-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_626

-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 4884, 5196
Sorry, prediction Augustus_model.g40090.t1 fails validation.
(ATG)	 GA	1599-1799	GT	AGG
(ACT)	 AG	1996-2139	GT	ACG
(ACC)	 AG	2218-2374	GT	AGG
(ACA)	 AG	2468-2495	GT	ACG
(AGG)	 AG	2628-2745	GT	AGG
(GGG)	 AG	2890-2982	GT	TCG
(GGA)	 AG	3070-3133	GT	TTG
(ATC)	 AG	3281-3379	GT	GGG
(AGA)	 AG	3490-3593	GT	ATG
(GAA)	 AG	3691-3829	GT	GGG
(ACA)	 AG	4069-4187	GT	AGG
(GTG)	 AG	4352-4501	GT	ATG
(TTC)	 AG	4603-4773	GT	AGG
(CCC)	 AG	4884-5196	GT	TGG
-recovered Augustus_model.g40090.t1, initial, 1599, 1799
-recovered Augustus_model.g40090.t1, internal, 1996, 2139
-recovered Augustus_model.g40090.t1, internal, 2218, 2374
-recovered Augustus_model.g40090.t1, internal, 2468, 2495
-recovered Augustus_model.g40090.t1, internal, 2628, 2745
-recovered Augustus_model.g40090.t1, internal, 2890, 2982
-recovered Augustus_model.g40090.t1, internal, 3070, 3133
-recovered Augustus_model.g40090.t1, internal, 3281, 3379
-recovered Augustus_model.g40090.t1, internal, 3490, 3593
-recovered Augustus_model.g40090.t1, internal, 3691, 3829
-recovered Augustus_model.g40090.t1, internal, 4069, 4187
-recovered Augustus_model.g40090.t1, internal, 4352, 4501
-recovered Augustus_model.g40090.t1, internal, 4603, 4773
-recovered Augustus_model.g40090.t1, internal, 4884, 5196
Couldn't classify 2628, 2664
Sorry, prediction pasa_asmbl_49478.p1 fails validation.
(ATG)	 GA	1599-1799	GT	AGG
(ACT)	 AG	1996-2139	GT	ACG
(ACC)	 AG	2218-2374	GT	AGG
(ACA)	 AG	2468-2495	GT	ACG
(AGG)	 AG	2628-2664	CG	AAC
-recovered pasa_asmbl_49478.p1, initial, 1599, 1799
-recovered pasa_asmbl_49478.p1, internal, 1996, 2139
-recovered pasa_asmbl_49478.p1, internal, 2218, 2374
-recovered pasa_asmbl_49478.p1, internal, 2468, 2495
Couldn't classify 4884, 5196
Sorry, prediction GlimmerHMM_glimmerT_60561-T1 fails validation.
(ATG)	 GA	1599-1799	GT	AGG
(ACT)	 AG	1996-2139	GT	ACG
(ACC)	 AG	2218-2360	GT	CAG
(AGG)	 AG	2628-2745	GT	AGG
(GGG)	 AG	2890-3031	GT	CAG
(ATC)	 AG	3281-3379	GT	GGG
(AGA)	 AG	3490-3593	GT	ATG
(GAA)	 AG	3691-3829	GT	GGG
(ACA)	 AG	4069-4187	GT	AGG
(GTG)	 AG	4352-4501	GT	ATG
(TTC)	 AG	4603-4773	GT	AGG
(CCC)	 AG	4884-5196	GT	TGG
-recovered GlimmerHMM_glimmerT_60561-T1, initial, 1599, 1799
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 1996, 2139
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 2218, 2360
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 2628, 2745
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 2890, 3031
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 3281, 3379
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 3490, 3593
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 3691, 3829
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 4069, 4187
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 4352, 4501
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 4603, 4773
-recovered GlimmerHMM_glimmerT_60561-T1, internal, 4884, 5196
Couldn't classify 3073, 3133
Couldn't classify 5282, 5334
Sorry, prediction pasa_asmbl_49479.p1 fails validation.
(AAA)	 GA	3073-3133	GT	TTG
(ATC)	 AG	3281-3379	GT	GGG
(AGA)	 AG	3490-3593	GT	ATG
(GAA)	 AG	3691-3829	GT	GGG
(ACA)	 AG	4069-4187	GT	AGG
(GTG)	 AG	4352-4501	GT	ATG
(TTC)	 AG	4603-4773	GT	AGG
(CCC)	 AG	4884-5196	GT	TGG
(CTG)	 AG	5282-5334		CT
-recovered pasa_asmbl_49479.p1, internal, 3281, 3379
-recovered pasa_asmbl_49479.p1, internal, 3490, 3593
-recovered pasa_asmbl_49479.p1, internal, 3691, 3829
-recovered pasa_asmbl_49479.p1, internal, 4069, 4187
-recovered pasa_asmbl_49479.p1, internal, 4352, 4501
-recovered pasa_asmbl_49479.p1, internal, 4603, 4773
-recovered pasa_asmbl_49479.p1, internal, 4884, 5196
Couldn't classify 4884, 5196
Sorry, prediction snap_scaffold_626-snap.1-T1 fails validation.
(ATG)	 GA	1599-1799	GT	AGG
(ACT)	 AG	1996-2139	GT	ACG
(ACC)	 AG	2218-2374	GT	AGG
(ACA)	 AG	2468-2495	GT	ACG
(AGG)	 AG	2628-2745	GT	AGG
(GGG)	 AG	2890-2982	GT	TCG
(GGA)	 AG	3070-3133	GT	TTG
(ATC)	 AG	3281-3379	GT	GGG
(AGA)	 AG	3490-3593	GT	ATG
(GAA)	 AG	3691-3829	GT	GGG
(ACA)	 AG	4069-4187	GT	AGG
(GTG)	 AG	4352-4501	GT	ATG
(TTC)	 AG	4603-4773	GT	AGG
(CCC)	 AG	4884-5196	GT	TGG
-recovered snap_scaffold_626-snap.1-T1, initial, 1599, 1799
-recovered snap_scaffold_626-snap.1-T1, internal, 1996, 2139
-recovered snap_scaffold_626-snap.1-T1, internal, 2218, 2374
-recovered snap_scaffold_626-snap.1-T1, internal, 2468, 2495
-recovered snap_scaffold_626-snap.1-T1, internal, 2628, 2745
-recovered snap_scaffold_626-snap.1-T1, internal, 2890, 2982
-recovered snap_scaffold_626-snap.1-T1, internal, 3070, 3133
-recovered snap_scaffold_626-snap.1-T1, internal, 3281, 3379
-recovered snap_scaffold_626-snap.1-T1, internal, 3490, 3593
-recovered snap_scaffold_626-snap.1-T1, internal, 3691, 3829
-recovered snap_scaffold_626-snap.1-T1, internal, 4069, 4187
-recovered snap_scaffold_626-snap.1-T1, internal, 4352, 4501
-recovered snap_scaffold_626-snap.1-T1, internal, 4603, 4773
-recovered snap_scaffold_626-snap.1-T1, internal, 4884, 5196

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

-building trellis in range 1 - 5334
-exon list size: 25


building trellis

3.7    
7.4    
11.1    
14.8    
18.5    
22.2    
25.9    
29.6    
33.3    
37.0    
40.7    
44.4    
48.1    
51.9    
55.6    
59.3    
63.0    
66.7    
70.4    
74.1    
77.8    
81.5    
85.2    
88.9    
92.6    
96.3    
-found 1 predictions from path traversal

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