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

 Blastx evalue: 4e-21
 Query name: gi|884952294|ref|XP_010863851.2| PREDICTED: redox-regulatory protein FAM213A-like [Esox lucius]
 Query range: 1-213  (total 218)

 Target: /data/www-rg/seblastian_results/219669193/tempfiles/temptarget.fasta
 Chromosome: CM007950.1:subseq_16260335,106876_ Strand: +
 Positions:
 -Exon 1  49338        49482
 -Exon 2  49995        50086
 -Exon 3  50838        50978
 -Exon 4  51158        51322
 -Exon 5  51454        51549

 Redox box: YES

Query   MDVVVQSAGAFVAFIATALRSFTDLFLTQPSRATLKYLEETELKPSRGE <---Intron---> LIPFKAKQLWEMSGAVVMAVRRPGUFLCRE <---
        ||||||| || |  ||| ||||/|||||||||||||/||||/|||  |  <   512bp    >   | ||| ||| ||||/||||||||||||| <   
Target  MDVVVQSLGAVVTLIATGLRSFSDLFLTQPSRATLKHLEETDLKPLTGA                RKPLKAKCLWEKSGAVIMAVRRPGUFLCRE     
        aggggcttggggacagagtcttagtttacctagacactggagcactagg                cactagatttgatgggaaggaccgttttag     
        tatttactgcttcttccgtgctgatttcaccgcctaataacatactcg                cgactacagtgaacgctttctggcggttgga     
        gttgcgagcattcactttgctcccgtgggagacccataggtccaagaa                gtgtggcatagggtaatcgaaggtaatgcag     
                                                                                                 *          

Query   Intron---> EAAELSSLKPQLDELGVPLYAVVKEDMGTEIQNFRPYFSGEIFVDEK <---Intron---> RHFYGPRERKMGLLAFLRVGVWMNGL
        751bp    > ||||||||||||/|||| ||||||||/|||||||||||/||||/||| <   179bp    > | ||||||||||||||||/|||||||
Target             EAAELSSLKPQLEELGVSLYAVVKEDIGTEIQNFRPYFNGEIFIDEK                RCFYGPRERKMGLLAFLRLGVWMNGL
                   ggggcttcacccggcggtctgggaggagagacatacttaggatagga                atttgccgcaagctgtcccggtaagc
                   accatcctacataatgtctacttaaatgcataatgcatagatttaaa                ggtagcgagatgttcttgtgtgtagt
                   gctggctggcggggtgttgtcagggcccagcgccaccctggccttag                atctgctgtggtgggtctgcgggttg
                                                                                                            

Query   RAFKRGFLGNVFGEGFVLGGVFVIGAGQQ <---Intron---> GILLEHREMEFGDKVNILEVLKAARKVERELV
        |||| |||||||||||||||||||||||| <   131bp    > |/||||||||||||||||/||||||||/ |||
Target  RAFKNGFLGNVFGEGFVLGGVFVIGAGQQ                GVLLEHREMEFGDKVNILDVLKAARKVQTELV
        cgtaagttgagtgggtgcgggtgagggcc                ggccgcagagtggagaacggcaggaagcagcg
        gctaagttgattgagtttggttttgcgaa                gtttaagatatgaatattattaccgatacatt
        accgcccaatgtaactggtggcctaacgg                tagggcggggcgtgcctatcgatcaaaatatc
                                                                                     
 Sequence until next stop: 
TTTGGAGAAGTAATGTGA
 F  G  E  V  M  * 

 Distance CDS-SECIS: 140 ; UGA-SECIS: 557

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = CM007950.1:subseq_16260335,106876_ Strand = + Positions = 51690 - 51759
 Found by:  Infernal (score=33.83) Covels (score=35.81)
 Stem2 length = 9   Apical loop length = 15   Insertion in stem2 = 1, 0
 Free Energy = -22.96

         ..(((((((.......((((((((((.((.(((...............))))).))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccug-gc-ccuAAAcCcuuuuuggggcgggc-caggcCuGAUGuuuuuucaugaccggc
         ...(((((((--....{[[{((((((.--(((......--.........))--)))))))}]]}..--..-)))))))...
 target  UCGGCGUGUG--UUUAUGAUGGUCUGU--GUCUAAACU--CUGUUGAGUGA--CCAGACUUGAUGC--UU-UACACGCAAG
                         ****             ^^^                        ****                 
_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:2     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 7e-43
 Query name: gi|992183261|ref|XP_015458050.1| PREDICTED: redox-regulatory protein FAM213A isoform X1 [Astyanax mexicanus]
 Query range: 112-329  (total 333)

 Target: /data/www-rg/seblastian_results/219669193/tempfiles/temptarget.fasta
 Chromosome: CM007950.1:subseq_16260335,106876_ Strand: +
 Positions:
 -Exon 1  55767        55944
 -Exon 2  56139        56227
 -Exon 3  56323        56463
 -Exon 4  56541        56708
 -Exon 5  56805        56885

 Redox box: YES

Query   SSVLEGETLAMGMWSLGLGAVGAAIAGIILANTDFFLTKPEHATVDHLEDADLKTTLGDE <---Intron---> KTFKAKTLWETSGAVIMAVRRPGU
        | /|||| |// /||/||| /   //|/|||||| ||||   /|//|||/ /||/|   / <   194bp    > || ||//||| /|||/||||||||
Target  SFLLEGEPLSLSVWSVGLGVLVVWLSGLILANTDLFLTKSAPSTLEHLENMELKSTPAAD                KTVKARSLWEKTGAVLMAVRRPGU
        ttccgggcctcagttggcggcggtctgcatgaagctcaatgctacgctgaagcatacggg                aagagaactgaagggcaggaccgt
        ctttagactctgtgctgtgttttgtcgtttcacatttcaccccctaataatataccccc                aactacggtgaacgctttctggcgg
        tccggggcgccttgtgcccggtcggtctcgcctcgcgcgacgctggcggcggcaaacac                tgttacgtggagttgacgtggccaa
                                                                                                           *

Query   FLCRE <---Intron---> EAAELSSLKPQLDQLGVPLYAVVKEDINTEIQDFRPHFTGDIFLDEK <---Intron---> QAFYGPIQRKIGV-LG
         |||| <    95bp    > ||||||||||||//||| ||||||||| ||||/|||/| |/||/||| <    77bp    > | ||||  |//|/ ||
Target  SLCRE                EAAELSSLKPQLEELGVSLYAVVKEDIGTEIQNFRPYFNGEIFVDEK                QCFYGPKPRRMGLGLG
        tttag                ggggcttcacccggcggtctgggaggagagacatacttaggatggga                ctttgcacaaagcgcg
        ctgga                accatcctacataatgtctacttaaatgcataatgcatagatttaaa                agtagcacggtgtgtg
        cacag                gctggctggcggggtgctgtcagggcccagcgccaccctggttgtgg                atcttcgggggagttt
                                                                                                            

Query   FIRLGVWQNFIRAWKSGYQGNMNGEGFILGGVFVIGSGKQ <---Intron---> GILLEHREKEFGDKVNTESVLEAAKKI
          ||||||| /|| | |||||  |||||||||/|||/||| <    96bp    > |||||||||||||| /  |||/|||||
Target  LARLGVWQNLLRARKKGYQGNKKGEGFILGGVYVIGAGKQ                GILLEHREKEFGDKADHPSVLQAAKKI
        cgccggtcacccgaaagtcgaaagggtacgggtgagggac                gaccgccgagtggaggcctgccggaaa
        tcgtgtgaattgcgaagaagaaagagtttggtattgcgaa                gtttaagaaatgaacaaccttaccaat
        gttgggggcctacgggtcgtcggggccccttttgtaagag                ttgggcggggtgcatctctcgggaggc
                                                                                           
 Sequence until next stop: 
AAGAAGGGGAAATAG
 K  K  G  K  * 

 Distance CDS-SECIS: 2142 ; UGA-SECIS: 2547

------- SECIS element -- id:2 -- grade:A ----
 Chromosome = CM007950.1:subseq_16260335,106876_ Strand = + Positions = 59028 - 59095
 Found by:  Infernal (score=24.28) Covels (score=24.6)
 Stem2 length = 8   Apical loop length = 13   Insertion in stem2 = 1, 0
 Free Energy = -19.62

         ..(((((((.......((((((((((((.(((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggc-ccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..((((((((--....{[[{({(((((-.((..........-----...))-)))))})}]]}..--..-))))))))..
 target  UGUGAGUGUG--UUAAUGAUGGUCUGG-GUCUAAACUGUUG-----AGCGA-CCAGAGCUGAUGC--AU-CACACUCAGU
                         ****            ^^^                        ****