-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_667

-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 GeneMark_model.108159_t

-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 3574, 3635
Sorry, prediction snap_scaffold_667-snap.1-T1 fails validation.
(ATG)	 AG	1042-1369	GT	GGG
(GCA)	 AG	3574-3635	GT	ACG
-recovered snap_scaffold_667-snap.1-T1, initial, 1042, 1369
-recovered snap_scaffold_667-snap.1-T1, internal, 1042, 1369
-recovered snap_scaffold_667-snap.1-T1, internal, 3574, 3635
Valid prediction for GlimmerHMM_glimmerT_62104-T1
Valid prediction for snap_scaffold_667-snap.2-T1
add_exon() Sorry, snap_scaffold_667-snap.2-T1 717-969-terminal-1 is invalid.
Couldn't classify 748, 858
Sorry, prediction GeneMark_model.108160_t fails validation.
(AGA)	 AG	748-858	GT	AGG
(ACT)	 AG	909-965	GT	GAG
(CAG)	 AG	1014-1031	GT	AGG
(AGG)	 AG	1056-1369	GT	GGG
(GTG)	 AG	1855-1918	GT	CGG
(AGA)	 AG	2018-2067	GT	AAG
(AGG)	 AG	2173-2240	CG	GAC
-recovered GeneMark_model.108160_t, terminal, 2173, 2240
-recovered GeneMark_model.108160_t, internal, 748, 858
-recovered GeneMark_model.108160_t, internal, 909, 965
-recovered GeneMark_model.108160_t, internal, 1014, 1031
-recovered GeneMark_model.108160_t, internal, 1056, 1369
-recovered GeneMark_model.108160_t, internal, 1855, 1918
-recovered GeneMark_model.108160_t, internal, 2018, 2067
Couldn't classify 4286, 4498
Sorry, prediction GeneMark_model.108158_t fails validation.
(ATG)	 TG	3714-3719	GT	ATG
(TGG)	 AG	3869-3909	GT	AAG
(GTC)	 AG	4138-4182	GT	ATG
(AGG)	 AG	4207-4221	GT	GGG
(AGA)	 AG	4286-4498	GT	GGG
-recovered GeneMark_model.108158_t, initial, 3714, 3719
-recovered GeneMark_model.108158_t, internal, 3869, 3909
-recovered GeneMark_model.108158_t, internal, 4138, 4182
-recovered GeneMark_model.108158_t, internal, 4207, 4221
-recovered GeneMark_model.108158_t, internal, 4286, 4498

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

-building trellis in range 1 - 5060
-exon list size: 35


building trellis

2.7    
5.4    
8.1    
10.8    
13.5    
16.2    
18.9    
21.6    
24.3    
27.0    
29.7    
32.4    
35.1    
37.8    
40.5    
43.2    
45.9    
48.6    
51.4    
54.1    
56.8    
59.5    
62.2    
64.9    
67.6    
70.3    
73.0    
75.7    
78.4    
81.1    
83.8    
86.5    
89.2    
91.9    
94.6    
97.3    
-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