-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_215

-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 snap_scaffold_215-snap.2-T1
Valid prediction for Augustus_model.g40915.t1
Valid prediction for snap_scaffold_215-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_61521-T1
Couldn't classify 20, 240
Sorry, prediction GeneMark_model.106961_t fails validation.
(CCA)	 AG	20-240	GT	ATG
(GGA)	 AG	2432-2665	GT	AGG
(GTG)	 AG	3049-3155	GT	GAG
(GGG)	 AG	3748-3756	GT	GGG
(AGG)	 AG	3780-3818	GT	GGG
(AGG)	 AG	3844-3852	GT	GGG
(GGT)	 AG	3880-3900	GT	GGG
(AGA)	 AG	3934-3973	GG	AGG
-recovered GeneMark_model.106961_t, terminal, 3934, 3973
-recovered GeneMark_model.106961_t, internal, 20, 240
-recovered GeneMark_model.106961_t, internal, 2432, 2665
-recovered GeneMark_model.106961_t, internal, 3049, 3155
-recovered GeneMark_model.106961_t, internal, 3748, 3756
-recovered GeneMark_model.106961_t, internal, 3780, 3818
-recovered GeneMark_model.106961_t, internal, 3844, 3852
-recovered GeneMark_model.106961_t, internal, 3880, 3900

-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 1977, 2108
Sorry, prediction GeneMark_model.106962_t fails validation.
(AGG)	 AG	1977-2108	GT	GCG
(GGA)	 AG	2226-2351	GT	TGG
(GGG)	 AG	2548-2553	GT	AAG
(GGA)	 AG	2584-2703	GT	GCG
(AGA)	 AG	2902-3044	GT	CCG
(AGA)	 AG	3146-3158	GT	AGG
(AGG)	 AG	3188-3238	GT	AGG
(AGG)	 AG	3492-3635	GT	GGG
(AGA)	 AG	3758-3911	GT	GAG
-recovered GeneMark_model.106962_t, terminal, 3758, 3911
-recovered GeneMark_model.106962_t, internal, 1977, 2108
-recovered GeneMark_model.106962_t, internal, 2226, 2351
-recovered GeneMark_model.106962_t, internal, 2548, 2553
-recovered GeneMark_model.106962_t, internal, 2584, 2703
-recovered GeneMark_model.106962_t, internal, 2902, 3044
-recovered GeneMark_model.106962_t, internal, 3146, 3158
-recovered GeneMark_model.106962_t, internal, 3188, 3238
-recovered GeneMark_model.106962_t, internal, 3492, 3635
-recovered GeneMark_model.106962_t, internal, 3758, 3911
Valid prediction for GlimmerHMM_glimmerT_61523-T1
Valid prediction for GlimmerHMM_glimmerT_61522-T1
Valid prediction for Augustus_model.g40914.t1
Valid prediction for snap_scaffold_215-snap.1-T1

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

-building trellis in range 1 - 9468
-exon list size: 49


building trellis

2.0    
3.9    
5.9    
7.8    
9.8    
11.8    
13.7    
15.7    
17.6    
19.6    
21.6    
23.5    
25.5    
27.5    
29.4    
31.4    
33.3    
35.3    
37.3    
39.2    
41.2    
43.1    
45.1    
47.1    
49.0    
51.0    
52.9    
54.9    
56.9    
58.8    
60.8    
62.7    
64.7    
66.7    
68.6    
70.6    
72.5    
74.5    
76.5    
78.4    
80.4    
82.4    
84.3    
86.3    
88.2    
90.2    
92.2    
94.1    
96.1    
98.0    
-found 3 predictions from path traversal
GOT 5prime partial gene.

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