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

 Blastx evalue: 1e-25
 Query name: gi|831474168|ref|XP_012722837.1| PREDICTED: glutathione peroxidase 3 [Fundulus heteroclitus]
 Query range: 2-221  (total 221)

 Target: /data/www-rg/seblastian_results/818021945/tempfiles/temptarget.fasta
 Chromosome: OMLM01011369.1:subseq_0,42068_ Strand: -
 Positions:
 -Exon 1  4863         4928
 -Exon 2  3670         3826
 -Exon 3  3454         3571
 -Exon 4  2838         2937
 -Exon 5  2367         2585

 Redox box: no

Query   WPFFPLLLLAVLRPCAAAGADL <---Intron---> VQKCNSSTEDTIYRYQARTLNGSKPVSFADFAGTSVLFVNVATYUGLTFQYVE <---Intr
        |   ||||| /||||        <   1036bp   > /| |/ ||| |||/| |||||||  |/|/|/ | ||||||||||||||||||| <    98b
Target  WSVLPLLLLGLLRPCTVCPLTQ                LQHCDPSTEGTIYKYSARTLNGSSIVNFSDYTGKSVLFVNVATYUGLTFQYVE         
        ttgtcccccgcccctagtctac                ccctgctaggaatatagaacagatagatagtagaagctgaggattgtatctgg         
        gcttcttttgttgcgctgctca                taagacccagctaaagcgctaggcttatgaacgagttttatccaggtctaat          
        gccagggtctcgacccccgaag                cgctcacaacctcattggcatatttgcccccacaccccctgtacagaccgtg          
                                                                                          *                 

Query   on---> LNALQEELKPLGFTILGFPCNQFGKQEPGQRHEILLGLK <---Intron---> HVRPGNGYVPNFPLFEKGDVNGKYEQPVFTFLK <---
        p    > |||| ||/|  | |||||||||||||||||/||||  || <   516bp    > |||||||/|||| | ||||||||||| |||||| <   
Target         LNALHEEMKQHGLTILGFPCNQFGKQEPGQKHEILPALK                HVRPGNGFVPNFLLLEKGDVNGKYEQRVFTFLK     
               cagccggaaccgcaacgtctactgacgcgcacgaccgta                cgacgagtgcatcccgagggagatgcagtatca     
              atactaaataaagtcttgtcgaatgaaacgaaaattccta                atgcgagttcattttaagatagaaaagttctta     
              agtaacgggaacactttctcccatgagaaagacacggga                gtcaactattaccggtgactgcaacgagtctccg     
                                                                                                            

Query   Intron---> SSCPPVGDDFGTPTGRLFWEPLRTGDIKWNFEKFLVGPEGKPVMRWHPLVNVSTVRADIRNYLIQRYTQELLN
        252bp    > //|||||| || || ||||||||  ||||||||||||| ||||||||| ||/| |||||  ||/| | ||  |
Target             NACPPVGDSFGNPTNRLFWEPLRISDIKWNFEKFLVGPNGKPVMRWHPTVNISEVRADIHKYLLQLYAQEAFN
                   agtccgggatgacaaatttgccaaagaatatgatcggcagacgaatccagaatggcggacatcccctgcggta
                   acgcctgagtgaccagttgactgtgatagataatttgcagacttggacctatcatgcataaattatacaacta
                   ccccataccttcttcagcggggaccccggttagcgtgataggggggcatccttgcatcttacgcggcagattt
                                                                                            
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 152 ; UGA-SECIS: 611

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = OMLM01011369.1:subseq_0,42068_ Strand = - Positions = 2214 - 2143
 Found by:  Infernal (score=24.69) Covels (score=24.76)
 Stem2 length = 10   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -16.87

         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .([({((((---((..{[[(((((((((((..................)))))))))))]]}----..))))))})]).
 target  AUGGCAUCU---UGAAUGAAGAGGAGGCACAAAAACAGGAAGACUGUAGUGCCUCUUUUGAU----UCUGGGGUUCAGG
                         ****          ^^^                         ****