-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_2055

-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 39, 65
Couldn't classify 1096, 1195
Sorry, prediction GeneMark_model.109987_t fails validation.
(AGA)	 AG	39-65	GT	GAG
(ACA)	 AG	89-103	GT	GAG
(ACA)	 AG	127-135	GT	GAG
(ACA)	 AG	193-213	GT	GAG
(ACA)	 AG	237-288	GT	ATG
(GGG)	 AG	374-557	GT	CGG
(AGA)	 AG	705-826	GT	AGG
(TCA)	 AG	879-1031	GT	TAG
(ATG)	 AG	1096-1195	GT	TGG
-recovered GeneMark_model.109987_t, initial, 1096, 1195
-recovered GeneMark_model.109987_t, internal, 39, 65
-recovered GeneMark_model.109987_t, internal, 89, 103
-recovered GeneMark_model.109987_t, internal, 127, 135
-recovered GeneMark_model.109987_t, internal, 193, 213
-recovered GeneMark_model.109987_t, internal, 237, 288
-recovered GeneMark_model.109987_t, internal, 374, 557
-recovered GeneMark_model.109987_t, internal, 705, 826
-recovered GeneMark_model.109987_t, internal, 879, 1031
-recovered GeneMark_model.109987_t, internal, 1096, 1195
Couldn't classify 374, 557
Couldn't classify 1096, 1195
Sorry, prediction snap_scaffold_2055-snap.1-T1 fails validation.
(GGG)	 AG	374-557	GT	CGG
(AGA)	 AG	705-826	GT	AGG
(ATG)	 AG	1096-1195	GT	TGG
-recovered snap_scaffold_2055-snap.1-T1, initial, 1096, 1195
-recovered snap_scaffold_2055-snap.1-T1, internal, 374, 557
-recovered snap_scaffold_2055-snap.1-T1, internal, 705, 826
-recovered snap_scaffold_2055-snap.1-T1, internal, 1096, 1195
Valid prediction for GlimmerHMM_glimmerT_62954-T1
Couldn't classify 374, 557
Couldn't classify 1096, 1197
Sorry, prediction pasa_asmbl_27274.p1 fails validation.
(GGG)	 AG	374-557	GT	CGG
(AGA)	 AG	705-826	GT	AGG
(ATG)	 AG	1096-1197	AC	GTA
-recovered pasa_asmbl_27274.p1, internal, 374, 557
-recovered pasa_asmbl_27274.p1, internal, 705, 826
Couldn't classify 374, 557
Couldn't classify 1096, 1195
Sorry, prediction Augustus_model.g41933.t1 fails validation.
(GGG)	 AG	374-557	GT	CGG
(AGA)	 AG	705-826	GT	AGG
(ATG)	 AG	1096-1195	GT	TGG
-recovered Augustus_model.g41933.t1, initial, 1096, 1195
-recovered Augustus_model.g41933.t1, internal, 374, 557
-recovered Augustus_model.g41933.t1, internal, 705, 826
-recovered Augustus_model.g41933.t1, internal, 1096, 1195

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

-building trellis in range 1 - 1623
-exon list size: 22


building trellis

4.2    
8.3    
12.5    
16.7    
20.8    
25.0    
29.2    
33.3    
37.5    
41.7    
45.8    
50.0    
54.2    
58.3    
62.5    
66.7    
70.8    
75.0    
79.2    
83.3    
87.5    
91.7    
95.8    
-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