-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_559

-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 5105, 5742
Sorry, prediction snap_scaffold_559-snap.1-T1 fails validation.
(ATG)	 TG	3989-4241	GT	AGG
(AGT)	 AG	4256-4619	GT	AGG
(GCA)	 AG	5105-5742	GT	CGG
-recovered snap_scaffold_559-snap.1-T1, initial, 3989, 4241
-recovered snap_scaffold_559-snap.1-T1, internal, 4256, 4619
-recovered snap_scaffold_559-snap.1-T1, internal, 5105, 5742
Couldn't classify 5790, 5798
Sorry, prediction GeneMark_model.107930_t fails validation.
(ATG)	 CA	3472-3494	GT	GGG
(GTG)	 AG	3533-3577	GT	AGG
(CGG)	 AG	4046-4096	GT	GAG
(AGC)	 AG	4133-4270	GT	GAG
(GCG)	 AG	4302-4619	GT	AGG
(TGG)	 AG	5126-5149	GT	GAG
(ACT)	 AG	5174-5269	GT	GAG
(TGG)	 AG	5291-5329	GT	GAG
(TGG)	 AG	5351-5479	GT	GAG
(AGC)	 AG	5504-5614	GT	GAG
(AGC)	 AG	5649-5699	GT	GGG
(GGG)	 AG	5790-5798	GT	GAG
-recovered GeneMark_model.107930_t, initial, 3472, 3494
-recovered GeneMark_model.107930_t, internal, 3533, 3577
-recovered GeneMark_model.107930_t, internal, 4046, 4096
-recovered GeneMark_model.107930_t, internal, 4133, 4270
-recovered GeneMark_model.107930_t, internal, 4302, 4619
-recovered GeneMark_model.107930_t, internal, 5126, 5149
-recovered GeneMark_model.107930_t, internal, 5174, 5269
-recovered GeneMark_model.107930_t, internal, 5291, 5329
-recovered GeneMark_model.107930_t, internal, 5351, 5479
-recovered GeneMark_model.107930_t, internal, 5504, 5614
-recovered GeneMark_model.107930_t, internal, 5649, 5699
-recovered GeneMark_model.107930_t, internal, 5790, 5798
Valid prediction for GlimmerHMM_glimmerT_61989-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: -)
-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 5855
-exon list size: 39


building trellis

2.4    
4.9    
7.3    
9.8    
12.2    
14.6    
17.1    
19.5    
22.0    
24.4    
26.8    
29.3    
31.7    
34.1    
36.6    
39.0    
41.5    
43.9    
46.3    
48.8    
51.2    
53.7    
56.1    
58.5    
61.0    
63.4    
65.9    
68.3    
70.7    
73.2    
75.6    
78.0    
80.5    
82.9    
85.4    
87.8    
90.2    
92.7    
95.1    
97.6    
-found 1 predictions from path traversal

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