Output_id:  SelN.2.selenocysteine
----------  ---------------------
-Species        Saimiri boliviensis                          -Taxid 27679
-Target         /cursos/BI/genomes/project_2013/Saimiri_boliviensis/genome.fa
-Chromosome (-) gi|357434190|gb|JH378173.1|
-Program        exonerate
-Query name     BLAST_QUERY_MASTER
-Query range    34-552     length:553   coverage: 0.94
-Profile range  45-568     length:569   coverage: 0.92    sec_position: [441]
-Average sequence identity with profile: 0.67   (ignoring gaps: 0.7665)
-State          kept

------- alignment -------
Query   LLALLAIAALACIKYYRDAQAAR <---Intron---> QQEAALKTLGAEGLFLFSSLDTDNDMYISPEEFKPIAEKLTG <---Intron---> VTP
        |||||   / | / //// | /  <  82119bp   >   |/|||||| /||||||||||| |||||||||||||||||| <   3998bp   >  ||
Target  LLALLCSLSPASLHFFKNGQCSE                --ESALKTLGTDGLFLFSSLDTDGDMYISPEEFKPIAEKLTG                STP
        ctgcctactcgaccttaagcttg                --gtgcaatgaggctcttttgagggataacggtacaggacag                tac
        ttcttggtcccgtattaagagca                --acctactgcagttttcctacagatatgcaatactcaatc                gccc
        caaactccttactcccactgcag                --aagggcgaatcttctccgctcgcgccccggcgcttggaa                gatt
                                                                                                            

Query   ASDYEEEE-PPDPNGETLSIAAKFQPLLMETMTKSKDGFLG <---Intron---> ISHSALSGLRNWTAPASPSSVFYARQFKAFLPPKGKLELGDPW
         / ||||| ||||/ |||// |/||||| |||||||||||| <   3308bp   > /|   ||||||||  ||| /|| || |/ |||| |/ ||| ||
Target  EASYEEEELPPDPSEETLTVEARFQPLLPETMTKSKDGFLG                VSRLTLSGLRNWTTAASPRAVFAARHFQPFLPPPGQ-ELGKPW
        ggatggggcccgcaggacagggctcccccgaaaaaaggttg                gtccactgccataaggtcaggtggcctcctccccgc-gcgact
        acgaaaaatccacgaactctacgtacttcactcagaagttg                tcgtctcgtgagccccccgcttccgatacttcccga-atgacg
        gcccgggggctctcgggccaacacgtgcggcgcgcatccag                cccccgtccacggtacaggagtcccccgcctcgacg-ggcgcg
                                                                                                            

Query   WIIPSELSIFTGYLPNNRFYPPPPKGKE <---Intron---> VIIHRLLSMFHPRPFVKTRFAPQGAVACIRAISDFYYDIVFR <---Intron---
        ||||||||/||||| ||||||||||||| <   232bp    > ||||||||||||||||||||||||||||/ |/||||| //|| <   518bp    
Target  WIIPSELSVFTGYLSNNRFYPPPPKGKE                VIIHRLLSMFHPRPFVKTRFAPQGAVACLTAVSDFYYTVMFR              
        taacagcagtagtctaacttccccagag                gaaccccaatccactgaactgccggggtcaggagtttagatc              
        gttcgatgttcgatcaagtaccccagaa                tttagttgttacgcttacgtccagctcgtcctgataactttg              
        gccctggccctccgccccctgggcgcgg                ccccgcgcgccagccggcctctggggccgtcctcccctggc               
                                                                                                            

Query   > IHAEFQLNEPPDFPFWFSPGQFTGHIILSKDASHVRDFKLFVPNHR <---Intron---> SLNVDMEWLYGASESSNMEVDIGYLPQ <---Intr
        > |||||||/||||||||||| ||||||||||||/|||||/||||||| <   1685bp   > ||||||||||||||||||||||||/|| <   155b
Target    IHAEFQLSEPPDFPFWFSPAQFTGHIILSKDATHVRDFRLFVPNHR                SLNVDMEWLYGASESSNMEVDIGYIPQ         
          acggtccagccgtcttttcgctagcaactaggacgcgtcctgcaca                tcaggagtctggagaaaagggagtacc         
          tacatatgaccatctgtcccatcgatttcaaccatgatgtttcaag                ctatatagtagcgaggatatatgatca         
         gcccgcgctggcccccgcctcgccccccccatcctccccgcccccc                gtgtgcgggttgctacccgggctccacg         
                                                                                                            

Query   on---> MELEATGPSVPSVIYDENGNMIDSRNPSGEPIQFVFEEIKWQQELPWEEAARKLEVAMYPFKK <---Intron---> VSYLPFTEAFDRAK
        p    > ||||||||||||/| ||/|//|||  |||||/||||||||||||| |||||| |||||||||| <   691bp    > ||||||||||||||
Target         MELEATGPSVPSMILDEDGSVIDSHLPSGEPLQFVFEEIKWQQELSWEEAARCLEVAMYPFKK                VSYLPFTEAFDRAK
               agcggagctgctaacggggagagaccctggccctgtggaatccgcatggggctcgggatctaa                gtttctaggtgcga
               tataccgcctcctttaaaggttagatccgactatttaatagaaatggaaccggtatctactaa                tcatctcactagca
               ggggcgccagccgcgtgtccgtcccgcgggcggtgtggcggggggcgggccccgggcgcccgg                cccgactgcccacg
                                                                                                            

Query   AEKKLVHSILLWGALDDQSCUG <---Intron---> SGRTLRETVLESSPVLALLNESFISSWSLVKELEELQ <---Intron---> QNKENVEYA
        || ||||||||||||||||||| <   1097bp   > ||||||||||||||/| ||||||||/||||||||||| <    82bp    >  |/||  / 
Target  AENKLVHSILLWGALDDQSCUG                SGRTLRETVLESSPILTLLNESFISTWSLVKELEELQ                SNQENPAHQ
        ggaacgctacttggcggctttg                tgcaccgagcgatcacaccagataaattcgagcggcc                aacgacgcc
        caaattactttggctaaacgg                gcggctgacttagccttcttaagttgcgcttaataata                gaaaaccaa
        tgcgggtgcggggcgccgcca                tgggtcggccgatgccccgccgcccccgcgggggaggg                ccggcgccg
                            *                                                                               

Query   ALASLHLEKYNFPVEMMICLPNGTV <---Intron---> VHHINANYFLDITSMKPEEVESNLFSFSAGFEDPSTATYIQFLKEGLEKAKPYLQ
         || ||||||/||||||/||||||| <   1296bp   > |||||||||||||||||||/||||||||  |||||||||/||||||| /  | ||
Target  KLAGLHLEKYSFPVEMMVCLPNGTV                VHHINANYFLDITSMKPEEIESNLFSFSPTFEDPSTATYMQFLKEGLRRGLPLLQ
        acggcccgatatcggaagtccagag                gccaagatttgaataacggagaactattcatggctagatactcaggcccgccccc
        atcgtataaagtctatttgtcagct                taatacaattatcctacaatagattgtccctaacccccatattaagtgggtctta
        ggtcgcgggccccggggccgctccg                cccccccccgccccggcgacgctccccacctacgcgcccggcggggcgccgcgcg
                                                                                                        
------- positions -------
Exon 1    1038093      1038161
Exon 2    955856       955973
Exon 3    951724       951857
Exon 4    948206       948415
Exon 5    947849       947973
Exon 6    947193       947330
Exon 7    945426       945507
Exon 8    945082       945270
Exon 9    944285       944390
Exon 10   943075       943187
Exon 11   942891       942992
Exon 12   941430       941594

--------- SECIS ---------
>SelN.2.selenocysteine.esecis:str.1 chromosome:gi|357434190|gb|JH378173.1| strand:- positions:940278-940365 species:"Saimiri boliviensis" target:/cursos/BI/genomes/project_2013/Saimiri_boliviensis/genome.fa distance_from_sec_uga:1445 distance_from_cds:1064
ACUAGCGUCC CCGGCAGC AGCCCC AUGAU GGCUGGAUCUG AA AUCCUUGA UGGGUCCAGCU UGAU GUCUUU GCAGCUG CACCUGUGGG
.........( ((.((((( .((... .(((( ((((((((((. .. ........ .)))))))))) )))) ...... )).)))) )......)))

--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon: 
CCCTAG
 P  *