-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1303

-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_62571-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62571-T1 281-1043-terminal-1 is invalid.
Couldn't classify 281, 931
Sorry, prediction GeneMark_model.109174_t fails validation.
(CCA)	 AG	281-931	GC	GCG
(GGA)	 AG	960-1083	AG	AGA
-recovered GeneMark_model.109174_t, terminal, 960, 1083
-recovered GeneMark_model.109174_t, internal, 281, 931
Valid prediction for GeneMark_model.109176_t
Couldn't classify 281, 936
Couldn't classify 1390, 1596
Sorry, prediction snap_scaffold_1303-snap.1-T1 fails validation.
(CCA)	 AG	281-936	GT	AGG
(TCC)	 AG	1390-1596	GT	AGG
-recovered snap_scaffold_1303-snap.1-T1, internal, 281, 936
-recovered snap_scaffold_1303-snap.1-T1, internal, 1390, 1596

-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 344, 350
Sorry, prediction GeneMark_model.109177_t fails validation.
(GCC)	 AG	344-350	GT	CGG
(GGA)	 AG	652-699	GT	AGG
(CAG)	 AG	737-762	GT	GAG
(AAC)	 AG	798-804	GT	AAG
(GCG)	 AG	827-887	GT	AGG
add_exon() Sorry, GeneMark_model.109177_t 737-762-terminal-2 is invalid.
-recovered GeneMark_model.109177_t, terminal, 737, 762
-recovered GeneMark_model.109177_t, terminal, 827, 887
-recovered GeneMark_model.109177_t, internal, 344, 350
-recovered GeneMark_model.109177_t, internal, 652, 699
-recovered GeneMark_model.109177_t, internal, 737, 762
-recovered GeneMark_model.109177_t, internal, 798, 804
-recovered GeneMark_model.109177_t, internal, 827, 887
Valid prediction for GeneMark_model.109175_t

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

-building trellis in range 1 - 2725
-exon list size: 26


building trellis

3.6    
7.1    
10.7    
14.3    
17.9    
21.4    
25.0    
28.6    
32.1    
35.7    
39.3    
42.9    
46.4    
50.0    
53.6    
57.1    
60.7    
64.3    
67.9    
71.4    
75.0    
78.6    
82.1    
85.7    
89.3    
92.9    
96.4    
-found 2 predictions from path traversal
GOT 5prime partial gene.

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