-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_554

-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 29, 76
Sorry, prediction snap_scaffold_554-snap.1-T1 fails validation.
(CCG)	 AG	29-76	GT	AGG
(GAG)	 AG	1883-2389	GT	TGG
(GCA)	 AG	2401-2428	GT	AGG
(ATG)	 AG	3499-3604	GT	CGG
(CTC)	 AG	3722-3895	CA	GAC
add_exon() Sorry, snap_scaffold_554-snap.1-T1 3499-3604-initial-1 is invalid.
-recovered snap_scaffold_554-snap.1-T1, initial, 3499, 3604
-recovered snap_scaffold_554-snap.1-T1, terminal, 3722, 3895
-recovered snap_scaffold_554-snap.1-T1, internal, 29, 76
-recovered snap_scaffold_554-snap.1-T1, internal, 1883, 2389
-recovered snap_scaffold_554-snap.1-T1, internal, 2401, 2428
-recovered snap_scaffold_554-snap.1-T1, internal, 3499, 3604
Couldn't classify 1898, 1933
Sorry, prediction GeneMark_model.107923_t fails validation.
(AGA)	 AG	1898-1933	GT	GGG
(GAG)	 AG	1962-1979	GC	GAG
(AGC)	 AG	2006-2089	GT	GGG
(GAG)	 AG	2115-2183	GC	GAG
(AGG)	 AG	2252-2346	GT	GGG
(GCA)	 AG	2401-2432	CA	AAC
-recovered GeneMark_model.107923_t, terminal, 2401, 2432
-recovered GeneMark_model.107923_t, internal, 1898, 1933
-recovered GeneMark_model.107923_t, internal, 1962, 1979
-recovered GeneMark_model.107923_t, internal, 2006, 2089
-recovered GeneMark_model.107923_t, internal, 2115, 2183
-recovered GeneMark_model.107923_t, internal, 2252, 2346
Couldn't classify 5702, 5854
Sorry, prediction Augustus_model.g41199.t1 fails validation.
(ATG)	 AC	3073-3128	GT	TGG
(ATG)	 AG	3499-3604	GT	CGG
(AGA)	 AG	4853-4950	GT	AGG
(AAA)	 AG	5325-5370	GT	AGG
(AGA)	 AG	5509-5595	GT	CTG
(GTT)	 AG	5702-5854	GT	AGG
-recovered Augustus_model.g41199.t1, initial, 3073, 3128
add_exon() Sorry, Augustus_model.g41199.t1 3499-3604-initial-1 is invalid.
-recovered Augustus_model.g41199.t1, initial, 3499, 3604
-recovered Augustus_model.g41199.t1, internal, 3499, 3604
-recovered Augustus_model.g41199.t1, internal, 4853, 4950
-recovered Augustus_model.g41199.t1, internal, 5325, 5370
-recovered Augustus_model.g41199.t1, internal, 5509, 5595
-recovered Augustus_model.g41199.t1, internal, 5702, 5854
Couldn't classify 5509, 5595
Sorry, prediction GlimmerHMM_glimmerT_61982-T1 fails validation.
(ATG)	 GA	2049-2089	GT	GGG
(ATG)	 AG	3499-3604	GT	CGG
(AGA)	 AG	5509-5595	GT	CTG
-recovered GlimmerHMM_glimmerT_61982-T1, initial, 2049, 2089
add_exon() Sorry, GlimmerHMM_glimmerT_61982-T1 3499-3604-initial-1 is invalid.
-recovered GlimmerHMM_glimmerT_61982-T1, initial, 3499, 3604
-recovered GlimmerHMM_glimmerT_61982-T1, internal, 3499, 3604
-recovered GlimmerHMM_glimmerT_61982-T1, internal, 5509, 5595

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

-building trellis in range 1 - 5934
-exon list size: 31


building trellis

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48.5    
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60.6    
63.6    
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69.7    
72.7    
75.8    
78.8    
81.8    
84.8    
87.9    
90.9    
93.9    
97.0    
-found 2 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support