Output_id:  DI.4.selenocysteine
----------  -------------------
-Species        Saimiri boliviensis                          -Taxid 27679
-Target         /cursos/BI/genomes/project_2013/Saimiri_boliviensis/genome.fa
-Chromosome (-) gi|357434255|gb|JH378108.1|
-Program        exonerate
-Query name     gi|110825976|ref|NP_031886.3| deiodinase, iodothyronine, type I [Mus musculus] gi|58477308|gb|AAH89608.1| Deiodinase, iodothyronine, type I [Mus musculus]
-Query range    1-249      length:257   coverage: 0.97
-Profile range  1-461      length:486   coverage: 0.95    sec_position: [257]
-Average sequence identity with profile: 0.3477   (ignoring gaps: 0.4271)
-State          kept

------- alignment -------
Query   MGLPQLWLWLKRLVIFLQVALEVAVGKVLMTLFPGRVKQSILAMGQKTGMARNPRFAPDNWVPTFFSIQYFWFVLKVRWQRLEDRAEFGGLAPNCTVVCL
        ||||   |||||| / |/||/ |||||/|/|||| |||//||||| |||| ||| |/ |||/||||| ||||||||||||||||  | ||||||| || |
Target  MGLPGPGLWLKRLWVLLEVAVHVAVGKLLLTLFPDRVKKNILAMGDKTGMTRNPNFSHDNWIPTFFSTQYFWFVLKVRWQRLEDTTELGGLAPNCPVVHL
        agccgcgctcaactgctggggcggggacccattcgagaaaacgaggaagaaaacatacgatacattaacttttgcagctcccggaagcggcgcatcggcc
        tgtcgcgtgtagtgtttatctatctgatttcttcagtaaattctgaacgtcgacatgaaagtccttgcaatgtttatggagtaaccatggtccagcttat
        gggcgagaggggcggcgggtgtgtgcagtgagtacacggcaacgccggtgcgctccccccgcgctcccgtcgccggctggaagcgtgagtgcaccagccc
                                                                                                            

Query   SGQKCNIWDFIQG <---Intron---> SRPLVLNFGSCTUPSFLLKFDQFKRLVDDFASTADFLIIYIEEAHATD <---Intron---> GWAFKNN
        |||/||||||/|| <   9987bp   > /|||||||||||||||/ |||||||| /||/| |||||||||||||/| <   5189bp   > |||||||
Target  SGQRCNIWDFMQG                NRPLVLNFGSCTUPSFMFKFDQFKRLTEDFSSVADFLIIYIEEAHASD                GWAFKNN
        tgcataatgtacg                aaccgcatgatatcttatatgctaacaggtatgggtcaatagggcgtg                gtgtaaa
        cgaggatgatta                gagctttatgggcgcctttataatagtcaatgctcattttataacacc                aggctaaa
        aaggcctgctga                ccgcgggttattcatatgcatcacgattacttcaattcctctaaataa                tcgtcgcc
                                                 *                                                          

Query   VDIRQHRSLQERVRAARMLLARSPQCPVVVDTMQNQSSQLYAALPERLYVIQEGRICYK <---Intron---> GKAGPWNYNPEEVRAVLEKLCT
        |||| |//||/|//|| /||||||||||||||||||||/||||||||||/|||||| || <   2964bp   > ||/||||||||||| ||||| /
Target  VDIRNHQNLQDRLQAAHLLLARSPQCPVVVDTMQNQSSELYAALPERLYIIQEGRILYK                GKSGPWNYNPEEVRDVLEKLHS
        ggaaaccaccgcccggccccgaacctcggggaacacaagctggccgactaacggaacta                gatgctatacgggcggcgacca
        tatgaaaataagtaccatttcggcagctttactaaaggatacctcagtattaaggttaa                gacgcgaaacaatgattaatag
        gccgtcgctgccggactgggcgccgctgagcgggcgccgccaagtggccacgacgcccg                tacctgcctagattttgaacct
                                                                                                         
------- positions -------
Exon 1    31650715     31651051
Exon 2    31640584     31640727
Exon 3    31635195     31635394
Exon 4    31632165     31632230

--------- SECIS ---------
>DI.4.selenocysteine.esecis:str.1 chromosome:gi|357434255|gb|JH378108.1| strand:- positions:31631128-31631220 species:"Saimiri boliviensis" target:/cursos/BI/genomes/project_2013/Saimiri_boliviensis/genome.fa distance_from_sec_uga:1313 distance_from_cds:944
GUUUUAACUC UGUGUCUU UACAUAUUUGUUU AUGAU GGCCACAGCCU AA AGUAUACA CGGCUGUGACU UGAU UCAA AAGAAAA UGUUAUAAGA
((....)).. ....(((( .((((.(((.((( .(((( ((.(((((((. .. ........ .))))))).)) )))) ..)) ).))).) )))...))))

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