-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1960

-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.g41890.t1
Valid prediction for GlimmerHMM_glimmerT_62909-T1
Couldn't classify 224, 229
Couldn't classify 1088, 1219
Sorry, prediction GeneMark_model.109901_t fails validation.
(GAG)	 AG	224-229	GT	GAG
(AGA)	 AG	338-346	GT	GTG
(GGG)	 AG	415-426	GT	GAG
(AGA)	 AG	511-519	GT	AAG
(AGA)	 AG	641-647	GT	GAG
(GTG)	 AG	840-871	GT	AAG
(AGC)	 AG	985-1059	GT	CTG
(AAC)	 AG	1088-1219	GT	TCG
-recovered GeneMark_model.109901_t, internal, 224, 229
-recovered GeneMark_model.109901_t, internal, 338, 346
-recovered GeneMark_model.109901_t, internal, 415, 426
-recovered GeneMark_model.109901_t, internal, 511, 519
-recovered GeneMark_model.109901_t, internal, 641, 647
-recovered GeneMark_model.109901_t, internal, 840, 871
-recovered GeneMark_model.109901_t, internal, 985, 1059
-recovered GeneMark_model.109901_t, internal, 1088, 1219

-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: -)Valid prediction for snap_scaffold_1960-snap.1-T1
add_exon() Sorry, snap_scaffold_1960-snap.1-T1 548-770-terminal-1 is invalid.

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

-building trellis in range 1 - 1721
-exon list size: 25


building trellis

3.7    
7.4    
11.1    
14.8    
18.5    
22.2    
25.9    
29.6    
33.3    
37.0    
40.7    
44.4    
48.1    
51.9    
55.6    
59.3    
63.0    
66.7    
70.4    
74.1    
77.8    
81.5    
85.2    
88.9    
92.6    
96.3    
-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