-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_543

-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 GeneMark_model.107903_t

-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_543-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_61972-T1
Couldn't classify 793, 800
Sorry, prediction GeneMark_model.107904_t fails validation.
(GAT)	 AG	793-800	GT	CAG
(TAG)	 AG	1009-1021	GT	AGG
(GAT)	 AG	1150-1269	GC	GGG
(AGA)	 AG	1432-1635	GT	GAG
(GAC)	 AG	1849-1997	GT	GAG
(AGA)	 AG	2024-2207	GT	AAG
(GCA)	 AG	2242-2268	GT	GAG
(ACC)	 AG	2291-2330	AT	AGA
-recovered GeneMark_model.107904_t, terminal, 2291, 2330
-recovered GeneMark_model.107904_t, internal, 793, 800
-recovered GeneMark_model.107904_t, internal, 1009, 1021
-recovered GeneMark_model.107904_t, internal, 1150, 1269
-recovered GeneMark_model.107904_t, internal, 1432, 1635
-recovered GeneMark_model.107904_t, internal, 1849, 1997
-recovered GeneMark_model.107904_t, internal, 2024, 2207
-recovered GeneMark_model.107904_t, internal, 2242, 2268
Couldn't classify 5014, 5203
Sorry, prediction snap_scaffold_543-snap.1-T1 fails validation.
(ATG)	 GG	4340-4499	GT	GGG
(CCT)	 AG	5014-5203	GT	GGG
-recovered snap_scaffold_543-snap.1-T1, initial, 4340, 4499
-recovered snap_scaffold_543-snap.1-T1, internal, 5014, 5203
Valid prediction for GeneMark_model.107902_t

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

-building trellis in range 1 - 6000
-exon list size: 40


building trellis

2.4    
4.8    
7.1    
9.5    
11.9    
14.3    
16.7    
19.0    
21.4    
23.8    
26.2    
28.6    
31.0    
33.3    
35.7    
38.1    
40.5    
42.9    
45.2    
47.6    
50.0    
52.4    
54.8    
57.1    
59.5    
61.9    
64.3    
66.7    
69.0    
71.4    
73.8    
76.2    
78.6    
81.0    
83.3    
85.7    
88.1    
90.5    
92.9    
95.2    
97.6    
-found 2 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support