-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_558

-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: +)Valid prediction for GlimmerHMM_glimmerT_60486-T1

-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 5343, 5506
Sorry, prediction snap_scaffold_558-snap.1-T1 fails validation.
(ATG)	 TC	2340-2349	GT	ACG
(ACG)	 AG	2455-2529	GT	CAG
(TGC)	 AG	2626-2818	GT	AGG
(GGA)	 AG	3580-3665	GT	AGG
(CAA)	 AG	4027-4145	GT	AGG
(GTG)	 AG	4276-4347	GT	GGG
(GTC)	 AG	5343-5506	GT	AGG
-recovered snap_scaffold_558-snap.1-T1, initial, 2340, 2349
-recovered snap_scaffold_558-snap.1-T1, internal, 2455, 2529
-recovered snap_scaffold_558-snap.1-T1, internal, 2626, 2818
-recovered snap_scaffold_558-snap.1-T1, internal, 3580, 3665
-recovered snap_scaffold_558-snap.1-T1, internal, 4027, 4145
-recovered snap_scaffold_558-snap.1-T1, internal, 4276, 4347
-recovered snap_scaffold_558-snap.1-T1, internal, 5343, 5506
Couldn't classify 130, 257
Sorry, prediction Augustus_model.g40042.t1 fails validation.
(TAC)	 AG	130-257	GT	AGG
(GGG)	 AG	621-865	GG	GAG
-recovered Augustus_model.g40042.t1, terminal, 621, 865
-recovered Augustus_model.g40042.t1, internal, 130, 257
Couldn't classify 5746, 5857
Sorry, prediction Augustus_model.g40041.t1 fails validation.
(ATG)	 TC	2340-2349	GT	ACG
(ACG)	 AG	2455-2529	GT	CAG
(TGC)	 AG	2626-2818	GT	AGG
(GGA)	 AG	3580-3665	GT	AGG
(CTC)	 AG	4021-4145	GT	AGG
(GTG)	 AG	4276-4347	GT	GGG
(GTC)	 AG	5343-5506	GT	AGG
(GTT)	 AG	5746-5857	GT	AGG
-recovered Augustus_model.g40041.t1, initial, 2340, 2349
-recovered Augustus_model.g40041.t1, internal, 2455, 2529
-recovered Augustus_model.g40041.t1, internal, 2626, 2818
-recovered Augustus_model.g40041.t1, internal, 3580, 3665
-recovered Augustus_model.g40041.t1, internal, 4021, 4145
-recovered Augustus_model.g40041.t1, internal, 4276, 4347
-recovered Augustus_model.g40041.t1, internal, 5343, 5506
-recovered Augustus_model.g40041.t1, internal, 5746, 5857
Valid prediction for snap_scaffold_558-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_60485-T1

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

-building trellis in range 1 - 5869
-exon list size: 24


building trellis

3.8    
7.7    
11.5    
15.4    
19.2    
23.1    
26.9    
30.8    
34.6    
38.5    
42.3    
46.2    
50.0    
53.8    
57.7    
61.5    
65.4    
69.2    
73.1    
76.9    
80.8    
84.6    
88.5    
92.3    
96.2    
-found 2 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support