-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_3559

-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: -)Couldn't classify 416, 501
Couldn't classify 859, 974
Sorry, prediction snap_scaffold_3559-snap.1-T1 fails validation.
(TGT)	 AG	416-501	GT	AGG
(GCT)	 AG	859-974	GT	GGG
-recovered snap_scaffold_3559-snap.1-T1, internal, 416, 501
-recovered snap_scaffold_3559-snap.1-T1, internal, 859, 974
Couldn't classify 416, 501
Couldn't classify 859, 974
Sorry, prediction GeneMark_model.111107_t fails validation.
(TGT)	 AG	416-501	GT	AGG
(GAG)	 AG	638-661	GT	TTG
(GCT)	 AG	859-974	GT	GGG
-recovered GeneMark_model.111107_t, internal, 416, 501
-recovered GeneMark_model.111107_t, internal, 638, 661
-recovered GeneMark_model.111107_t, internal, 859, 974
Couldn't classify 416, 501
Sorry, prediction GlimmerHMM_glimmerT_63388-T1 fails validation.
(TGT)	 AG	416-501	GT	AGG
(GCT)	 AG	859-978	GA	GAG
-recovered GlimmerHMM_glimmerT_63388-T1, terminal, 859, 978
-recovered GlimmerHMM_glimmerT_63388-T1, internal, 416, 501
Couldn't classify 859, 974
Sorry, prediction Augustus_model.g42382.t1 fails validation.
(ATG)	 AG	383-501	GT	AGG
(GCT)	 AG	859-974	GT	GGG
add_exon() Sorry, Augustus_model.g42382.t1 383-501-initial-1 is invalid.
-recovered Augustus_model.g42382.t1, initial, 383, 501
-recovered Augustus_model.g42382.t1, internal, 383, 501
-recovered Augustus_model.g42382.t1, internal, 859, 974

-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: 7


building trellis

11.1    
22.2    
33.3    
44.4    
55.6    
66.7    
77.8    
88.9    
-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