-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_159

-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 GlimmerHMM_glimmerT_61421-T1
Valid prediction for snap_scaffold_159-snap.1-T1
Valid prediction for GlimmerHMM_glimmerT_61422-T1
Valid prediction for snap_scaffold_159-snap.2-T1
Valid prediction for GeneMark_model.106780_t
Valid prediction for GeneMark_model.106778_t
add_exon() Sorry, GeneMark_model.106778_t 190-395-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 528, 641
Sorry, prediction GeneMark_model.106781_t fails validation.
(GAG)	 AG	528-641	GT	AGG
(AGT)	 AG	1185-1280	GT	GGG
(CGC)	 AG	1338-1391	GT	AGG
(CGC)	 AG	2321-2347	GT	GAG
(AGA)	 AG	2411-2513	AC	GAA
-recovered GeneMark_model.106781_t, terminal, 2411, 2513
-recovered GeneMark_model.106781_t, internal, 528, 641
-recovered GeneMark_model.106781_t, internal, 1185, 1280
-recovered GeneMark_model.106781_t, internal, 1338, 1391
-recovered GeneMark_model.106781_t, internal, 2321, 2347
Valid prediction for GlimmerHMM_glimmerT_61420-T1
Valid prediction for GeneMark_model.106779_t

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

-building trellis in range 1 - 11872
-exon list size: 37


building trellis

2.6    
5.1    
7.7    
10.3    
12.8    
15.4    
17.9    
20.5    
23.1    
25.6    
28.2    
30.8    
33.3    
35.9    
38.5    
41.0    
43.6    
46.2    
48.7    
51.3    
53.8    
56.4    
59.0    
61.5    
64.1    
66.7    
69.2    
71.8    
74.4    
76.9    
79.5    
82.1    
84.6    
87.2    
89.7    
92.3    
94.9    
97.4    
-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