-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1838

-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: +)Couldn't classify 43, 114
Sorry, prediction GeneMark_model.109785_t fails validation.
(AGA)	 AG	43-114	GT	CTG
(AGA)	 AG	503-508	GT	CGG
(GGA)	 AG	532-579	GC	CAG
(AGA)	 AG	627-737	GT	ATG
(GCG)	 AG	790-882	GT	CGG
(ATA)	 AG	908-911	AA	AGA
-recovered GeneMark_model.109785_t, terminal, 908, 911
-recovered GeneMark_model.109785_t, internal, 43, 114
-recovered GeneMark_model.109785_t, internal, 503, 508
-recovered GeneMark_model.109785_t, internal, 532, 579
-recovered GeneMark_model.109785_t, internal, 627, 737
-recovered GeneMark_model.109785_t, internal, 790, 882

-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 653, 760
Sorry, prediction GlimmerHMM_glimmerT_62858-T1 fails validation.
(AGA)	 AG	653-760	GT	AGG
(ACC)	 AG	1002-1161	GT	GGG
(AGT)	 AG	1671-1778	GA	GAG
-recovered GlimmerHMM_glimmerT_62858-T1, terminal, 1671, 1778
-recovered GlimmerHMM_glimmerT_62858-T1, internal, 653, 760
-recovered GlimmerHMM_glimmerT_62858-T1, internal, 1002, 1161
Couldn't classify 177, 224
Sorry, prediction GeneMark_model.109786_t fails validation.
(AGA)	 AG	177-224	GC	GAG
(GCC)	 AG	250-364	GT	TCG
(GCC)	 AG	554-642	GT	CTG
(CAA)	 AG	671-760	GT	AGG
(CCA)	 AG	796-898	GA	AGG
-recovered GeneMark_model.109786_t, terminal, 796, 898
-recovered GeneMark_model.109786_t, internal, 177, 224
-recovered GeneMark_model.109786_t, internal, 250, 364
-recovered GeneMark_model.109786_t, internal, 554, 642
-recovered GeneMark_model.109786_t, internal, 671, 760
Couldn't classify 224, 240
Couldn't classify 1296, 1324
Sorry, prediction snap_scaffold_1838-snap.1-T1 fails validation.
(AGC)	 AG	224-240	GT	GGG
(AGA)	 AG	653-883	GT	AAG
(ACC)	 AG	1002-1161	GT	GGG
(TTT)	 AG	1296-1324	GT	TGG
-recovered snap_scaffold_1838-snap.1-T1, internal, 224, 240
-recovered snap_scaffold_1838-snap.1-T1, internal, 653, 883
-recovered snap_scaffold_1838-snap.1-T1, internal, 1002, 1161
-recovered snap_scaffold_1838-snap.1-T1, internal, 1296, 1324

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

-building trellis in range 1 - 1885
-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 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