-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1260

-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 Augustus_model.g41598.t1
add_exon() Sorry, Augustus_model.g41598.t1 631-692-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: -)Couldn't classify 321, 408
Sorry, prediction snap_scaffold_1260-snap.1-T1 fails validation.
(CCC)	 AG	321-408	GT	ACG
(ACC)	 AG	2368-2472	AG	AGA
-recovered snap_scaffold_1260-snap.1-T1, terminal, 2368, 2472
-recovered snap_scaffold_1260-snap.1-T1, internal, 321, 408
Couldn't classify 321, 408
Sorry, prediction GlimmerHMM_glimmerT_62548-T1 fails validation.
(CCC)	 AG	321-408	GT	ACG
(ACC)	 AG	2368-2472	AG	AGA
-recovered GlimmerHMM_glimmerT_62548-T1, terminal, 2368, 2472
-recovered GlimmerHMM_glimmerT_62548-T1, internal, 321, 408
Couldn't classify 10, 56
Couldn't classify 2785, 2793
Sorry, prediction GeneMark_model.109114_t fails validation.
(GGA)	 AG	10-56	GT	AGG
(CCC)	 AG	321-339	GT	AGG
(CTG)	 AG	360-403	GT	CGG
(AGA)	 AG	576-591	GT	AGG
(ATA)	 AG	797-817	GT	GAG
(ATG)	 AG	2160-2263	GT	ATG
(ACC)	 AG	2368-2416	GC	CAG
(GAA)	 AG	2440-2448	GT	CAG
(AGT)	 AG	2488-2508	GT	GAG
(AGT)	 AG	2533-2553	GT	GAG
(TAG)	 AG	2575-2613	GT	CAG
(GAA)	 AG	2645-2653	GT	GAG
(TAG)	 AG	2675-2713	GT	GAG
(GAA)	 AG	2745-2753	GT	GAG
(GAA)	 AG	2785-2793	GT	GAG
add_exon() Sorry, GeneMark_model.109114_t 2160-2263-initial-1 is invalid.
-recovered GeneMark_model.109114_t, initial, 2160, 2263
-recovered GeneMark_model.109114_t, internal, 10, 56
-recovered GeneMark_model.109114_t, internal, 321, 339
-recovered GeneMark_model.109114_t, internal, 360, 403
-recovered GeneMark_model.109114_t, internal, 576, 591
-recovered GeneMark_model.109114_t, internal, 797, 817
-recovered GeneMark_model.109114_t, internal, 2160, 2263
-recovered GeneMark_model.109114_t, internal, 2368, 2416
-recovered GeneMark_model.109114_t, internal, 2440, 2448
-recovered GeneMark_model.109114_t, internal, 2488, 2508
-recovered GeneMark_model.109114_t, internal, 2533, 2553
-recovered GeneMark_model.109114_t, internal, 2575, 2613
-recovered GeneMark_model.109114_t, internal, 2645, 2653
-recovered GeneMark_model.109114_t, internal, 2675, 2713
-recovered GeneMark_model.109114_t, internal, 2745, 2753
-recovered GeneMark_model.109114_t, internal, 2785, 2793

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

-building trellis in range 1 - 2845
-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
GOT 5prime partial gene.

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