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

 Blastx evalue: 9e-12
 Query name: gi|942054491|ref|XP_005895759.2| PREDICTED: ethanolaminephosphotransferase 1 [Bos mutus]
 Query range: 1-397  (total 397)

 Target: /data/www-rg/seblastian_results/322516897/tempfiles/temptarget.fasta
 Chromosome: JAHTZZ010000008.1:subseq_73767401,100212_ Strand: -
 Positions:
 -Exon 1  85181        85237
 -Exon 2  67080        67148
 -Exon 3  66520        66628
 -Exon 4  64220        64294
 -Exon 5  59888        60150
 -Exon 6  58870        58978
 -Exon 7  52181        52229
 -Exon 8  50006        50186
 -Exon 9  48643        48825
 -Exon 10 46523        46618

 Redox box: no

Query   MASYEYVSPEQLAGFDKYK <---Intron---> YSAVDTNPLSLYVMHPFWNTVVK <---Intron---> VFPTWLAPNLITFSGFLLVVFNFLLL
        ||||||||||||||||||| <  18032bp   > ||||||||||||||||||||||| <   451bp    > ||||||||||||||||||||||||||
Target  MASYEYVSPEQLAGFDKYK                YSAVDTNPLSLYVMHPFWNTVVK                VFPTWLAPNLITFSGFLLVVFNFLLL
        agatgtgacgccggtgata                tagggaacctctgaccttaagga                gtcatcgcacaattgtccggtatcct
        tcgaaatgcaatcgtaaaa                agctacactctattactgactta                ttccgtccattctcgttttttatttt
        gatcacgcggggtcttgcg                cttgtctactgtcgcatgctaag                atttggtatgacctctggtgcttatg
                                                                                                            

Query   AYFDPDFYASA <---Intron---> PGHKHVPDWVWIVVGILNFMAYTLD <---Intron---> GVDGKQARRTNSSSPLGELFDHGLDSWSCVYF
        ||||||||||| <   2225bp   > ||||||||||||||||||||||||| <   4069bp   > |||||||||||||/||||||||||||||||||
Target  AYFDPDFYASA                PGHKHVPDWVWIVVGILNFMAYTLD                GVDGKQARRTNSSTPLGELFDHGLDSWSCVYF
        gttgcgttgtg                cgcacgcgtgtagggacatagtacg                ggggacgcaaataaccggctgcgcgatttgtt
        catacatacc                ccgaaatcagtgtttgttattcact                agtagaacggcacgcctgattaagtaggcgtat
        actttcttaa                aatcgtaccgcgtagcccccgccta                ttgcagaccgctcccggggttctcgttgattct
                                                                                                            

Query   VVTVYSIFGRGSSGVSVFLLYLLLWVVLFSFILSHWEKYNTGILFLPWGYDISQV <---Intron---> TISFVYIVTAVVGVEAWYEPFLFNFLYRD
        ||||||||||||||||||/|||||||||||||||||||||||||||||||||||| <   909bp    > |||||||||||||||||||||||||||||
Target  VVTVYSIFGRGSSGVSVFVLYLLLWVVLFSFILSHWEKYNTGILFLPWGYDISQV                TISFVYIVTAVVGVEAWYEPFLFNFLYRD
        ggagttatgcgttggagtgctccctggttttactctgataagactcctgtgaacg                aattgtagagggggggttgctctatttag
        ttctacttgggccgtgttttatttgttttctttcagaaaacgttttcggaatgat                ctcttattccttgtacgaactttattaga
        tccgtcttaaaattcttttttcgagatattccgtcgagtcagttcgagatctcgg                ttttccagtgtgatgcgtatcgttcatac
                                                                                                            

Query   LFTAMIFG <---Intron---> CALCVTLPMSLLNFFR <---Intron---> SYKNNTLKHNSVYEAVVPFFSPCLLFILSTAWILLSPSDILELH
        |||||| | <   6640bp   > |||||||||||||||| <   1994bp   > ||||||||||||||||||||||||||||||||||||||||||||
Target  LFTAMIIG                CALCVTLPMSLLNFFR                SYKNNTLKHNSVYEAVVPFFSPCLLFILSTAWILLSPSDILELH
        ctagaaag                tgctgaccaattatta                ataaaatacatgtggggctttcttctattagtacctctgatgtc
        ttccttt                ggctgtctctgttattg                gaaaactaaactaacttcttccgtttttcccgtttcccattata
        actagct                ttagtgttagtgattt                actatcggactactatgtccttatgactgtaagccgatattagac
                                                                                                            

Query   PRVFYLMVGTAFANST <---Intron---> CQLIVCQMSSTRCPTLNWLLLPLFVIVMVVNVGVTPYVESILLFTLTAAFTLAHIHYGVRV <---In
        |||||||||||||||| <   1180bp   > |||||||||||||||||||||||||||||||||||||||||||||||| |||||/|||||| <   20
Target  PRVFYLMVGTAFANST                CQLIVCQMSSTRCPTLNWLLLPLFVIVMVVNVGVTPYVESILLFTLTAVFTLAHVHYGVRV       
        cagtttaggagtgaaa                tccagtcaaaactcatatttccctgagaggagggactggaacctacaggtatgcgctggcg       
        cgttatttgcctcagc                gatttgatggcggcctagtttcttttttttatgtccatagttttctccttctcataagtgt       
        tagccagtaactccca                tggtttagctcgcatgcgggttttgtcgggtaaactctgctcgtaagttctgctcctaaag       
                                                                                                            

Query   tron---> VKQLSNHFHIYPFSLRKPNSDULGVEEKNIGL
        24bp   > ||||||||||||||||||||||||||||||||
Target           VKQLSNHFHIYPFSLRKPNSDULGVEEKNIGL
                 gaccaactcatctttaacatgtcggggaaagc
                 taatgaatatactctgacacagtgtaaaatgt
                 agggccttctcccagaaacataaagaagttcg
                                      *          
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 1364 ; UGA-SECIS: 1394

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JAHTZZ010000008.1:subseq_73767401,100212_ Strand = - Positions = 45158 - 45081
 Found by:  Infernal (score=25.8) Covels (score=22.61)
 Stem2 length = 10   Apical loop length = 19   Insertion in stem2 = 0, 1
 Free Energy = -5.01

         ..(((((((.......(((((((((((((((.................))))).))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggc-caggcCuGAUGuuuuuucaugaccggc
         ...(({({((......{[[[((((((((((...................))).)))))))]]]}..--..-))})}))...
 target  GAAGUUUGUGCUUGAAUGAAGAGUGUAUCUUAAACCCUUUUUUUUGGACGGAUUGCACUUGGAUAA--AA-UAGGCACCAC
                         ****           ^^^                          ****