-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_707

-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 GeneMark_model.108235_t

-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 657, 793
Sorry, prediction GlimmerHMM_glimmerT_62146-T1 fails validation.
(GAT)	 AG	657-793	GT	AGG
(CCA)	 AG	1223-1324	GT	GTG
(CAG)	 AG	1625-1768	CG	GAC
-recovered GlimmerHMM_glimmerT_62146-T1, terminal, 1625, 1768
-recovered GlimmerHMM_glimmerT_62146-T1, internal, 657, 793
-recovered GlimmerHMM_glimmerT_62146-T1, internal, 1223, 1324
Couldn't classify 2474, 2506
Couldn't classify 4515, 4641
Sorry, prediction pasa_asmbl_51558.p1 fails validation.
(CAG)	 GC	2474-2506	GT	AGG
(AAG)	 AG	3920-3978	GT	AAG
(GTT)	 AG	4126-4242	GT	AAG
(GCT)	 AG	4515-4641	AG	CCA
-recovered pasa_asmbl_51558.p1, internal, 3920, 3978
-recovered pasa_asmbl_51558.p1, internal, 4126, 4242
Couldn't classify 4515, 4647
Sorry, prediction GeneMark_model.108234_t fails validation.
(ATG)	 AA	1537-1572	GT	CGG
(GAG)	 AG	1628-1764	GT	GTG
(GCA)	 AG	1795-1881	GT	GGG
(AGG)	 AG	1928-1936	GT	AGG
(GAG)	 AG	1976-2119	GT	GGG
(CTG)	 AG	2143-2248	GT	CTG
(GTC)	 AG	2381-2506	GT	AGG
(AAG)	 AG	3920-3978	GT	AAG
(GCT)	 AG	4135-4242	GT	AAG
(GCT)	 AG	4515-4647	GT	CGG
-recovered GeneMark_model.108234_t, initial, 1537, 1572
-recovered GeneMark_model.108234_t, internal, 1628, 1764
-recovered GeneMark_model.108234_t, internal, 1795, 1881
-recovered GeneMark_model.108234_t, internal, 1928, 1936
-recovered GeneMark_model.108234_t, internal, 1976, 2119
-recovered GeneMark_model.108234_t, internal, 2143, 2248
-recovered GeneMark_model.108234_t, internal, 2381, 2506
-recovered GeneMark_model.108234_t, internal, 3920, 3978
-recovered GeneMark_model.108234_t, internal, 4135, 4242
-recovered GeneMark_model.108234_t, internal, 4515, 4647
Valid prediction for GlimmerHMM_glimmerT_62145-T1
Couldn't classify 70, 142
Sorry, prediction snap_scaffold_707-snap.2-T1 fails validation.
(CAA)	 AG	70-142	GT	AGG
(GAT)	 AG	657-793	GT	AGG
(CAG)	 AG	1227-1316	GT	AGG
(GAG)	 AG	1628-1762	GT	AGG
(TTA)	 AG	1799-1900	GG	AAG
-recovered snap_scaffold_707-snap.2-T1, terminal, 1799, 1900
-recovered snap_scaffold_707-snap.2-T1, internal, 70, 142
-recovered snap_scaffold_707-snap.2-T1, internal, 657, 793
-recovered snap_scaffold_707-snap.2-T1, internal, 1227, 1316
-recovered snap_scaffold_707-snap.2-T1, internal, 1628, 1762
Couldn't classify 4515, 4647
Sorry, prediction Augustus_model.g41307.t1 fails validation.
(ATG)	 GG	80-142	GT	AGG
(GGT)	 AG	674-793	GT	AGG
(CAG)	 AG	1227-1316	GT	AGG
(CAG)	 AG	1625-1762	GT	AGG
(GTC)	 AG	2381-2506	GT	AGG
(AAG)	 AG	3920-3978	GT	AAG
(GTT)	 AG	4126-4242	GT	AAG
(GCT)	 AG	4515-4647	GT	CGG
-recovered Augustus_model.g41307.t1, initial, 80, 142
-recovered Augustus_model.g41307.t1, internal, 674, 793
-recovered Augustus_model.g41307.t1, internal, 1227, 1316
-recovered Augustus_model.g41307.t1, internal, 1625, 1762
-recovered Augustus_model.g41307.t1, internal, 2381, 2506
-recovered Augustus_model.g41307.t1, internal, 3920, 3978
-recovered Augustus_model.g41307.t1, internal, 4126, 4242
-recovered Augustus_model.g41307.t1, internal, 4515, 4647
Couldn't classify 4515, 4647
Sorry, prediction snap_scaffold_707-snap.1-T1 fails validation.
(ATG)	 GG	1919-2179	GT	AGG
(GTC)	 AG	2381-2506	GT	AGG
(AAG)	 AG	3920-3978	GT	AAG
(GTT)	 AG	4126-4242	GT	AAG
(GCT)	 AG	4515-4647	GT	CGG
-recovered snap_scaffold_707-snap.1-T1, initial, 1919, 2179
-recovered snap_scaffold_707-snap.1-T1, internal, 2381, 2506
-recovered snap_scaffold_707-snap.1-T1, internal, 3920, 3978
-recovered snap_scaffold_707-snap.1-T1, internal, 4126, 4242
-recovered snap_scaffold_707-snap.1-T1, internal, 4515, 4647

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

-building trellis in range 1 - 4903
-exon list size: 42


building trellis

2.3    
4.5    
6.8    
9.1    
11.4    
13.6    
15.9    
18.2    
20.5    
22.7    
25.0    
27.3    
29.5    
31.8    
34.1    
36.4    
38.6    
40.9    
43.2    
45.5    
47.7    
50.0    
52.3    
54.5    
56.8    
59.1    
61.4    
63.6    
65.9    
68.2    
70.5    
72.7    
75.0    
77.3    
79.5    
81.8    
84.1    
86.4    
88.6    
90.9    
93.2    
95.5    
97.7    
-found 2 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support