-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_685

-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: +)
-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 snap_scaffold_685-snap.1-T1
Valid prediction for snap_scaffold_685-snap.2-T1
Couldn't classify 214, 310
Sorry, prediction GeneMark_model.108195_t fails validation.
(GGG)	 AG	214-310	GT	GGG
(GGC)	 AG	342-472	GT	GGG
(ATA)	 AG	3053-3175	GT	GTG
(GCG)	 AG	3211-3297	GT	AAG
(ACA)	 AG	3319-3333	GT	AGG
(AGA)	 AG	3527-3542	GT	TGG
(GTG)	 AG	3636-3762	GT	AGG
(CCT)	 AG	4213-4547	CA	AAC
-recovered GeneMark_model.108195_t, terminal, 4213, 4547
-recovered GeneMark_model.108195_t, internal, 214, 310
-recovered GeneMark_model.108195_t, internal, 342, 472
-recovered GeneMark_model.108195_t, internal, 3053, 3175
-recovered GeneMark_model.108195_t, internal, 3211, 3297
-recovered GeneMark_model.108195_t, internal, 3319, 3333
-recovered GeneMark_model.108195_t, internal, 3527, 3542
-recovered GeneMark_model.108195_t, internal, 3636, 3762
Valid prediction for GlimmerHMM_glimmerT_62121-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62121-T1 3053-3398-terminal-1 is invalid.
Valid prediction for Augustus_model.g41295.t1
Valid prediction for GlimmerHMM_glimmerT_62120-T1

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

-building trellis in range 1 - 5000
-exon list size: 21


building trellis

4.3    
8.7    
13.0    
17.4    
21.7    
26.1    
30.4    
34.8    
39.1    
43.5    
47.8    
52.2    
56.5    
60.9    
65.2    
69.6    
73.9    
78.3    
82.6    
87.0    
91.3    
95.7    
-found 2 predictions from path traversal

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