Output_id:  Sel15.1.selenocysteine
----------  ----------------------
-Species        Saimiri boliviensis                          -Taxid 27679
-Target         /cursos/BI/genomes/project_2013/Saimiri_boliviensis/genome.fa
-Chromosome (+) gi|357434081|gb|JH378282.1|
-Program        genewise
-Query name     gi|144953871|ref|NP_001029931.2| 15 kDa selenoprotein [Bos taurus] gi|172048656|sp|A8YXY3.2|SEP15_BOVIN RecName: Full=15 kDa selenoprotein_ Flags: Precursor gi|158454994|gb|AAI02887.1| 15 kDa selenoprotein [Bos taurus]
-Query range    1-162      length:162   coverage: 1.0
-Profile range  1-233      length:233   coverage: 1.0    sec_position: [106]
-Average sequence identity with profile: 0.3662   (ignoring gaps: 0.4776)
-State          kept

------- alignment -------
Query   MAARRDGWLGPAFGLRLLLATVLQT <---Intron---> VSALGAEFSSESCRELGFSSNLLCSSCDLLGQFNLLQLDPDCRGCCQEEAQFETKK <-
        |||   ||| ||| |||| ||/||  <  10740bp   >  || |||||||/|||||||||||||||||||||||||||||||||||||||||||| < 
Target  MAAGPGGWLLPAFQLRLLFATLLQV                GSAFGAEFSSEACRELGFSSNLLCSSCDLLGQFNLLQLDPDCRGCCQEEAQFETKK   
        agggcggtctcgtccctttgatccg                gtgtgggtttggtagtgttaatctattgccgctaccccgcgtagttcgggctgaaa   
        tccgcgggttcctatgtttccttat                gcctgcatccacggatgtcgattggcgattgatattatacagggggaaacatacaa   
        ggtggtggggggtgagggcgtatag                gtttgagtatgacagacctccgcccttttcagccgtggtctcaactgaaaatacag   
                                                                                                            

Query   --Intron---> LYAGAILEVCGUKLGRFPQVQA <---Intron---> FVRSDKPKLFKGLQIK <---Intron---> YVRGSDPVLKLLDDSGN
          9789bp   > |||||||||||||||||||||| <  12342bp   > ||||||||||/||||| <   6017bp   > ||||||||||||||/||
Target               LYAGAILEVCGUKLGRFPQVQA                FVRSDKPKLFRGLQIK                YVRGSDPVLKLLDDNGN
                     ctgggacggtgtatgatccgcg                tgaagacattagccaa                tgcgtgcgtactggaga
                     tacgcttatgggatggtcata                cttggaacattggtata                atggcacttattaaaga
                     gtaatttattaaagagctaca                tttgtcacagcaaaacg                tcatatttagtgcctgc
                                *                                                                           

Query   IAEELSILKWNTDSVEEFLSEKLERI
        ||||||||||||||||||||||||||
Target  IAEELSILKWNTDSVEEFLSEKLERI
        agggtaacataagagggtcagatgca
        tcaatgttagacagtaattgaatagt
        ttaaactcagcactaaacgtaggaca
                                  
------- positions -------
Exon 1    2833186      2833260
Exon 2    2844001      2844168
Exon 3    2853958      2854021
Exon 4    2866364      2866413
Exon 5    2872431      2872559

--------- SECIS ---------
>Sel15.1.selenocysteine.esecis:str.1 chromosome:gi|357434081|gb|JH378282.1| strand:+ positions:2873132-2873234 species:"Saimiri boliviensis" target:/cursos/BI/genomes/project_2013/Saimiri_boliviensis/genome.fa distance_from_sec_uga:779 distance_from_cds:572
AAGAGUGAAA CAUUCCCA AAGAUUUGCUUUA AUGAA GACUACACAGA AA ACCUUUCUAAGGA UUUGUGUGGAU CAGAU AAAUACU UGGCAAAU UUUUGAGGUU
..(((((... ))))).(( ((((((((((... .(((( ((((((((((( .. .((((...)))). ))))))))).) ))))) ....... .))))))) ))))).....

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