-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1063

-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.g41501.t1
add_exon() Sorry, Augustus_model.g41501.t1 1180-1538-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_62435-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62435-T1 1180-1538-terminal-1 is invalid.
Couldn't classify 9, 22
Sorry, prediction GeneMark_model.108832_t fails validation.
(AGA)	 AG	9-22	GC	AGG
(AGA)	 AG	141-254	GT	AGG
(AGA)	 AG	297-326	GT	GTG
(GGA)	 AG	532-588	GT	GAG
(AGG)	 AG	617-660	GT	TCG
(GTG)	 AG	1180-1501	GT	GCG
(GGA)	 AG	1531-1560	GT	CAG
(AGA)	 AG	1631-1658	AG	AGA
-recovered GeneMark_model.108832_t, terminal, 1631, 1658
-recovered GeneMark_model.108832_t, internal, 9, 22
-recovered GeneMark_model.108832_t, internal, 141, 254
-recovered GeneMark_model.108832_t, internal, 297, 326
-recovered GeneMark_model.108832_t, internal, 532, 588
-recovered GeneMark_model.108832_t, internal, 617, 660
-recovered GeneMark_model.108832_t, internal, 1180, 1501
-recovered GeneMark_model.108832_t, internal, 1531, 1560
Couldn't classify 1180, 1523
Couldn't classify 2812, 2892
Sorry, prediction snap_scaffold_1063-snap.1-T1 fails validation.
(GTG)	 AG	1180-1523	GT	AGG
(GCG)	 AG	2812-2892	GT	CGG
-recovered snap_scaffold_1063-snap.1-T1, internal, 1180, 1523
-recovered snap_scaffold_1063-snap.1-T1, internal, 2812, 2892

-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 GeneMark_model.108833_t
Valid prediction for GeneMark_model.108834_t

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

-building trellis in range 1 - 3409
-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