-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_3554

-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_63386-T1
Couldn't classify 268, 442
Couldn't classify 651, 703
Sorry, prediction snap_scaffold_3554-snap.1-T1 fails validation.
(CAA)	 AG	268-442	GT	AGG
(GCC)	 AG	651-703	GT	AGG
add_exon() Sorry, snap_scaffold_3554-snap.1-T1 268-442-terminal-3 is invalid.
-recovered snap_scaffold_3554-snap.1-T1, terminal, 268, 442
-recovered snap_scaffold_3554-snap.1-T1, internal, 268, 442
-recovered snap_scaffold_3554-snap.1-T1, internal, 651, 703
Couldn't classify 268, 442
Sorry, prediction Augustus_model.g42380.t1 fails validation.
(CAA)	 AG	268-442	GT	AGG
(CCA)	 AG	785-921	CT	GAC
add_exon() Sorry, Augustus_model.g42380.t1 268-442-terminal-3 is invalid.
-recovered Augustus_model.g42380.t1, terminal, 268, 442
-recovered Augustus_model.g42380.t1, terminal, 785, 921
-recovered Augustus_model.g42380.t1, internal, 268, 442

-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 60, 231
Sorry, prediction GeneMark_model.111104_t fails validation.
(ACA)	 AG	60-231	GT	GAG
(GTC)	 AG	624-694	GT	CCG
(AGA)	 AG	793-862	AG	AGA
-recovered GeneMark_model.111104_t, terminal, 793, 862
-recovered GeneMark_model.111104_t, internal, 60, 231
-recovered GeneMark_model.111104_t, internal, 624, 694

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

-building trellis in range 1 - 1000
-exon list size: 11


building trellis

7.7    
15.4    
23.1    
30.8    
38.5    
46.2    
53.8    
61.5    
69.2    
76.9    
84.6    
92.3    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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