-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_641

-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: +)
-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: -)Couldn't classify 4895, 5004
Sorry, prediction Augustus_model.g40098.t1 fails validation.
(ATG)	 CA	299-304	GT	AGG
(GCT)	 AG	424-642	GT	AGG
(CTG)	 AG	885-999	GT	CAG
(AGT)	 AG	1225-1385	GT	AGG
(CCA)	 AG	1834-2035	GT	AGG
(CCG)	 AG	2210-2394	GT	GGG
(GGA)	 AG	2528-2789	GT	AGG
(GTA)	 AG	3112-3278	GT	CGG
(CGT)	 AG	4285-4453	GT	CGG
(TGG)	 AG	4687-4795	GT	GGG
(TGA)	 AG	4895-5004	GT	CGG
-recovered Augustus_model.g40098.t1, initial, 299, 304
-recovered Augustus_model.g40098.t1, internal, 424, 642
-recovered Augustus_model.g40098.t1, internal, 885, 999
-recovered Augustus_model.g40098.t1, internal, 1225, 1385
-recovered Augustus_model.g40098.t1, internal, 1834, 2035
-recovered Augustus_model.g40098.t1, internal, 2210, 2394
-recovered Augustus_model.g40098.t1, internal, 2528, 2789
-recovered Augustus_model.g40098.t1, internal, 3112, 3278
-recovered Augustus_model.g40098.t1, internal, 4285, 4453
-recovered Augustus_model.g40098.t1, internal, 4687, 4795
-recovered Augustus_model.g40098.t1, internal, 4895, 5004
Couldn't classify 38, 178
Couldn't classify 2210, 2280
Sorry, prediction pasa_asmbl_49487.p1 fails validation.
(CTG)	 TG	38-178	GT	AGG
(GCT)	 AG	424-642	GT	AGG
(CTG)	 AG	885-999	GT	CAG
(AGT)	 AG	1225-1385	GT	AGG
(CCA)	 AG	1834-2035	GT	AGG
(CCG)	 AG	2210-2280	TC	TGT
-recovered pasa_asmbl_49487.p1, internal, 424, 642
-recovered pasa_asmbl_49487.p1, internal, 885, 999
-recovered pasa_asmbl_49487.p1, internal, 1225, 1385
-recovered pasa_asmbl_49487.p1, internal, 1834, 2035
Couldn't classify 89, 178
Sorry, prediction GlimmerHMM_glimmerT_60575-T1 fails validation.
(CAC)	 AG	89-178	GT	AGG
(GCT)	 AG	424-642	GT	AGG
(CTG)	 AG	885-999	GT	CAG
(AGT)	 AG	1225-1385	GT	AGG
(CCA)	 AG	1834-2035	GT	AGG
(CCG)	 AG	2210-2394	GT	GGG
(GGA)	 AG	2528-2789	GT	AGG
(GTA)	 AG	3112-3278	GT	CGG
(CGT)	 AG	4285-4453	GT	CGG
(TGG)	 AG	4687-4795	GT	GGG
(TGA)	 AG	4895-5105	AC	AGA
-recovered GlimmerHMM_glimmerT_60575-T1, terminal, 4895, 5105
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 89, 178
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 424, 642
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 885, 999
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 1225, 1385
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 1834, 2035
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 2210, 2394
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 2528, 2789
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 3112, 3278
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 4285, 4453
-recovered GlimmerHMM_glimmerT_60575-T1, internal, 4687, 4795
Couldn't classify 3117, 3278
Couldn't classify 4895, 4997
Sorry, prediction pasa_asmbl_49486.p1 fails validation.
(CTT)	 AA	3117-3278	GT	CGG
(CGT)	 AG	4285-4453	GT	CGG
(TGG)	 AG	4687-4795	GT	GGG
(TGA)	 AG	4895-4997	GT	CCG
-recovered pasa_asmbl_49486.p1, internal, 4285, 4453
-recovered pasa_asmbl_49486.p1, internal, 4687, 4795
-recovered pasa_asmbl_49486.p1, internal, 4895, 4997
Couldn't classify 32, 178
Couldn't classify 4895, 5004
Sorry, prediction snap_scaffold_641-snap.1-T1 fails validation.
(GTG)	 AG	32-178	GT	AGG
(GCT)	 AG	424-642	GT	AGG
(CTG)	 AG	885-999	GT	CAG
(AGT)	 AG	1225-1385	GT	AGG
(CCA)	 AG	1834-2035	GT	AGG
(CCG)	 AG	2210-2394	GT	GGG
(GGA)	 AG	2528-2789	GT	AGG
(GTA)	 AG	3112-3278	GT	CGG
(CGT)	 AG	4285-4453	GT	CGG
(TGG)	 AG	4687-4795	GT	GGG
(TGA)	 AG	4895-5004	GT	CGG
-recovered snap_scaffold_641-snap.1-T1, internal, 32, 178
-recovered snap_scaffold_641-snap.1-T1, internal, 424, 642
-recovered snap_scaffold_641-snap.1-T1, internal, 885, 999
-recovered snap_scaffold_641-snap.1-T1, internal, 1225, 1385
-recovered snap_scaffold_641-snap.1-T1, internal, 1834, 2035
-recovered snap_scaffold_641-snap.1-T1, internal, 2210, 2394
-recovered snap_scaffold_641-snap.1-T1, internal, 2528, 2789
-recovered snap_scaffold_641-snap.1-T1, internal, 3112, 3278
-recovered snap_scaffold_641-snap.1-T1, internal, 4285, 4453
-recovered snap_scaffold_641-snap.1-T1, internal, 4687, 4795
-recovered snap_scaffold_641-snap.1-T1, internal, 4895, 5004

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

-building trellis in range 1 - 5225
-exon list size: 30


building trellis

3.1    
6.2    
9.4    
12.5    
15.6    
18.8    
21.9    
25.0    
28.1    
31.2    
34.4    
37.5    
40.6    
43.8    
46.9    
50.0    
53.1    
56.2    
59.4    
62.5    
65.6    
68.8    
71.9    
75.0    
78.1    
81.2    
84.4    
87.5    
90.6    
93.8    
96.9    
-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