-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_613

-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 383, 414
Sorry, prediction GeneMark_model.108040_t fails validation.
(CTG)	 AG	383-414	GT	TGG
(GAG)	 AG	492-521	GT	GAG
(GAG)	 AG	546-551	GT	GGG
(AGT)	 AG	574-654	GT	GAG
(GGA)	 AG	679-723	GT	AGG
(AGG)	 AG	747-752	GT	AGG
(GTG)	 AG	788-805	GT	GGG
(GGG)	 AG	829-853	GG	GAG
-recovered GeneMark_model.108040_t, terminal, 829, 853
-recovered GeneMark_model.108040_t, internal, 383, 414
-recovered GeneMark_model.108040_t, internal, 492, 521
-recovered GeneMark_model.108040_t, internal, 546, 551
-recovered GeneMark_model.108040_t, internal, 574, 654
-recovered GeneMark_model.108040_t, internal, 679, 723
-recovered GeneMark_model.108040_t, internal, 747, 752
-recovered GeneMark_model.108040_t, internal, 788, 805
Couldn't classify 5029, 5124
Sorry, prediction GeneMark_model.108042_t fails validation.
(ATG)	 GA	4531-4628	GT	AAG
(AGG)	 AG	4665-4682	GT	AGG
(GTG)	 AG	4746-4784	GT	GGG
(GAT)	 AG	4808-4828	GT	AGG
(CAC)	 AG	4854-4877	GT	GAG
(GGA)	 AG	4912-4920	GT	AGG
(TGT)	 AG	5029-5124	GT	AGG
-recovered GeneMark_model.108042_t, initial, 4531, 4628
-recovered GeneMark_model.108042_t, internal, 4665, 4682
-recovered GeneMark_model.108042_t, internal, 4746, 4784
-recovered GeneMark_model.108042_t, internal, 4808, 4828
-recovered GeneMark_model.108042_t, internal, 4854, 4877
-recovered GeneMark_model.108042_t, internal, 4912, 4920
-recovered GeneMark_model.108042_t, internal, 5029, 5124

-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 GeneMark_model.108041_t
Valid prediction for snap_scaffold_613-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_62049-T1
Couldn't classify 3498, 3947
Sorry, prediction snap_scaffold_613-snap.1-T1 fails validation.
(ATG)	 AC	1522-1895	GT	AGG
(AGA)	 AG	3498-3947	GT	GAG
-recovered snap_scaffold_613-snap.1-T1, initial, 1522, 1895
-recovered snap_scaffold_613-snap.1-T1, internal, 3498, 3947

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

-building trellis in range 1 - 5389
-exon list size: 43


building trellis

2.2    
4.4    
6.7    
8.9    
11.1    
13.3    
15.6    
17.8    
20.0    
22.2    
24.4    
26.7    
28.9    
31.1    
33.3    
35.6    
37.8    
40.0    
42.2    
44.4    
46.7    
48.9    
51.1    
53.3    
55.6    
57.8    
60.0    
62.2    
64.4    
66.7    
68.9    
71.1    
73.3    
75.6    
77.8    
80.0    
82.2    
84.4    
86.7    
88.9    
91.1    
93.3    
95.6    
97.8    
-found 1 predictions from path traversal

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