-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/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 GlimmerHMM_glimmerT_62063-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_62063-T1, initial, 1599, 1799
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 1996, 2139
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 2218, 2360
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 2628, 2745
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 2890, 3031
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 3281, 3379
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 3490, 3593
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 3691, 3829
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 4069, 4187
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 4352, 4501
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 4603, 4773
-recovered GlimmerHMM_glimmerT_62063-T1, internal, 4884, 5196
Couldn't classify 4884, 5120
Sorry, prediction GeneMark_model.108078_t fails validation.
(ATG)	 GA	1599-1799	GT	AGG
(AAC)	 AG	2032-2139	GT	ACG
(ACC)	 AG	2218-2374	GT	AGG
(GAA)	 AG	2645-2745	GT	AGG
(GGG)	 AG	2890-2982	GT	TCG
(CTC)	 AG	3313-3379	GT	GGG
(AGG)	 AG	3722-3829	GT	GGG
(ACA)	 AG	4069-4145	GT	AAG
(GTG)	 AG	4352-4501	GT	ATG
(TTC)	 AG	4603-4773	GT	AGG
(CCC)	 AG	4884-5120	GT	TGG
-recovered GeneMark_model.108078_t, initial, 1599, 1799
-recovered GeneMark_model.108078_t, internal, 2032, 2139
-recovered GeneMark_model.108078_t, internal, 2218, 2374
-recovered GeneMark_model.108078_t, internal, 2645, 2745
-recovered GeneMark_model.108078_t, internal, 2890, 2982
-recovered GeneMark_model.108078_t, internal, 3313, 3379
-recovered GeneMark_model.108078_t, internal, 3722, 3829
-recovered GeneMark_model.108078_t, internal, 4069, 4145
-recovered GeneMark_model.108078_t, internal, 4352, 4501
-recovered GeneMark_model.108078_t, internal, 4603, 4773
-recovered GeneMark_model.108078_t, internal, 4884, 5120
Couldn't classify 3070, 3133
Couldn't classify 5282, 5334
Sorry, prediction pasa_asmbl_49419.p1 fails validation.
(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
(CTG)	 AG	5282-5334		CT
-recovered pasa_asmbl_49419.p1, internal, 3070, 3133
-recovered pasa_asmbl_49419.p1, internal, 3281, 3379
-recovered pasa_asmbl_49419.p1, internal, 3490, 3593
-recovered pasa_asmbl_49419.p1, internal, 3691, 3829
-recovered pasa_asmbl_49419.p1, internal, 4069, 4187
-recovered pasa_asmbl_49419.p1, internal, 4352, 4501
-recovered pasa_asmbl_49419.p1, internal, 4603, 4773
-recovered pasa_asmbl_49419.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
Couldn't classify 4884, 5196
Sorry, prediction Augustus_model.g41253.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.g41253.t1, initial, 1599, 1799
-recovered Augustus_model.g41253.t1, internal, 1996, 2139
-recovered Augustus_model.g41253.t1, internal, 2218, 2374
-recovered Augustus_model.g41253.t1, internal, 2468, 2495
-recovered Augustus_model.g41253.t1, internal, 2628, 2745
-recovered Augustus_model.g41253.t1, internal, 2890, 2982
-recovered Augustus_model.g41253.t1, internal, 3070, 3133
-recovered Augustus_model.g41253.t1, internal, 3281, 3379
-recovered Augustus_model.g41253.t1, internal, 3490, 3593
-recovered Augustus_model.g41253.t1, internal, 3691, 3829
-recovered Augustus_model.g41253.t1, internal, 4069, 4187
-recovered Augustus_model.g41253.t1, internal, 4352, 4501
-recovered Augustus_model.g41253.t1, internal, 4603, 4773
-recovered Augustus_model.g41253.t1, internal, 4884, 5196
Couldn't classify 2628, 2664
Sorry, prediction pasa_asmbl_49418.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_49418.p1, initial, 1599, 1799
-recovered pasa_asmbl_49418.p1, internal, 1996, 2139
-recovered pasa_asmbl_49418.p1, internal, 2218, 2374
-recovered pasa_asmbl_49418.p1, internal, 2468, 2495

-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: 34


building trellis

2.8    
5.6    
8.3    
11.1    
13.9    
16.7    
19.4    
22.2    
25.0    
27.8    
30.6    
33.3    
36.1    
38.9    
41.7    
44.4    
47.2    
50.0    
52.8    
55.6    
58.3    
61.1    
63.9    
66.7    
69.4    
72.2    
75.0    
77.8    
80.6    
83.3    
86.1    
88.9    
91.7    
94.4    
97.2    
-found 1 predictions from path traversal

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