS01000029.1:subseq_15817126,200000_:subseq_0,120000_ Strand = - Positions = 98181 - 98115
 Found by:  Infernal (score=32.34) Covels (score=22.89)
 Stem2 length = 9   Apical loop length = 14   Insertion in stem2 = 0, 0
 Free Energy = -15.64

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ...((((((---....{[[{(((((((((..........-----....)))))))))}]]}..--..-.))))))...
 target  CAGUGUUUC---UUAGUGACGGCUACAGAUUAAACCACU-----GGCCUUUGUAGCCAGAUGA--AG-UGAAACAAAG
                         ****           ^^^                       ****                 
_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:2     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 2e-63
 Query name: gi|171451963|dbj|BAG15906.1| iodothyronine deiodinase type I [Paralichthys olivaceus]
 Query range: 1-247  (total 248)

 Target: /data/www-rg/seblastian_results/665525911/tempfiles/temptarget.fasta
 Chromosome: WARS01000029.1:subseq_15817126,200000_:subseq_0,120000_ Strand: -
 Positions:
 -Exon 1  100002       100338
 -Exon 2  99772        99915
 -Exon 3  98900        99099
 -Exon 4  98489        98548

 Redox box: no

Query   MWLQKLLVYVSTAGMLCFMVGLSAILRVMHFISPSLSKKQILRMGEKTTMTQNQKFRYEDWGLTFLSFDFIKTASQHMWLSLGQEAFVGGEAPDSPVVTM
        |/|/| /||/||  / |/|  /| |||/ ||/||||/|| ||/| |||||||| ||/||||||||/|| |||||/ ||||||||||| ||/|||/|||||
Target  MFLRKPMVYLSTVCLFCYMTAISVILRITHFLSPSLAKKIILKMNEKTTMTQNPKFKYEDWGLTFISFKFIKTATYHMWLSLGQEAFEGGKAPDTPVVTM
        atcaacagtttagtttttaagaagacaaactttcacgaaaacaaagaaaaacacatatggtgcatattataaagatcatctcgcggtgggagcgacggaa
        tttgacttatcctgttgatcctgtttgtcattccgtcaatttataaacctcaacataaaaggtcttctattacccaatgtctgaactaggaccaccttct
        gtggaggctggaacgttcgaactcccgtgtcaaacccggcccagtagccgcgtcgtgtacgtgttagtgccacgttcgggttaagttgaaatgtatggcg
                                                                                                            

Query   EGKKSSVCKFIRG <---Intron---> SRPLVLSFGSCTUPPFIYKLDEFKQLVRDFSDVADFMVVYIAEAHSTD <---Intron---> GWAFTNN
        ||/|/|/|| //| <    86bp    > /||||||||||||||||/||/||| ||/|| |||||/||||||||||| <   672bp    > |||||||
Target  EGEKTSICKSLKG                NRPLVLSFGSCTUPPFIFKLEEFKHLVKDFRDVADFLVVYIAEAHSTD                GWAFTNN
        gggaaaatatcag                acccgtatgatatcctatacggtaccgagtcggggtcggtagggctag                gtgtaaa
        agaacgtgacta                gagctttgtgggcgcctttataataattaatgatcattttatcacacc                aggctcaa
        gagagtccgcga                tcaggggctatccacgtccatggcgcccgccctatcttgccccgataa                ttgatccc
                                                 *                                                          

Query   FDINQHRSLEERLSAAQILVQQEPLCPVVVDEMNDVSAIKYGALPERLYVLQAGKVIYK <---Intron---> GGMGPWGYNPLEVRSLLEKM
        ||| |||||||||||||||||//|||||||||||/|/||||||||||||/||||||/|| <   351bp    > | /|||||||/|||| ||||
Target  FDIKQHRSLEERLSAAQILVQKDPLCPVVVDEMNNVTAIKYGALPERLYILQAGKVVYK                GMVGPWGYNPMEVRSFLEKM
        tgaacccacggactggcacgcagcctcgggggaaagagaatggccgactaccggaggta                gaggctgtacaggcttcgaa
        tataaaggtaagtcccatttaaactgctttaataatcctaagctcagtattacgattaa                gttgcggaactatgcttaat
        tccaatgcggagttaagcgtggtcgtagtgcagctctcagcctgcggtcaggtgatccg                ggggtgcctagggtttgggg
                                                                                                       
 Sequence until next stop: 
AAATAA
 K  * 

 Distance CDS-SECIS: 586 ; UGA-SECIS: 949

------- SECIS element -- id:2 -- grade:A ----
 Chromosome = WARS01000029.1:subseq_15817126,200000_:subseq_0,120000_ Strand = - Positions = 97902 - 97829
 Found by:  Infernal (score=31.36) Covels (score=29.97)
 Stem2 length = 9   Apical loop length = 14   Insertion in stem2 = 0, 0
 Free Energy = -15.94

         ..(((((((.......(((((((((((((((...............))))))))))))))).............)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu----u-uuucaugaccggc
         .((((((((---((..{[[{(((((((((..........-----....)))))))))}]]}.........-.)))))))))).
 target  GCUGCUUUU---GAAAUGAUGGUUACAGUGCAAACCUCU-----GGUAGCUGUAAUCUGAUGAAAGAUGA-CUUAAAAGUAGG
                         ****           ^^^                       ****