-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1519

-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 38, 76
Sorry, prediction GeneMark_model.109425_t fails validation.
(AGG)	 AG	38-76	GT	AGG
(AGA)	 AG	109-121	GT	CAG
(GGT)	 AG	336-355	GT	GGG
(GTG)	 AG	406-448	GT	TGG
(ATG)	 AG	489-583	GT	AGG
(AAG)	 AG	1473-1499	GT	AGG
(GGG)	 AG	1621-1699	CC	GAC
-recovered GeneMark_model.109425_t, initial, 489, 583
-recovered GeneMark_model.109425_t, terminal, 1621, 1699
-recovered GeneMark_model.109425_t, internal, 38, 76
-recovered GeneMark_model.109425_t, internal, 109, 121
-recovered GeneMark_model.109425_t, internal, 336, 355
-recovered GeneMark_model.109425_t, internal, 406, 448
-recovered GeneMark_model.109425_t, internal, 489, 583
-recovered GeneMark_model.109425_t, internal, 1473, 1499
Couldn't classify 336, 361
Sorry, prediction snap_scaffold_1519-snap.1-T1 fails validation.
(GGT)	 AG	336-361	GT	AGG
(ATG)	 AG	489-583	GT	AGG
(TGG)	 AG	746-777	GT	CGG
(AGG)	 AG	1370-1965	GA	AAG
-recovered snap_scaffold_1519-snap.1-T1, initial, 489, 583
-recovered snap_scaffold_1519-snap.1-T1, terminal, 1370, 1965
-recovered snap_scaffold_1519-snap.1-T1, internal, 336, 361
-recovered snap_scaffold_1519-snap.1-T1, internal, 489, 583
-recovered snap_scaffold_1519-snap.1-T1, internal, 746, 777

-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: -)Valid prediction for GlimmerHMM_glimmerT_62689-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62689-T1 252-781-terminal-1 is invalid.
Couldn't classify 252, 405
Sorry, prediction GeneMark_model.109426_t fails validation.
(ACG)	 AG	252-405	GC	GGG
(GGG)	 AG	429-561	GG	GAG
-recovered GeneMark_model.109426_t, terminal, 429, 561
-recovered GeneMark_model.109426_t, internal, 252, 405

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

-building trellis in range 1 - 2281
-exon list size: 27


building trellis

3.4    
6.9    
10.3    
13.8    
17.2    
20.7    
24.1    
27.6    
31.0    
34.5    
37.9    
41.4    
44.8    
48.3    
51.7    
55.2    
58.6    
62.1    
65.5    
69.0    
72.4    
75.9    
79.3    
82.8    
86.2    
89.7    
93.1    
96.6    
-found 2 predictions from path traversal
GOT 5prime partial gene.

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