-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_646

-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: +)
-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 328, 501
Sorry, prediction GlimmerHMM_glimmerT_60579-T1 fails validation.
(CGT)	 AG	328-501	GT	GCG
(CGT)	 AG	4653-4830	GT	GAG
-recovered GlimmerHMM_glimmerT_60579-T1, terminal, 4653, 4830
-recovered GlimmerHMM_glimmerT_60579-T1, internal, 328, 501
-recovered GlimmerHMM_glimmerT_60579-T1, internal, 4653, 4830
Valid prediction for snap_scaffold_646-snap.1-T1
Couldn't classify 328, 501
Couldn't classify 5011, 5126
Sorry, prediction Augustus_model.g40102.t1 fails validation.
(CGT)	 AG	328-501	GT	GCG
(AAT)	 AG	712-827	GT	AGG
(TGT)	 AG	951-1119	GT	TAG
(CTA)	 AG	1402-1471	GT	AAG
(ATG)	 AG	1663-1717	GT	TGG
(GAC)	 AG	3900-3917	GT	TGG
(TGA)	 AG	4075-4095	GT	GCG
(GAG)	 AG	4192-4224	GT	AAG
(CTG)	 AG	4347-4373	GT	CAG
(CTG)	 AG	4523-4549	GT	CAG
(AGT)	 AG	4658-4826	GT	GCG
(AAT)	 AG	5011-5126	GT	AGG
-recovered Augustus_model.g40102.t1, initial, 1663, 1717
-recovered Augustus_model.g40102.t1, internal, 328, 501
-recovered Augustus_model.g40102.t1, internal, 712, 827
-recovered Augustus_model.g40102.t1, internal, 951, 1119
-recovered Augustus_model.g40102.t1, internal, 1402, 1471
-recovered Augustus_model.g40102.t1, internal, 1663, 1717
-recovered Augustus_model.g40102.t1, internal, 3900, 3917
-recovered Augustus_model.g40102.t1, internal, 4075, 4095
-recovered Augustus_model.g40102.t1, internal, 4192, 4224
-recovered Augustus_model.g40102.t1, internal, 4347, 4373
-recovered Augustus_model.g40102.t1, internal, 4523, 4549
-recovered Augustus_model.g40102.t1, internal, 4658, 4826
-recovered Augustus_model.g40102.t1, internal, 5011, 5126
Couldn't classify 328, 501
Sorry, prediction snap_scaffold_646-snap.2-T1 fails validation.
(CGT)	 AG	328-501	GT	GCG
(AAT)	 AG	712-827	GT	AGG
(TGT)	 AG	951-1120	TA	AGT
-recovered snap_scaffold_646-snap.2-T1, terminal, 951, 1120
-recovered snap_scaffold_646-snap.2-T1, internal, 328, 501
-recovered snap_scaffold_646-snap.2-T1, internal, 712, 827
Valid prediction for CodingQuarry_transcript_55483-T1
Couldn't classify 35, 86
Sorry, prediction pasa_asmbl_49493.p1 fails validation.
(AAT)	 TA	35-86	GT	AAG
(CTG)	 AG	198-224	GT	CAG
(AGT)	 AG	333-501	GT	GCG
(AAT)	 AG	712-827	GT	AGG
(TGT)	 AG	951-1119	GT	TAG
(CTA)	 AG	1402-1513	AC	AAA
-recovered pasa_asmbl_49493.p1, terminal, 1402, 1513
-recovered pasa_asmbl_49493.p1, internal, 198, 224
-recovered pasa_asmbl_49493.p1, internal, 333, 501
-recovered pasa_asmbl_49493.p1, internal, 712, 827
-recovered pasa_asmbl_49493.p1, internal, 951, 1119

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

-building trellis in range 1 - 5176
-exon list size: 31


building trellis

3.0    
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27.3    
30.3    
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36.4    
39.4    
42.4    
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48.5    
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54.5    
57.6    
60.6    
63.6    
66.7    
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 2 predictions persist after filtering for low support