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

 Blastx evalue: 1e-28
 Query name: gi|226874853|ref|NP_001152871.1| selenoprotein M precursor [Macaca mulatta]
 Query range: 1-145  (total 145)

 Target: /var/www/seblastian_output/492893262/tempfiles/temptarget.fasta
 Chromosome: gi|511782574|gb|CM001960.1| Strand: -
 Positions:
 -Exon 1  52365        52493
 -Exon 2  50907        50942
 -Exon 3  50656        50690
 -Exon 4  50235        50313
 -Exon 5  50000        50155

 Redox box: YES

Query   MSLLLPPLALLLLLAALVAPATAATAYRPDWNRLSGLTRARVE <---Intron---> TCGGUQLNRLKE <---Intron---> VKAFVTQDIPFY 
        ||||||||||||||||||||||||||||||||||||||||||| <   1422bp   > |||||||||||| <   216bp    > |||||||||||| 
Target  MSLLLPPLALLLLLAALVAPATAATAYRPDWNRLSGLTRARVE                TCGGUQLNRLKE                VKAFVTQDIPFY 
        aacctcccgcccccggcggcgaggagtccgtaccagcacgcgg                atggtccaccag                gagtgacgactt 
        tgtttcctctttttccttccccccccagcagagtggtcgcgta                cggggatagtaa                tacttcaatcta 
        gccggtggggggtcggtgcacacctccggcgttgccgcccgag                ctgaaggtcagg                ggtcccgctac  
                                                                       *                                    

Query   <---Intron---> HNLVMKHLPGADPELVLLGRRYEELER <---Intron---> IPLSEMTREEINALVQELGFYRKAAPDAQVPPEYVWAPARPP
        <   342bp    > ||||||||||||||||||||||||||| <    79bp    > ||||||||||||||||||||||||||||||||||||||||||
Target                 HNLVMKHLPGADPELVLLGRRYEELER                IPLSEMTREEINALVQELGFYRKAAPDAQVPPEYVWAPARPP
                       cacgaacccgggcgcgccgcctggcgc                accagaacggaagcgcgcgttcaggcggcgccgtgtgcgacc
                       aatttaatcgcacattttgggaaata                gtctgatcgaatacttaatgtagacccacatccaatgcccgcc
                      tccgggacctgcctgcgggccccgagg                cagctagccagccgggggctcccgggccgggccgcgggctgcg
                                                                                                            

Query   EETSDHADL
        |||||||||
Target  EETSDHADL
        ggatgcggc
        aaccaacat
        gatgccccg
                 
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 42 ; UGA-SECIS: 333

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|511782574|gb|CM001960.1| Strand = - Positions = 49957 - 49883
 Found by:  Infernal (score=17.49) Covels (score=19.77)
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -24.07

         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .((((({(((--....{[[{(({(((((((..................)))))))}))}]]}..--...)))}))))).
 target  UCCUGGAGAC--AGAAUGAAGCGCUCAGCAUCCCGGGAAUACCUCUCUUGCUGAGGGCCGAUGC--CCCGUCCCCGGGC
                         ****           ^^                         ****                 
_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |        newSP         |  secis_index:2     SeB_exonerate category:ALI_X |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 1e-06
 Query name: gi|402854833|ref|XP_003892057.1| PREDICTED: LOW QUALITY PROTEIN: putative tyrosine-protein phosphatase auxilin [Papio anubis]
 Query range: 699-740  (total 1012)

 Target: /var/www/seblastian_output/492893262/tempfiles/temptarget.fasta
 Chromosome: gi|511782574|gb|CM001960.1| Strand: +
 Positions:
 -Exon 1  2688         2813

 Redox box: no

Query   WCVPGVPATWEAEMGELLEPRKLRLQXAEITPLHSSLGDRVR
        | |  /||||||| |||||| | ||/ ||| |||||||/| |
Target  WFVSIIPATWEAETGELLEPGKWRLKUAEIVPLHSSLGNRAR
        ttgtaacgatgggaggtcgcgatatatggagctctacgaaga
        gttcttcccgacacgattacgaggtagcattctacgtgagcg
        gtgtacataggtggaagtatgaggggacgcgaacccgccaga
                                  *               
 Sequence until next stop: 
TTCTGTCTCACAAAAAGAGAAACATTAGCTAATATTACCCTCAGCATGGATACTCCTACCAGTCTGATGTTCTATTTTAGGCACTTAGTACCATAA
 F  C  L  T  K  R  E  T  L  A  N  I  T  L  S  M  D  T  P  T  S  L  M  F  Y  F  R  H  L  V  P  * 

 Distance CDS-SECIS: 1597 ; UGA-SECIS: 1642

------- SECIS element -- id:2 -- grade:B ----
 Chromosome = gi|511782574|gb|CM001960.1| Strand = + Positions = 4411 - 4495
 Found by:  Infernal (score=13.24) Covels (score=2.81)
 Stem2 length = 9   Apical loop length = 13   Insertion in stem2 = 1, 0
 Free Energy = -10.32

         ..(((((((.............((((((((((((.(((...............)))))))))))))))...........)))))))..
 model   uucggucaugcg------UuaAUGAcGgccuggc-ccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu--u-uuucaugaccggc
         ...(((((((............{[[{((((({((.({(.....--........)})))})))))}]]}.......-..)))))))...
 target  CCUAGGCUGGAGCACAAUGGCAUGAUCUUGGCUCACUGCAACC--UCUACCUCCUGGAUUCAAGUGAUUCUUCUG-CCUCAGCCUCCG
                               ****             ^^                       ****