-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_566

-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 1, 68
Sorry, prediction HiQ_model.g41209.t1 fails validation.
(GAA)	 AG	1-68	GT	TGG
(GTG)	 AG	226-344	GT	AGG
(GCT)	 AG	591-787	GT	AAG
(GAA)	 AG	942-1125	GT	AAG
(GTG)	 AG	1227-1392	GT	ACG
(AGG)	 AG	1561-1685	GT	AGG
(GGA)	 AG	1774-2082	GT	AGG
(GAT)	 AG	2227-2430	GT	AGG
(AAC)	 AG	2523-2648	GT	ATG
(GCG)	 AG	3127-3297	GT	GAG
(GTG)	 AG	3396-3500	GT	AGG
(ACT)	 AG	3582-3677	GT	CGG
(GAG)	 AG	3811-3942	GT	AGG
(GCA)	 AG	4176-4193	AC	AGA
-recovered HiQ_model.g41209.t1, terminal, 4176, 4193
-recovered HiQ_model.g41209.t1, internal, 226, 344
-recovered HiQ_model.g41209.t1, internal, 591, 787
-recovered HiQ_model.g41209.t1, internal, 942, 1125
-recovered HiQ_model.g41209.t1, internal, 1227, 1392
-recovered HiQ_model.g41209.t1, internal, 1561, 1685
-recovered HiQ_model.g41209.t1, internal, 1774, 2082
-recovered HiQ_model.g41209.t1, internal, 2227, 2430
-recovered HiQ_model.g41209.t1, internal, 2523, 2648
-recovered HiQ_model.g41209.t1, internal, 3127, 3297
-recovered HiQ_model.g41209.t1, internal, 3396, 3500
-recovered HiQ_model.g41209.t1, internal, 3582, 3677
-recovered HiQ_model.g41209.t1, internal, 3811, 3942
Couldn't classify 243, 344
Couldn't classify 3811, 3942
Sorry, prediction GeneMark_model.107945_t fails validation.
(CTG)	 AG	243-344	GT	AGG
(GCT)	 AG	591-787	GT	AAG
(GAA)	 AG	942-1125	GT	AAG
(GTG)	 AG	1227-1392	GT	ACG
(AGG)	 AG	1561-1685	GT	AGG
(CTG)	 AG	1816-2082	GT	AGG
(GAT)	 AG	2227-2430	GT	AGG
(AAC)	 AG	2523-2648	GT	ATG
(GCG)	 AG	3127-3297	GT	GAG
(GTG)	 AG	3396-3500	GT	AGG
(GAC)	 AG	3618-3677	GT	CGG
(GAG)	 AG	3811-3942	GT	AGG
-recovered GeneMark_model.107945_t, internal, 243, 344
-recovered GeneMark_model.107945_t, internal, 591, 787
-recovered GeneMark_model.107945_t, internal, 942, 1125
-recovered GeneMark_model.107945_t, internal, 1227, 1392
-recovered GeneMark_model.107945_t, internal, 1561, 1685
-recovered GeneMark_model.107945_t, internal, 1816, 2082
-recovered GeneMark_model.107945_t, internal, 2227, 2430
-recovered GeneMark_model.107945_t, internal, 2523, 2648
-recovered GeneMark_model.107945_t, internal, 3127, 3297
-recovered GeneMark_model.107945_t, internal, 3396, 3500
-recovered GeneMark_model.107945_t, internal, 3618, 3677
-recovered GeneMark_model.107945_t, internal, 3811, 3942
Valid prediction for GlimmerHMM_glimmerT_61997-T1
Valid prediction for CodingQuarry_transcript_52404-T1
Couldn't classify 3811, 3942
Sorry, prediction GlimmerHMM_glimmerT_61998-T1 fails validation.
(ATG)	 TA	806-819	GT	GTG
(GAA)	 AG	942-1125	GT	AAG
(GTG)	 AG	1227-1392	GT	ACG
(AGG)	 AG	1561-1685	GT	AGG
(GGA)	 AG	1774-2082	GT	AGG
(GAT)	 AG	2227-2430	GT	AGG
(AAC)	 AG	2523-2648	GT	ATG
(GCG)	 AG	3127-3297	GT	GAG
(GTG)	 AG	3396-3500	GT	AGG
(ACT)	 AG	3582-3677	GT	CGG
(GAG)	 AG	3811-3942	GT	AGG
-recovered GlimmerHMM_glimmerT_61998-T1, initial, 806, 819
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 942, 1125
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 1227, 1392
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 1561, 1685
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 1774, 2082
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 2227, 2430
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 2523, 2648
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 3127, 3297
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 3396, 3500
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 3582, 3677
-recovered GlimmerHMM_glimmerT_61998-T1, internal, 3811, 3942
Couldn't classify 226, 344
Sorry, prediction snap_scaffold_566-snap.1-T1 fails validation.
(GTG)	 AG	226-344	GT	AGG
(GCT)	 AG	591-787	GT	AAG
(GAA)	 AG	942-1125	GT	AAG
(GTG)	 AG	1227-1392	GT	ACG
(AGG)	 AG	1561-1685	GT	AGG
(GGA)	 AG	1774-2082	GT	AGG
(GAT)	 AG	2227-2430	GT	AGG
(AAC)	 AG	2523-2648	GT	ATG
(GCG)	 AG	3127-3297	GT	GAG
(GTG)	 AG	3396-3500	GT	AGG
(ACT)	 AG	3582-3677	GT	CGG
(GAG)	 AG	3811-3942	GT	AGG
(GCA)	 AG	4176-4193	AC	AGA
-recovered snap_scaffold_566-snap.1-T1, terminal, 4176, 4193
-recovered snap_scaffold_566-snap.1-T1, internal, 226, 344
-recovered snap_scaffold_566-snap.1-T1, internal, 591, 787
-recovered snap_scaffold_566-snap.1-T1, internal, 942, 1125
-recovered snap_scaffold_566-snap.1-T1, internal, 1227, 1392
-recovered snap_scaffold_566-snap.1-T1, internal, 1561, 1685
-recovered snap_scaffold_566-snap.1-T1, internal, 1774, 2082
-recovered snap_scaffold_566-snap.1-T1, internal, 2227, 2430
-recovered snap_scaffold_566-snap.1-T1, internal, 2523, 2648
-recovered snap_scaffold_566-snap.1-T1, internal, 3127, 3297
-recovered snap_scaffold_566-snap.1-T1, internal, 3396, 3500
-recovered snap_scaffold_566-snap.1-T1, internal, 3582, 3677
-recovered snap_scaffold_566-snap.1-T1, internal, 3811, 3942
Couldn't classify 2, 68
Sorry, prediction pasa_asmbl_46537.p1 fails validation.
(AAT)	 G	2-68	GT	TGG
(GTG)	 AG	226-344	GT	AGG
(GCT)	 AG	591-787	GT	AAG
(GAA)	 AG	942-1125	GT	AAG
(GTG)	 AG	1227-1392	GT	ACG
(AGG)	 AG	1561-1685	GT	AGG
(GGA)	 AG	1774-2082	GT	AGG
(GAT)	 AG	2227-2430	GT	AGG
(AAC)	 AG	2523-2648	GT	ATG
(GCG)	 AG	3127-3297	GT	GAG
(GTG)	 AG	3396-3500	GT	AGG
(ACT)	 AG	3582-3677	GT	CGG
(GAG)	 AG	3811-3942	GT	AGG
(GCA)	 AG	4176-4193	AC	AGA
-recovered pasa_asmbl_46537.p1, terminal, 4176, 4193
-recovered pasa_asmbl_46537.p1, internal, 226, 344
-recovered pasa_asmbl_46537.p1, internal, 591, 787
-recovered pasa_asmbl_46537.p1, internal, 942, 1125
-recovered pasa_asmbl_46537.p1, internal, 1227, 1392
-recovered pasa_asmbl_46537.p1, internal, 1561, 1685
-recovered pasa_asmbl_46537.p1, internal, 1774, 2082
-recovered pasa_asmbl_46537.p1, internal, 2227, 2430
-recovered pasa_asmbl_46537.p1, internal, 2523, 2648
-recovered pasa_asmbl_46537.p1, internal, 3127, 3297
-recovered pasa_asmbl_46537.p1, internal, 3396, 3500
-recovered pasa_asmbl_46537.p1, internal, 3582, 3677
-recovered pasa_asmbl_46537.p1, internal, 3811, 3942

-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 - 5800
-exon list size: 21


building trellis

4.3    
8.7    
13.0    
17.4    
21.7    
26.1    
30.4    
34.8    
39.1    
43.5    
47.8    
52.2    
56.5    
60.9    
65.2    
69.6    
73.9    
78.3    
82.6    
87.0    
91.3    
95.7    
-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