-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_541

-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 1790, 1855
Couldn't classify 5631, 5751
Sorry, prediction snap_scaffold_541-snap.1-T1 fails validation.
(GCA)	 AG	1790-1855	GT	AGG
(AGA)	 AG	2071-2152	GT	ATG
(GGA)	 AG	5209-5480	GT	CGG
(CGG)	 AG	5631-5751	GT	TGG
-recovered snap_scaffold_541-snap.1-T1, terminal, 1790, 1855
-recovered snap_scaffold_541-snap.1-T1, internal, 1790, 1855
-recovered snap_scaffold_541-snap.1-T1, internal, 2071, 2152
-recovered snap_scaffold_541-snap.1-T1, internal, 5209, 5480
-recovered snap_scaffold_541-snap.1-T1, internal, 5631, 5751

-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 221, 436
Sorry, prediction GlimmerHMM_glimmerT_60469-T1 fails validation.
(AAA)	 AG	221-436	GT	TGG
(GTG)	 AG	673-833	GT	CGG
(AGA)	 AG	4559-4628	AC	AGA
-recovered GlimmerHMM_glimmerT_60469-T1, terminal, 4559, 4628
-recovered GlimmerHMM_glimmerT_60469-T1, internal, 221, 436
-recovered GlimmerHMM_glimmerT_60469-T1, internal, 673, 833
Couldn't classify 221, 436
Sorry, prediction Augustus_model.g40030.t1 fails validation.
(AAA)	 AG	221-436	GT	TGG
(GTG)	 AG	673-837	GT	GAG
-recovered Augustus_model.g40030.t1, terminal, 673, 837
-recovered Augustus_model.g40030.t1, internal, 221, 436
-recovered Augustus_model.g40030.t1, internal, 673, 837

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

-building trellis in range 1 - 6000
-exon list size: 12


building trellis

7.1    
14.3    
21.4    
28.6    
35.7    
42.9    
50.0    
57.1    
64.3    
71.4    
78.6    
85.7    
92.9    
-found 3 predictions from path traversal
GOT 5prime partial gene.

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