-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_87

-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 17726, 17784
Sorry, prediction GeneMark_model.106494_t fails validation.
(ATG)	 GA	17321-17497	GT	GGG
(ACG)	 AG	17726-17784	GT	GGG
-recovered GeneMark_model.106494_t, initial, 17321, 17497
-recovered GeneMark_model.106494_t, internal, 17726, 17784
Valid prediction for GeneMark_model.106490_t
Valid prediction for GeneMark_model.106489_t
Valid prediction for snap_scaffold_87-snap.9-T1
Valid prediction for Augustus_model.g40741.t1
Valid prediction for snap_scaffold_87-snap.8-T1
Valid prediction for snap_scaffold_87-snap.6-T1
Valid prediction for GlimmerHMM_glimmerT_61249-T1
Valid prediction for GeneMark_model.106492_t
Valid prediction for Augustus_model.g40744.t1
Valid prediction for GlimmerHMM_glimmerT_61247-T1
Valid prediction for GlimmerHMM_glimmerT_61251-T1
Valid prediction for snap_scaffold_87-snap.3-T1
Valid prediction for snap_scaffold_87-snap.7-T1
Valid prediction for GlimmerHMM_glimmerT_61250-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: -)Valid prediction for Augustus_model.g40743.t1
Valid prediction for Augustus_model.g40746.t1
Valid prediction for Augustus_model.g40740.t1
Valid prediction for GeneMark_model.106488_t
Valid prediction for snap_scaffold_87-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_61252-T1
Valid prediction for snap_scaffold_87-snap.5-T1
Valid prediction for GeneMark_model.106493_t
Couldn't classify 17695, 17787
Sorry, prediction Augustus_model.g40739.t1 fails validation.
(ATG)	 AA	17461-17602	GT	GGG
(TAC)	 AG	17695-17787	GT	AGG
-recovered Augustus_model.g40739.t1, initial, 17461, 17602
-recovered Augustus_model.g40739.t1, internal, 17695, 17787
Valid prediction for GeneMark_model.106491_t
Valid prediction for GlimmerHMM_glimmerT_61248-T1
Valid prediction for Augustus_model.g40745.t1
Valid prediction for Augustus_model.g40742.t1
Valid prediction for GlimmerHMM_glimmerT_61245-T1
Couldn't classify 17695, 17787
Sorry, prediction snap_scaffold_87-snap.1-T1 fails validation.
(ATG)	 AA	17461-17602	GT	GGG
(TAC)	 AG	17695-17787	GT	AGG
-recovered snap_scaffold_87-snap.1-T1, initial, 17461, 17602
-recovered snap_scaffold_87-snap.1-T1, internal, 17695, 17787
Valid prediction for GlimmerHMM_glimmerT_61253-T1
Valid prediction for GlimmerHMM_glimmerT_61246-T1
Valid prediction for snap_scaffold_87-snap.4-T1

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

-building trellis in range 1 - 17959
-exon list size: 74


building trellis

1.3    
2.6    
3.9    
5.3    
6.6    
7.9    
9.2    
10.5    
11.8    
13.2    
14.5    
15.8    
17.1    
18.4    
19.7    
21.1    
22.4    
23.7    
25.0    
26.3    
27.6    
28.9    
30.3    
31.6    
32.9    
34.2    
35.5    
36.8    
38.2    
39.5    
40.8    
42.1    
43.4    
44.7    
46.1    
47.4    
48.7    
50.0    
51.3    
52.6    
53.9    
55.3    
56.6    
57.9    
59.2    
60.5    
61.8    
63.2    
64.5    
65.8    
67.1    
68.4    
69.7    
71.1    
72.4    
73.7    
75.0    
76.3    
77.6    
78.9    
80.3    
81.6    
82.9    
84.2    
85.5    
86.8    
88.2    
89.5    
90.8    
92.1    
93.4    
94.7    
96.1    
97.4    
98.7    
-found 9 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 9 predictions persist after filtering for low support