Output_id:  DI.1.selenocysteine
----------  -------------------
-Species        Saimiri boliviensis                          -Taxid 27679
-Target         /cursos/BI/genomes/project_2013/Saimiri_boliviensis/genome.fa
-Chromosome (-) gi|357434110|gb|JH378253.1|
-Program        genewise
-Query name     gi|197107958|gb|ACH42531.1| deiodinase iodothyronine type III [Macropus eugenii]
-Query range    14-319     length:330   coverage: 0.93
-Profile range  14-464     length:486   coverage: 0.93    sec_position: [257]
-Average sequence identity with profile: 0.3235   (ignoring gaps: 0.4465)
-State          kept

------- alignment -------
Query   GGAQGGRGRSCPAAPRLAGRLHSLLVHTLGFLTQVAACCFLGPRFLATAVTLWLLDFLCIRKKVLMRHRREGDAEDPWKAGGGGGGGGREEEDAAAVILS
        |  /| /| | |||      | |||/|/|    | |/|  | |||| ||  |||||||||||  | | ||                 |/ | |       
Target  GEGEGSQGASGPAATM----LRSLLLHSLRLCAQTASCLVLFPRFLGTAFMLWLLDFLCIRKHFLGRRRR-----------------GQPEPDVELNSEG
        gggggtcggtgcggaa----cctccccttactgcagttcgctcctcgagtactccgtttacactcgcccc-----------------gccgcgggcaagg
        gagagcagccgcccct----tgctttactgtgcacccgttttcgttgcctttgttattgtgaattggggg-----------------gacacatatagag
        agcggcggtggtaccg----cccggtccggctcgccgccgccgccccgccgcgcctcgtccgtcgccccg-----------------ggcgctggcttac
                                                                                                            

Query   PGLPPDDPPIWVSDSNRFCTIESLKAVWHGQKMDFFKTAHKGSPAPNPEVIQLDGLKRLRILDFARGSRPLVLNFGSCTUPPFTARLRAFQHLASTFLDI
          /||||||| ||| || ||/ ||||||||||/|||| ||/| |||| ||/  || /  ||||/|/|/||||||||||||||| ||/ ||| | / /   
Target  EEVPPDDPPICVSDDNRLCTLASLKAVWHGQKLDFFKQAHEGGPAPNSEVVLPDGFQSQRILDYAQGNRPLVLNFGSCTUPPFMARMSAFQRLVTKYQRD
        gggccggccatgtggacctacgtcaggtcgcatgttacgcgggcgcatgggccggtcaccacgtgcgacccgcatgatatcctagcaagtcccgaatccg
        aatccaacctgtcaaagtgctcctactgagaatattaacaaggcccacatttcagtagagttaacagagctttatgggcgccttcgtgctagttcaaaga
        gggccccgcccgccccccccgggcggggtcgggtccaggcgctagcccggtgccccgcgcccccgagccggtctcccccaagcggtgcccgcgccgcgcc
                                                                                       *                    

Query   ADFLLVYIEEAHPSDGWVTSDAAYDIPKHQCLQDRLRAARLLQEGAPGCLLAVDTMDNASSAAYGAYSERLYIIQEARVMYQGGRGPEGYKISELRHWLD
         |||//|||||||||||||/|/ | ||/|/ |/||/ ||//||/||||| | /||| |/||/||||| ||||/||   /||||||||/||//|||| ||/
Target  VDFLIIYIEEAHPSDGWVTTDSPYIIPQHRSLEDRVSAAKVLQQGAPGCALVLDTMANSSSSAYGAYFERLYVIQSGTIMYQGGRGPDGYQVSELRTWLE
        ggtcaatagggcctggtgaagtctaaccccacggcgaggagcccggcgtgcgcgaagataatgtggttgcctgacagaaatcggcgcggtcgtgccattg
        tattttataacaccaggtccaccattcaaggtaagtgccattaagccggctttactcacggccagcatagtattaggcttaaggggcagaatcatgcgta
        ccccccccgaaccctcgccgccccccggcgcggcgccaggaggataccctgccccgcccccgttacccgtctccgtcctgcgccgcctccgctggctggg
                                                                                                            

Query   QYKDRL
        /| //|
Target  RYDEQL
        ctggcc
        gaaaat
        cttggg
              
------- positions -------
Exon 1    642987       643841

--------- SECIS ---------
>DI.1.selenocysteine.esecis:str.1 chromosome:gi|357434110|gb|JH378253.1| strand:- positions:642284-642378 species:"Saimiri boliviensis" target:/cursos/BI/genomes/project_2013/Saimiri_boliviensis/genome.fa distance_from_sec_uga:986 distance_from_cds:608
UUGGGUGCAC AGGGGCCC CACUGCUG AUGAU GAACUGUCUCU AA CUGGUCUUGACCA CGAGCUAGUUC UGAA UUGCA GGAGCCUC AAAGCAGCGC
.....(((.. .(((((.. ..((((.. .(((( ((((((.(((. .. .((((....)))) .))).)))))) )))) ..))) )..))))) ...)))....

--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon: 
CATGGTGCTCGGCCCCGGAGGGTGTAA
 H  G  A  R  P  R  R  V  *