-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_538

-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 GlimmerHMM_glimmerT_61968-T1
Couldn't classify 4689, 4742
Sorry, prediction GeneMark_model.107894_t fails validation.
(ATG)	 GG	2015-2161	GT	AGG
(GCT)	 AG	2955-3107	GT	AGG
(AAG)	 AG	3452-3586	GT	AGG
(ATG)	 AG	4005-4118	GT	AGG
(AGC)	 AG	4349-4558	GT	AGG
(GTG)	 AG	4689-4742	GT	AGG
-recovered GeneMark_model.107894_t, initial, 2015, 2161
-recovered GeneMark_model.107894_t, initial, 4005, 4118
-recovered GeneMark_model.107894_t, internal, 2955, 3107
-recovered GeneMark_model.107894_t, internal, 3452, 3586
-recovered GeneMark_model.107894_t, internal, 4005, 4118
-recovered GeneMark_model.107894_t, internal, 4349, 4558
-recovered GeneMark_model.107894_t, internal, 4689, 4742
Valid prediction for snap_scaffold_538-snap.2-T1
Valid prediction for Augustus_model.g41189.t1
Valid prediction for snap_scaffold_538-snap.3-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.g41188.t1
Valid prediction for snap_scaffold_538-snap.1-T1
Valid prediction for GlimmerHMM_glimmerT_61967-T1
Valid prediction for GeneMark_model.107893_t

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

-building trellis in range 1 - 6004
-exon list size: 24


building trellis

3.8    
7.7    
11.5    
15.4    
19.2    
23.1    
26.9    
30.8    
34.6    
38.5    
42.3    
46.2    
50.0    
53.8    
57.7    
61.5    
65.4    
69.2    
73.1    
76.9    
80.8    
84.6    
88.5    
92.3    
96.2    
-found 2 predictions from path traversal

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