
genewise output
Score 19.67 bits over entire alignment
Scores as bits over a synchronous coding model

Warning: The bits scores is not probablistically correct for single seqs
See WWW help for more info

SPP00000077_1.0    5 SRLYVITVRRTFPGRRNIVLTQYW                          
                     SRL+  TVR  +   +N  LT +W                          
                     SRLHPNTVRIIIKAGQNAALTIFW                          
PHYCAscaffold_329634 accccaagaaaaaggcaggcaatt                          
                     ggtacactgtttacgaacctcttg                          
                     ccgcacttaattactgcattcccg                          


//
>PHYCAscaffold_33:subseq(169005,189005).pep
SRLHPNTVRIIIKAGQNAALTIFW
//
PHYCAscaffold_33:subseq(169005,189005)	GeneWise	match	29634	29705	19.67	+	.	PHYCAscaffold_33:subseq(169005,189005)-genewise-prediction-1
PHYCAscaffold_33:subseq(169005,189005)	GeneWise	cds	29634	29705	0.00	+	0	PHYCAscaffold_33:subseq(169005,189005)-genewise-prediction-1
//

genewise output
Score 101.83 bits over entire alignment
Scores as bits over a synchronous coding model

Warning: The bits scores is not probablistically correct for single seqs
See WWW help for more info

SPP00000077_1.0   39 NDVKWNDALTPLQLMVLRDKATERPNTGAYLHTNESGVYHCANCDRPLY 
                     +D +W   LTP+Q +VLR K TER  TG Y    E+GVY CA C  P+Y 
                     SDEEWKQRLTPMQFQVLRLKGTERAGTGEYNKHKETGVYVCAGCKTPVY 
PHYCAscaffold_-10359 tgggtacccacactcgcctagagcggaggtaacagaggtgtggtaacgt 
                     caaagaagtcctatattgtagcagcgcgaaaaaaacgtatgcggaccta 
                     gtaggggtggcggcaggcggtgaacttagccgcggctgccttgcgttgc 


SPP00000077_1.0   88 SSKAKFDARCGWPAFYEEVSPGAIT                       Y 
                     +S  KFD+ CGWPAFY+ + PGAI                          
                     TSTTKFDSGCGWPAFYDAI-PGAIK                       A 
PHYCAscaffold_-10212 ataaatgtgtgtcgttgga cggaaGTGGTTT  Intron 1   CAGg 
                     ccccatacggggcctaact cgcta<0-----[10140:10078]-0>c 
                     ttcagctgctcgtctccct agccg                       t 


SPP00000077_1.0  114 HRDNSLMPARVEICCARCG                          HLGH 
                       D      R EI CA+C                           H+GH 
                     VADAD--GRRTEIMCAKCD           G:G[ggt]       HMGH 
PHYCAscaffold_-10074 ggggg  gccagaatgatgGGGTACGAG  Intron 2   CAGTcagc 
                     tcaca  gggcattgcaga  <2-----[10021: 9957]-2> atga 
                     tttgc  acttgcgccgcc                          cggc 


SPP00000077_1.0  138 VFEGEGWKQLLNLPKDTRHCVNSASL                        
                     VF+GEG++     P D RHCVNS SL                        
                     VFKGEGFE----TPTDERHCVNSVSL                        
PHYCAscaffold_3-9943 gtagggtg    acaggcctgaagtc                        
                     ttagagta    cccaagagtagtct                        
                     gtgcaccg    atgcgtccgctgtt                        


//
Making a G in phase 2 intron
>PHYCAscaffold_33:subseq(169005,189005).pep
SDEEWKQRLTPMQFQVLRLKGTERAGTGEYNKHKETGVYVCAGCKTPVYTSTTKFDSGCG
WPAFYDAIPGAIKAVADADGRRTEIMCAKCDGHMGHVFKGEGFETPTDERHCVNSVSL
//
PHYCAscaffold_33:subseq(169005,189005)	GeneWise	match	10359	9878	105.82	-	.	PHYCAscaffold_33:subseq(169005,189005)-genewise-prediction-1
PHYCAscaffold_33:subseq(169005,189005)	GeneWise	cds	10359	10141	0.00	-	0	PHYCAscaffold_33:subseq(169005,189005)-genewise-prediction-1
PHYCAscaffold_33:subseq(169005,189005)	GeneWise	intron	10140	10078	0.00	-	.	PHYCAscaffold_33:subseq(169005,189005)-genewise-prediction-1
PHYCAscaffold_33:subseq(169005,189005)	GeneWise	cds	10077	10022	0.00	-	0	PHYCAscaffold_33:subseq(169005,189005)-genewise-prediction-1
PHYCAscaffold_33:subseq(169005,189005)	GeneWise	intron	10021	9957	0.00	-	.	PHYCAscaffold_33:subseq(169005,189005)-genewise-prediction-1
PHYCAscaffold_33:subseq(169005,189005)	GeneWise	cds	9956	9878	0.00	-	1	PHYCAscaffold_33:subseq(169005,189005)-genewise-prediction-1
//
