-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1339

-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 snap_scaffold_1339-snap.2-T1
Valid prediction for snap_scaffold_1339-snap.1-T1
add_exon() Sorry, snap_scaffold_1339-snap.1-T1 94-349-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_62592-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62592-T1 94-349-terminal-1 is invalid.
Couldn't classify 2469, 2604
Sorry, prediction GeneMark_model.109223_t fails validation.
(ATG)	 GC	2356-2363	GT	CAG
(GAG)	 AG	2388-2426	GT	ATG
(GAG)	 AG	2469-2604	GT	CTG
-recovered GeneMark_model.109223_t, initial, 2356, 2363
-recovered GeneMark_model.109223_t, internal, 2388, 2426
-recovered GeneMark_model.109223_t, internal, 2469, 2604
Couldn't classify 103, 162
Sorry, prediction GeneMark_model.109221_t fails validation.
(ACG)	 AG	103-162	GT	TTG
(GAA)	 AG	185-305	GG	GAG
-recovered GeneMark_model.109221_t, terminal, 185, 305
-recovered GeneMark_model.109221_t, internal, 103, 162
Valid prediction for Augustus_model.g41627.t1
add_exon() Sorry, Augustus_model.g41627.t1 94-349-terminal-1 is invalid.

-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 GeneMark_model.109222_t

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

-building trellis in range 1 - 2619
-exon list size: 19


building trellis

4.8    
9.5    
14.3    
19.0    
23.8    
28.6    
33.3    
38.1    
42.9    
47.6    
52.4    
57.1    
61.9    
66.7    
71.4    
76.2    
81.0    
85.7    
90.5    
95.2    
-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