-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1126

-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.g41542.t1
add_exon() Sorry, Augustus_model.g41542.t1 312-487-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_62486-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62486-T1 312-487-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 63, 176
Couldn't classify 3121, 3187
Sorry, prediction GeneMark_model.108932_t fails validation.
(GTG)	 AG	63-176	GT	TGG
(GGG)	 AG	664-707	GT	GAG
(GAG)	 AG	733-744	GT	CGG
(GAG)	 AG	770-787	GT	GAG
(AGG)	 AG	1535-1579	GT	AAG
(GGG)	 AG	1672-1749	GT	GAG
(GGA)	 AG	1777-1893	GT	GGG
(GGA)	 AG	1925-1930	GT	AAG
(GGA)	 AG	1955-2080	GT	GTG
(AGG)	 AG	2166-2180	GT	AAG
(GGA)	 AG	2205-2261	GT	GGG
(ATA)	 AG	2827-2874	GT	AGG
(ACA)	 AG	3121-3187	GT	GAG
-recovered GeneMark_model.108932_t, terminal, 1535, 1579
-recovered GeneMark_model.108932_t, internal, 63, 176
-recovered GeneMark_model.108932_t, internal, 664, 707
-recovered GeneMark_model.108932_t, internal, 733, 744
-recovered GeneMark_model.108932_t, internal, 770, 787
-recovered GeneMark_model.108932_t, internal, 1535, 1579
-recovered GeneMark_model.108932_t, internal, 1672, 1749
-recovered GeneMark_model.108932_t, internal, 1777, 1893
-recovered GeneMark_model.108932_t, internal, 1925, 1930
-recovered GeneMark_model.108932_t, internal, 1955, 2080
-recovered GeneMark_model.108932_t, internal, 2166, 2180
-recovered GeneMark_model.108932_t, internal, 2205, 2261
-recovered GeneMark_model.108932_t, internal, 2827, 2874
-recovered GeneMark_model.108932_t, internal, 3121, 3187
Couldn't classify 2586, 2763
Sorry, prediction snap_scaffold_1126-snap.1-T1 fails validation.
(ATG)	 AG	1754-2115	GT	GAG
(GCT)	 AG	2586-2763	GT	AGG
-recovered snap_scaffold_1126-snap.1-T1, initial, 1754, 2115
-recovered snap_scaffold_1126-snap.1-T1, internal, 1754, 2115
-recovered snap_scaffold_1126-snap.1-T1, internal, 2586, 2763

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

-building trellis in range 1 - 3214
-exon list size: 35


building trellis

2.7    
5.4    
8.1    
10.8    
13.5    
16.2    
18.9    
21.6    
24.3    
27.0    
29.7    
32.4    
35.1    
37.8    
40.5    
43.2    
45.9    
48.6    
51.4    
54.1    
56.8    
59.5    
62.2    
64.9    
67.6    
70.3    
73.0    
75.7    
78.4    
81.1    
83.8    
86.5    
89.2    
91.9    
94.6    
97.3    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support