-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1365

-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 109, 538
Sorry, prediction Augustus_model.g41642.t1 fails validation.
(GGG)	 AG	109-538	GT	TGG
(ACG)	 AG	961-1145	GG	GAG
-recovered Augustus_model.g41642.t1, terminal, 961, 1145
-recovered Augustus_model.g41642.t1, internal, 109, 538
Valid prediction for Augustus_model.g41640.t1
Valid prediction for Augustus_model.g41641.t1
Valid prediction for GlimmerHMM_glimmerT_62611-T1
Couldn't classify 13, 93
Sorry, prediction GeneMark_model.109256_t fails validation.
(GCA)	 AG	13-93	GT	CCG
(TTC)	 AG	121-610	GT	GTG
(TTC)	 AG	679-736	GT	CTG
(GGC)	 AG	782-1112	GT	GGG
(GGT)	 AG	1147-1453	GT	TGG
(ATG)	 AG	1488-1554	GT	GAG
(GCA)	 AG	1601-1729	GT	AGG
(CCG)	 AG	1769-1802	GG	GAG
add_exon() Sorry, GeneMark_model.109256_t 1488-1554-initial-1 is invalid.
-recovered GeneMark_model.109256_t, initial, 1488, 1554
-recovered GeneMark_model.109256_t, terminal, 1769, 1802
-recovered GeneMark_model.109256_t, internal, 13, 93
-recovered GeneMark_model.109256_t, internal, 121, 610
-recovered GeneMark_model.109256_t, internal, 679, 736
-recovered GeneMark_model.109256_t, internal, 782, 1112
-recovered GeneMark_model.109256_t, internal, 1147, 1453
-recovered GeneMark_model.109256_t, internal, 1488, 1554
-recovered GeneMark_model.109256_t, internal, 1601, 1729
Valid prediction for snap_scaffold_1365-snap.1-T1
Valid prediction for GlimmerHMM_glimmerT_62610-T1

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

-building trellis in range 1 - 2578
-exon list size: 29


building trellis

3.2    
6.5    
9.7    
12.9    
16.1    
19.4    
22.6    
25.8    
29.0    
32.3    
35.5    
38.7    
41.9    
45.2    
48.4    
51.6    
54.8    
58.1    
61.3    
64.5    
67.7    
71.0    
74.2    
77.4    
80.6    
83.9    
87.1    
90.3    
93.5    
96.8    
-found 2 predictions from path traversal
GOT 5prime partial gene.

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