-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_2548

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Couldn't classify 905, 1038
Sorry, prediction GlimmerHMM_glimmerT_63145-T1 fails validation.
(ATG)	 AT	358-397	GT	CGG
(AGC)	 AG	905-1038	GT	AGG
-recovered GlimmerHMM_glimmerT_63145-T1, initial, 358, 397
-recovered GlimmerHMM_glimmerT_63145-T1, internal, 905, 1038
Couldn't classify 24, 112
Couldn't classify 854, 1038
Sorry, prediction snap_scaffold_2548-snap.1-T1 fails validation.
(GAG)	 AG	24-112	GT	CGG
(GCT)	 AG	456-598	GT	AGG
(TAG)	 AG	854-1038	GT	AGG
-recovered snap_scaffold_2548-snap.1-T1, internal, 24, 112
-recovered snap_scaffold_2548-snap.1-T1, internal, 456, 598
-recovered snap_scaffold_2548-snap.1-T1, internal, 854, 1038
Couldn't classify 9, 108
Couldn't classify 975, 1038
Sorry, prediction GeneMark_model.110408_t fails validation.
(TGT)	 AG	9-108	GT	TGG
(ATG)	 AG	497-637	GT	ATG
(TAG)	 AG	854-941	GT	GAG
(GGG)	 AG	975-1038	GT	AGG
add_exon() Sorry, GeneMark_model.110408_t 497-637-initial-1 is invalid.
-recovered GeneMark_model.110408_t, initial, 497, 637
-recovered GeneMark_model.110408_t, internal, 9, 108
-recovered GeneMark_model.110408_t, internal, 497, 637
-recovered GeneMark_model.110408_t, internal, 854, 941
-recovered GeneMark_model.110408_t, internal, 975, 1038
Couldn't classify 1, 108
Sorry, prediction Augustus_model.g42109.t1 fails validation.
(TCC)	 AC	1-108	GT	TGG
(ATG)	 AG	497-598	GT	AGG
(TAG)	 AG	854-1047	CA	GAC
add_exon() Sorry, Augustus_model.g42109.t1 497-598-initial-1 is invalid.
-recovered Augustus_model.g42109.t1, initial, 497, 598
-recovered Augustus_model.g42109.t1, terminal, 854, 1047
-recovered Augustus_model.g42109.t1, internal, 497, 598

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)
-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 1212
-exon list size: 12


building trellis

7.1    
14.3    
21.4    
28.6    
35.7    
42.9    
50.0    
57.1    
64.3    
71.4    
78.6    
85.7    
92.9    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support