-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_739

-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 Augustus_model.g41335.t1
Valid prediction for GlimmerHMM_glimmerT_62181-T1
Couldn't classify 4519, 4659
Sorry, prediction GeneMark_model.108286_t fails validation.
(ATG)	 CC	3615-4062	GT	AGG
(ACT)	 AG	4457-4472	GT	ACG
(AGA)	 AG	4519-4659	GT	GAG
-recovered GeneMark_model.108286_t, initial, 3615, 4062
-recovered GeneMark_model.108286_t, internal, 4457, 4472
-recovered GeneMark_model.108286_t, internal, 4519, 4659
Valid prediction for GlimmerHMM_glimmerT_62180-T1
Valid prediction for snap_scaffold_739-snap.2-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 4617, 4646
Sorry, prediction Augustus_model.g41334.t1 fails validation.
(ATG)	 AT	2665-2829	GT	TGG
(ACG)	 AG	3306-3438	GT	TGG
(GTA)	 AG	4295-4371	GT	TGG
(GGG)	 AG	4617-4646	GT	GGG
-recovered Augustus_model.g41334.t1, initial, 2665, 2829
-recovered Augustus_model.g41334.t1, internal, 3306, 3438
-recovered Augustus_model.g41334.t1, internal, 4295, 4371
-recovered Augustus_model.g41334.t1, internal, 4617, 4646
Couldn't classify 4295, 4371
Sorry, prediction GeneMark_model.108285_t fails validation.
(ATG)	 CA	2710-2829	GT	TGG
(GAA)	 AG	3098-3117	GT	AGG
(TGT)	 AG	3595-3630	GT	CCG
(GGT)	 AG	3651-3686	GT	CCG
(GGT)	 AG	3707-3742	GT	CCG
(GGT)	 AG	3777-3787	GT	GGG
(GTA)	 AG	4295-4371	GT	TGG
-recovered GeneMark_model.108285_t, initial, 2710, 2829
-recovered GeneMark_model.108285_t, internal, 3098, 3117
-recovered GeneMark_model.108285_t, internal, 3595, 3630
-recovered GeneMark_model.108285_t, internal, 3651, 3686
-recovered GeneMark_model.108285_t, internal, 3707, 3742
-recovered GeneMark_model.108285_t, internal, 3777, 3787
-recovered GeneMark_model.108285_t, internal, 4295, 4371
Couldn't classify 4295, 4371
Sorry, prediction snap_scaffold_739-snap.1-T1 fails validation.
(ATG)	 CA	2710-2829	GT	TGG
(ACG)	 AG	3306-3438	GT	TGG
(GTA)	 AG	4295-4371	GT	TGG
-recovered snap_scaffold_739-snap.1-T1, initial, 2710, 2829
-recovered snap_scaffold_739-snap.1-T1, internal, 3306, 3438
-recovered snap_scaffold_739-snap.1-T1, internal, 4295, 4371
Couldn't classify 4617, 4718
Sorry, prediction pasa_asmbl_51594.p1 fails validation.
(ATG)	 CA	2710-2829	GT	TGG
(GAA)	 AG	3098-3117	GT	AGG
(ACG)	 AG	3368-3438	GT	TGG
(GTA)	 AG	4295-4371	GT	TGG
(GGG)	 AG	4617-4718	TG	AGT
-recovered pasa_asmbl_51594.p1, initial, 2710, 2829
-recovered pasa_asmbl_51594.p1, internal, 3098, 3117
-recovered pasa_asmbl_51594.p1, internal, 3368, 3438
-recovered pasa_asmbl_51594.p1, internal, 4295, 4371

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

-building trellis in range 1 - 4720
-exon list size: 32


building trellis

2.9    
5.9    
8.8    
11.8    
14.7    
17.6    
20.6    
23.5    
26.5    
29.4    
32.4    
35.3    
38.2    
41.2    
44.1    
47.1    
50.0    
52.9    
55.9    
58.8    
61.8    
64.7    
67.6    
70.6    
73.5    
76.5    
79.4    
82.4    
85.3    
88.2    
91.2    
94.1    
97.1    
-found 2 predictions from path traversal

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