
genewise output
Score 938.64 bits over entire alignment
Scores as bits over a synchronous coding model

Warning: The bits scores is not probablistically correct for single seqs
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SPP00000065_2.0    1 MNRESFAAGERLVSPAYVRQGCEARRSHEHLIRLLLEK            
                     MN ESFAAGERLVSPAYVRQGCEARR+HEHLIRLLLE+            
                     MNPESFAAGERLVSPAYVRQGCEARRTHEHLIRLLLEQ            
gi|411115941|-135914 aacgatggggacgtcgtgccgtggccacgccaccccgc            
                     tacagtccgagttcccatgaggacggcaaattgtttaa            
                     gcggtcgctggggggccgggctgcccgcgcccggtggg            


SPP00000065_2.0   39                        GKCPENGWDESTLELFLHELAIMDSN 
                                            GKCPE+GWDESTLELFLHELAIMDSN 
                                            GKCPEDGWDESTLELFLHELAIMDSN 
gi|411115941|-135800 GTATCGA  Intron 1   AAGgatcgggtggaacgctccgcgaagaa 
                     <0-----[135800:13499-0>gagcaaggaagctatttaatcttaga 
                                            catagttgtatatactataggcgtcc 


SPP00000065_2.0   65 NFLGNCGVGEREGRVASALVARRHY                         
                     NFLGNCGVGEREGRVASALVARRHY                         
                     NFLGNCGVGEREGRVASALVARRHY           R:R[agg]      
gi|411115941|-134920 atcgatggggaggaggtgtggccctAGGTATATT  Intron 2      
                     attgaggtgagaggtcccttcggaa  <2-----[134843:132678  
                     tcgccttgaagagagtgtattgttc                         


SPP00000065_2.0   90     FIHGIGRSGDISAVQPKAAGSSLLNKITNSLVLDIIKLA       
                         FIHGIGRSGDISAVQPKAAGSSLLNKITNSLVLDIIK+A       
                         FIHGIGRSGDISAVQPKAAGSSLLNKITNSLVLDIIKMA       
gi|411115941|-132680 TAGGtacgagctggatggccagggtactaaaaattgcgaaaag       
                     -2> ttagtggcgatcctacaccgcgttaatcactttattatc       
                         cttataaatttttgaaatattctgcatcttgcgccaggt       


SPP00000065_2.0  130                           VHTVANCFVVPMATGMSLTLCFL 
                                               VH+V NCFVVPMATGMSLTLCFL 
                               G:G[ggt]        VHSVTNCFVVPMATGMSLTLCFL 
gi|411115941|-132559 GGTATGTA  Intron 3   TAGGTgctgaattggcagagaacacttt 
                      <1-----[132558:12973-1>  tactcagtttctccgtgtctgtt 
                                               ctagctctagtgattgtatgtcg 


SPP00000065_2.0  154 TLRHKRPKAKYIIWPRIDQKSCFKSMITA                     
                     TLRHKRPKAKYIIWPRIDQKSCFKSMITA                     
                     TLRHKRPKAKYIIWPRIDQKSCFKSMITA                     
gi|411115941|-129661 atccaacagataatccagcatttataaag                     
                     ctgaagcacaattgcgtaaacgtacttcc                     
                     aaacaaagagttagaaacggcctacgcta                     


SPP00000065_2.0  183                           FEPVVIENVLEGDELRTDLKAVE 
                                               FEPVVIENVLEGDELRTDLKAVE 
                               G:G[ggt]        FEPVVIENVLEGDELRTDLKAVE 
gi|411115941|-129574 GGTAAAAG  Intron 4   TAGGTtgcggagagtggggccagcaggg 
                      <1-----[129573:12657-1>  tactttaattagaatgcatacta 
                                               tgcggagctaattggcacgaaaa 


SPP00000065_2.0  207 AKVQELGPDCILCIHSTTSCFAPRVPD                       
                     AK+QELG D +LC+HSTTSCFAPRVPD                       
                     AKIQELGSDNVLCVHSTTSCFAPRVPD           R:R[aga]    
gi|411115941|-126507 gaacgcgtgagctgctaatttgcagcgAGGTAAATG  Intron 5    
                     cataatgcaattgtaccccgtccgtca  <2-----[126424:123037
                     tacgatgtttggtttttactttagatc                       


SPP00000065_2.0  234     LEELAVICANYDIPHIVNNAYGVQSSKCMHLIQQ            
                         LEELA+ICA+Y +PHIVNNAYG+QSSKCMHLIQQ            
                         LEELALICASYGVPHIVNNAYGLQSSKCMHLIQQ            
gi|411115941|-123039 TAGAtggcgcatgttggccagaagtgtcttataccacc            
                     -2> taatcttgccagtcattaacagtaccagtattaa            
                         aaagtgtttttctatacctttaggtagtgcctgg            


SPP00000065_2.0  269                        GARVGRIDAFVQSLDKNFMVPVGGAI 
                                            GARVGRIDAFVQSLDKNFMVPVGGAI 
                                            GARVGRIDAFVQSLDKNFMVPVGGAI 
gi|411115941|-122933 GTAAGAG  Intron 6   TAGggcggaaggtgcatgaatagcgggga 
                     <0-----[122933:11572-0>gcgtggtacttagtaaatttctggct 
                                            gtgtaaattctgcgcattgtaatcta 


SPP00000065_2.0  295 IAGFNDSFIQEISKMYP                          RASASP 
                     IAGFND FIQEISKMYP                          RASASP 
                     IAGFNDFFIQEISKMYP          G:G[gga]        RASASP 
gi|411115941|-115645 aggtagttacgaaaatcGGTAAATA  Intron 7   CAGGAagtgtc 
                     tcgtaatttaatgatac <1-----[115593:11546-1>  gccccc 
                     ttctttcctgaccggta                          atatat 


SPP00000065_2.0  319 SLDVLITLLSLGSNGYKKLLKERK                       EM 
                     SLDVLITLLSLGSNGYKKLLKERK                       EM 
                     SLDVLITLLSLGSNGYKKLLKERK                       EM 
gi|411115941|-115443 ttggcaatttcgtagtaactagaaGTAAGCT  Intron 8   CAGga 
                     ctatttcttctgcagaaattaaga<0-----[115371:10629-0>at 
                     tatctttaaataatctgaaaaaag                       ag 


SPP00000065_2.0  345 FSYLSNQIKKLSEAYNERLLHTPHNPISL                     
                     FSYLS Q+KKL+EAY+ERLLHTPHNPISL                     
                     FSYLSIQLKKLAEAYDERLLHTPHNPISL                     
gi|411115941|-106292 tttttaccaacgggtggactcaccacatt                     
                     tcatctataatcacaaagttaccaactct                     
                     tatgccaagggaacctaaggtatctcata                     


SPP00000065_2.0  374                           MTLKTLDEHRDKAVTQLGSMLFT 
                                               +TLKTLDEHRDKAVTQLGSMLFT 
                               A:A[gct]        VTLKTLDEHRDKAVTQLGSMLFT 
gi|411115941|-106205 GGTAATTT  Intron 9   CAGCTgacaacggccgaggaccgtacta 
                      <1-----[106204:10173-1>  tctactaaagaactcatgctttc 
                                               gatgaatgctcatctgtcagttc 


SPP00000065_2.0  398 RQVSGA                          VVPLGSMQTVSGYTFRG 
                     RQVSGA                          VVPLG++QTVSGYTFRG 
                     RQVSGA           R:R[aga]       VVPLGAVQTVSGYTFRG 
gi|411115941|-101662 acgtggAGGTAATTA  Intron 10  TAGAggccgggcagagtatcg 
                     gatcgc  <2-----[101642:10029-2> ttctgctactggactgg 
                     agttac                          tgttgtgatgtcctcac 


SPP00000065_2.0  422 FMSHTNNYPCAYLNAASAIGMKMQDVDLFIKRLDRCLKAVRKERSKESD 
                     FMSHTN+YPCAYLNAASAIGMK QDVDLFIKRLD+C K VRKE+++E+D 
                     FMSHTNDYPCAYLNAASAIGMKTQDVDLFIKRLDKCFKIVRKEQNREND 
gi|411115941|-100245 tatcaagtctgtcaggtgagaaacgggttaaacgattaagaagcaagag 
                     ttcacaaacgcatacccctgtacaatatttagtaagtattgaaaagaaa 
                     cgatcttcttcccttgactaggagtgcgcagagcgtcgaaaaaatagtt 


SPP00000065_2.0  471 DN---YDKTEDVDIEEMALKLDNVLLDTYQDAS                 
                     ++    DKTEDV IEEM LKL+NVLLD ++D+S                 
                     ESGVDNDKTEDVVIEEMGLKLENVLLDKFEDSS                 
gi|411115941|-100098 gtgggagaaggggaggagtacgagccgatggtt                 
                     acgtaaaacaatttaatgtataatttaataacc                 
                     atatctcatatgttaagtaaagtattcgcgtta                 


//
Making a R in phase 2 intron
Making a G in phase 1 intron
Making a G in phase 1 intron
Making a R in phase 2 intron
Making a G in phase 1 intron
Making a A in phase 1 intron
Making a R in phase 2 intron
>gi|411115941|gb|JH977622.1|:subseq(5506391,235914).pep
MNPESFAAGERLVSPAYVRQGCEARRTHEHLIRLLLEQGKCPEDGWDESTLELFLHELAI
MDSNNFLGNCGVGEREGRVASALVARRHYRFIHGIGRSGDISAVQPKAAGSSLLNKITNS
LVLDIIKMAGVHSVTNCFVVPMATGMSLTLCFLTLRHKRPKAKYIIWPRIDQKSCFKSMI
TAGFEPVVIENVLEGDELRTDLKAVEAKIQELGSDNVLCVHSTTSCFAPRVPDRLEELAL
ICASYGVPHIVNNAYGLQSSKCMHLIQQGARVGRIDAFVQSLDKNFMVPVGGAIIAGFND
FFIQEISKMYPGRASASPSLDVLITLLSLGSNGYKKLLKERKEMFSYLSIQLKKLAEAYD
ERLLHTPHNPISLAVTLKTLDEHRDKAVTQLGSMLFTRQVSGARVVPLGAVQTVSGYTFR
GFMSHTNDYPCAYLNAASAIGMKTQDVDLFIKRLDKCFKIVRKEQNRENDESGVDNDKTE
DVVIEEMGLKLENVLLDKFEDSS
//
>gi|411115941|gb|JH977622.1|:subseq(5506391,235914).[135914:99998].sp
ATGAACCCGGAGAGTTTCGCGGCCGGTGAGAGGCTGGTGTCGCCGGCCTACGTGCGGCAG
GGCTGTGAGGCCCGCCGCACGCACGAGCACCTCATCCGGCTGCTTCTGGAGCAGGGCAAA
TGTCCAGAGGATGGTTGGGATGAAAGTACACTTGAACTCTTTCTACATGAACTGGCGATC
ATGGATAGCAACAATTTCCTGGGCAACTGTGGTGTGGGAGAAAGGGAAGGGAGAGTGGCT
TCGGCTTTAGTTGCTCGGCGTCATTACAGGTTCATTCATGGAATTGGACGATCAGGTGAT
ATTTCTGCTGTGCAACCAAAAGCTGCAGGTTCTAGCCTTTTGAACAAAATTACCAATTCT
TTGGTCCTGGACATCATAAAGATGGCTGGTGTCCATTCAGTGACCAATTGCTTTGTAGTG
CCTATGGCAACTGGTATGAGTCTAACTCTGTGTTTCTTGACATTACGACACAAAAGACCA
AAGGCAAAGTATATTATATGGCCACGAATAGACCAGAAGTCCTGCTTTAAATCCATGATC
ACTGCAGGTTTTGAGCCCGTGGTGATAGAGAACGTTTTAGAAGGTGATGAGCTGCGCACA
GACCTGAAAGCAGTAGAAGCTAAAATCCAGGAACTTGGGTCTGATAATGTGCTGTGTGTT
CATTCTACTACATCCTGTTTTGCTCCAAGGGTACCTGACAGATTAGAAGAACTGGCTCTG
ATTTGTGCTTCTTATGGCGTTCCACATATAGTCAACAATGCTTATGGATTGCAGTCTTCA
AAGTGTATGCACCTCATTCAGCAGGGGGCTCGGGTTGGAAGAATAGATGCTTTCGTTCAG
AGCTTGGACAAAAATTTTATGGTTCCAGTAGGTGGCGCTATAATTGCTGGCTTTAATGAT
TTCTTCATTCAGGAAATCAGCAAGATGTATCCAGGAAGAGCTTCAGCTTCACCTTCTTTA
GATGTCCTTATTACTTTATTATCACTTGGATCAAATGGCTATAAGAAACTATTAAAAGAA
AGAAAGGAAATGTTTTCATATTTGTCCATCCAACTAAAGAAGCTGGCAGAAGCCTACGAT
GAAAGACTGTTGCATACACCTCACAATCCCATATCTTTAGCTGTGACACTTAAGACACTA
GATGAGCACCGTGACAAAGCTGTCACTCAGCTTGGCTCAATGCTTTTTACCAGACAGGTT
TCTGGAGCCAGAGTTGTGCCTCTTGGGGCTGTGCAAACTGTGAGTGGCTACACTTTCCGA
GGCTTCATGTCACATACCAATGATTACCCTTGTGCCTACCTCAATGCTGCGTCAGCCATT
GGAATGAAGACACAGGATGTGGACTTGTTCATAAAGAGACTGGACAAGTGTTTCAAGATA
GTAAGAAAAGAACAAAATAGAGAGAATGATGAATCTGGAGTTGACAATGACAAAACTGAA
GATGTGGTTATTGAAGAAATGGGTTTAAAACTAGAGAATGTACTTCTTGACAAGTTCGAG
GATTCTTCA
//
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	match	135914	100000	940.64	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	135914	135801	0.00	-	0	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	135800	134999	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	134998	134844	0.00	-	0	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	134843	132678	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	132677	132559	0.00	-	1	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	132558	129733	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	129732	129574	0.00	-	2	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	129573	126579	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	126578	126425	0.00	-	2	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	126424	123037	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	123036	122934	0.00	-	1	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	122933	115724	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	115723	115594	0.00	-	0	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	115593	115464	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	115463	115372	0.00	-	2	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	115371	106299	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	106298	106205	0.00	-	0	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	106204	101734	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	101733	101643	0.00	-	2	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	intron	101642	100298	0.00	-	.	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
gi|411115941|gb|JH977622.1|:subseq(5506391,235914)	GeneWise	cds	100297	100000	0.00	-	1	gi|411115941|gb|JH977622.1|:subseq(5506391,235914)-genewise-prediction-1
//
