-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_536

-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 5268, 5320
Sorry, prediction snap_scaffold_536-snap.2-T1 fails validation.
(ATG)	 AC	2927-3067	GT	TGG
(GAA)	 AG	4096-4363	GT	AAG
(AGA)	 AG	4786-4907	GT	AGG
(CGG)	 AG	5268-5320	GT	AGG
-recovered snap_scaffold_536-snap.2-T1, initial, 2927, 3067
-recovered snap_scaffold_536-snap.2-T1, internal, 4096, 4363
-recovered snap_scaffold_536-snap.2-T1, internal, 4786, 4907
-recovered snap_scaffold_536-snap.2-T1, internal, 5268, 5320
Valid prediction for snap_scaffold_536-snap.1-T1
Valid prediction for GlimmerHMM_glimmerT_61962-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61962-T1 2142-2407-terminal-1 is invalid.
Couldn't classify 5931, 6017
Sorry, prediction GeneMark_model.107888_t fails validation.
(ATG)	 GG	3021-3067	GT	TGG
(GAG)	 AG	3138-3191	GT	TAG
(TGC)	 AG	3629-3667	GT	AAG
(TGC)	 AG	3913-3991	GT	TGG
(TCA)	 AG	4013-4116	GT	GGG
(GAG)	 AG	4142-4171	GT	GGG
(AAG)	 AG	4197-4247	GT	GGG
(AAT)	 AG	4276-4302	GT	GGG
(GAG)	 AG	4328-4363	GT	AAG
(GAT)	 AG	4878-4907	GT	AGG
(AGA)	 AG	5369-5398	GT	AGG
(AGA)	 AG	5589-5607	GC	ACG
(CAG)	 AG	5751-5771	GT	AGG
(AGG)	 AG	5931-6017	GT	AGG
-recovered GeneMark_model.107888_t, initial, 3021, 3067
-recovered GeneMark_model.107888_t, internal, 3138, 3191
-recovered GeneMark_model.107888_t, internal, 3629, 3667
-recovered GeneMark_model.107888_t, internal, 3913, 3991
-recovered GeneMark_model.107888_t, internal, 4013, 4116
-recovered GeneMark_model.107888_t, internal, 4142, 4171
-recovered GeneMark_model.107888_t, internal, 4197, 4247
-recovered GeneMark_model.107888_t, internal, 4276, 4302
-recovered GeneMark_model.107888_t, internal, 4328, 4363
-recovered GeneMark_model.107888_t, internal, 4878, 4907
-recovered GeneMark_model.107888_t, internal, 5369, 5398
-recovered GeneMark_model.107888_t, internal, 5589, 5607
-recovered GeneMark_model.107888_t, internal, 5751, 5771
-recovered GeneMark_model.107888_t, internal, 5931, 6017

-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 GlimmerHMM_glimmerT_61963-T1
Valid prediction for GeneMark_model.107887_t
Valid prediction for Augustus_model.g41186.t1

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

-building trellis in range 1 - 6025
-exon list size: 53


building trellis

1.8    
3.6    
5.5    
7.3    
9.1    
10.9    
12.7    
14.5    
16.4    
18.2    
20.0    
21.8    
23.6    
25.5    
27.3    
29.1    
30.9    
32.7    
34.5    
36.4    
38.2    
40.0    
41.8    
43.6    
45.5    
47.3    
49.1    
50.9    
52.7    
54.5    
56.4    
58.2    
60.0    
61.8    
63.6    
65.5    
67.3    
69.1    
70.9    
72.7    
74.5    
76.4    
78.2    
80.0    
81.8    
83.6    
85.5    
87.3    
89.1    
90.9    
92.7    
94.5    
96.4    
98.2    
-found 2 predictions from path traversal

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