Output_id:  TR.34.selenocysteine
----------  --------------------
-Species        Chlorocebus sabaeus                          -Taxid 60711
-Target         /home/U73970/luke/Selenoprofiles/selenoprofiles_3_installation/genome_linked/genome.fa
-Chromosome (+) gi|511782574|gb|CM001960.1|
-Program        genewise
-Query name     gi|27807131|ref|NP_777051.1| thioredoxin reductase 2 precursor [Bos taurus] gi|190359067|sp|Q9N2I8.2|TRXR2_BOVIN RecName: Full=Thioredoxin reductase 2, mitochondrial_ AltName: Full=Thioredoxin reductase TR3_ Flags: Precursor gi|5360756|dbj|BAA82153.1| th
-Query range    3-511      length:511   coverage: 1.0
-Profile range  3-1345     length:1345  coverage: 1.0    sec_position: [1344]
-ASI:           0.4557     (ignoring gaps: 0.5566)
-AWSIc:         0.7929     Z-score: 0.75
-AWSIw:         0.8007     Z-score: 1.011
-State          kept

------- alignment -------
Query   ---ALRGAAARFR-------GRAPGGARGAAG <---Intron---> RQCYDLLVIGGGSGGLACAKEA <---Intron---> AQLGKKVAVLDYVE
           ||||   |||       |   | |||||| <   9885nt   > // ||||||||||||||||||| <  11186nt   > ||||/||||/||||
Target  MAVALRGLGGRFRWRTQAVAGGVRGAARGAAG                QRDYDLLVIGGGSGGLACAKEA                AQLGRKVAVVDYVE
        agggccgtggctctcacggggggcgggcgggg                ccgtgccgagggtggcgtgagg                gccgaagggggtgg
        tctctggtgggtgggcactcggtggccggcc    gt     ag   gagaaattttgggcggtcgcaa    gt     ag   ccatggatcttaata
        ggggggaaagccgggggtggcgagctggcga                tggcttcggtcgatccgttcgg                ctggagggcggccga
                                                                                                            

Query   PSPQG <---Intron---> TRWGLGGTCVNVGCIPKKLMHQAALLGGMIRDAPHYGWGVAQ-APHSW <---Intron---> ATLADAVQNHVKSLN
        ||||| <   1151nt   > ||||||||||||||||||||||||||||/||||||||| |||  || | <   627nt    >   /|/||||||||||
Target  PSPQG                TRWGLGGTCVNVGCIPKKLMHQAALLGGLIRDAPHYGWEVAQPVPHDW                RKMAEAVQNHVKSLN
        ctccg                actgcggatgaggtacaacaccggccggcacggcctgtgggccgccgt                aaaggggcacgatta
        ccca    gt     ag   gcgggtggcgtatggtcaattaaccttggttgaccaaggatcactcaag   gt     ag    gatcactaaatacta
        ttca                ccggcctcccctgccccggggcggaggacgcatcccccgggcgcggtc                ggggaattatcggcgc
                                                                                                            

Query   WGHRIQLQDR <---Intron---> KVKYFNVKASFVDTHTVCGVSKGGEE <---Intron---> TLLSAEHIVIATGGRPRYPTH <---Intron
        ||||/||||| <   2333nt   > ||||||/|||||| ||||||/|||/| <   487nt    >  ||||/||/|||||||||||| <   3763nt
Target  WGHRVQLQDR                KVKYFNIKASFVDEHTVCGVAKGGKE                ILLSADHIIIATGGRPRYPTH           
        tgccgcccga                agattaaagatgggcagtgggaggag                acctggcaaagaggccatcac           
        ggagtataag   gt     ag    ataatatacgttaaactggtcaggaa   gt     ag    tttccaatttccgggcgacca   gt     a
        gcctcgggc                aacgctccaccttcgcgtcctcatgag                tgaatcccctttaggggccgc           
                                                                                                            

Query   ---> IEGALEYGITSDDLFWLKESPGKT <---Intron---> LVVGASY <---Intron---> VALECAGLLTGLGLDTTVMIRSVPLRAFDQ <
           > |||||||||||||/|||||||||| <  10587nt   > ||||||| <   910nt    > ||||||| |||/||||||||||/||| ||| <
Target       IEGALEYGITSDDIFWLKESPGKT                LVVGASY                VALECAGFLTGIGLDTTVMIRSIPLRGFDQ  
             agggtgtgaaaggattcagtcgaa                tggggat                ggcgtggtcagagcgaagaacaacccgtgc  
        g    tagctaagtcgaattgtaaccgac   gt     ag    tttgcg    gt     ag   atctagcgttcgtgtacctttggtctggtaa  
             catcgatacattcctgggactaa                gggcgcc                cgcggttccctgcggctccgacccccccccg  
                                                                                                            

Query   ---Intron---> QMASLVTEHMAGHGTRILRGCAPEKVEKLPGQQLRVTWVDLTSDRKDAGTFDTVLWAIG <---Intron---> RVPETASLNLE
           2782nt   > ||/|/| |||| |||| |||||| /| /||   |/||| | |/ //| ||||||||||| <  12483nt   > |||/| |||||
Target                QMSSMVIEHMASHGTRFLRGCAPSRVRRLPDGHLQVTWEDHTTGKEDTGTFDTVLWAIG                RVPDTRSLNLE
                      cattagagcagtcgactcagtgctcgaaccggcccgatggcaagaggagatgagctgag                cgcgaaacatg
         gt     ag    atcctttaatccagcgttgggcccgtggtcagatatcgaaaccgaaacgctacttgct    gt     ag   ggtcacggtata
                      agccgcagcgattccgcggctcccacggcttccggccggccctcggcacccctcggca                taaaccatgtgg
                                                                                                            

Query   KAGVHTNPVTGKILVDAQETTSVPHIYAIGDVAE <---Intron---> GRPELTPTAIMAGRLLAQRLSGRTSDLMDYSS <---Intron---> VP
        |||| |/| | |||||//| |||||||||||| | <   2605nt   > |||||||||||||||| ||| | /|||||| / <   351nt    > ||
Target  KAGVDTSPDTQKILVDSREGTSVPHIYAIGDVVE                GRPELTPTAIMAGRLLVQRLFGGSSDLMDYDN                VP
        aggggaacgacaacggtcggatgccatgaggggg                gccgcacagaaggaccgccctggttgcagtga                gc
        acgtacgcacaatttacgagcctcatactgatta   gt     ag    ggcatccccttcggtttagttggccattaaaa   gt     ag    tc
        gtgattccctggcggccgacctgcccccttcggg                ggtggacgtcgtggcggggcccgcacggctct                tc
                                                                                                            

Query   TTVFTPLEYGCVGLSEEAAVARHGEEHVE <---Intron---> VYHAFYKPLEFTVPQRDASQCYIK <---Intron---> MVCLREPPQLVLGLH
        ||||||||||||||||| ||||||/|||| <   1722nt   > |||| ||||||||  |||||||/| <   178nt    > |||||||||||||||
Target  TTVFTPLEYGCVGLSEEEAVARHGQEHVE                VYHAHYKPLEFTVAGRDASQCYVK                MVCLREPPQLVLGLH
        aagtaccgtgtggctggggggccgcgcgg                gtcgctaccgtagggcggtcttga                agtcagccccgcgcc
        ccttcctaaggtgtcaaactcgagaaata   gt     ag    taacaaactatctcggaccagata   gt     ag    ttgtgaccatttgta
        tccccgggtctgggcgggagtccgggttg                ctccttagggcggtagtacgttag                ggcgggcgggggcgc
                                                                                                            

Query   FLGPNAGEVIQGFALGIK <---Intron---> CGASYQQLMRTVGIHPTCAEEVAKLRISKRSGLDPTVTGCUG
        ||||||||| |||||||| <   855nt    > ||||| |/||||||||||/||| |||||||||||||||||||
Target  FLGPNAGEVTQGFALGIK                CGASYAQVMRTVGIHPTCSEEVVKLRISKRSGLDPTVTGCUG
        tcgcaggggacgtgcgaa                tggttgcgacaggaccattggggaccatactgcgcagagttg
        ttgcacgatcagtctgta   gt     ag    ggccacattgctgtaccgcaattatgtcagcgtacctcgggg
        ctcccacattaattggc                gtgcccgggggcgtctcaccggacggcccgcacgccggaccag
                                                                                  * 
------- positions -------
Exon 1    5803213      5803306
Exon 2    5813192      5813257
Exon 3    5824444      5824500
Exon 4    5825652      5825796
Exon 5    5826424      5826498
Exon 6    5828832      5828910
Exon 7    5829398      5829460
Exon 8    5833224      5833294
Exon 9    5843882      5843901
Exon 10   5844812      5844903
Exon 11   5847686      5847860
Exon 12   5860344      5860480
Exon 13   5863086      5863181
Exon 14   5863533      5863625
Exon 15   5865348      5865419
Exon 16   5865598      5865695
Exon 17   5866551      5866677

-------- features -------
None
--------- 3' seq --------
Total sequence length available downstream >= 6000
Sequence until first stop codon: 
TAA
 *