-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_500

-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 Augustus_model.g41164.t1
Couldn't classify 1, 246
Sorry, prediction HiQ_model.g41163.t1 fails validation.
(GTG)	 GA	1-246	GT	AGG
(CGA)	 AG	419-745	GT	AGG
(GAG)	 AG	1075-1182	GT	AGG
(GTG)	 AG	1274-1333	GT	AGG
(GCG)	 AG	1626-1696	CT	AAC
-recovered HiQ_model.g41163.t1, terminal, 1626, 1696
-recovered HiQ_model.g41163.t1, internal, 419, 745
-recovered HiQ_model.g41163.t1, internal, 1075, 1182
-recovered HiQ_model.g41163.t1, internal, 1274, 1333
Valid prediction for snap_scaffold_500-snap.1-T1
Valid prediction for CodingQuarry_transcript_52362-T1
Valid prediction for snap_scaffold_500-snap.2-T1
Couldn't classify 3, 246
Sorry, prediction pasa_asmbl_46450.p1 fails validation.
(GGG)	 GT	3-246	GT	AGG
(CGA)	 AG	419-745	GT	AGG
(GAG)	 AG	1075-1182	GT	AGG
(GTG)	 AG	1274-1333	GT	AGG
(GCG)	 AG	1626-1696	CT	AAC
-recovered pasa_asmbl_46450.p1, terminal, 1626, 1696
-recovered pasa_asmbl_46450.p1, internal, 419, 745
-recovered pasa_asmbl_46450.p1, internal, 1075, 1182
-recovered pasa_asmbl_46450.p1, internal, 1274, 1333
Valid prediction for GlimmerHMM_glimmerT_61927-T1
Couldn't classify 21, 246
Sorry, prediction GeneMark_model.107808_t fails validation.
(TGT)	 AG	21-246	GT	AGG
(CGA)	 AG	419-745	GT	AGG
(GCG)	 AG	3533-3568	GT	AGG
(ACA)	 AG	3925-4028	GT	CTG
(CAA)	 AG	4133-4167	GT	AGG
(GTT)	 AG	4458-4533	GT	AGG
(CCC)	 AG	5191-5295	GC	GAG
-recovered GeneMark_model.107808_t, terminal, 5191, 5295
-recovered GeneMark_model.107808_t, internal, 21, 246
-recovered GeneMark_model.107808_t, internal, 419, 745
-recovered GeneMark_model.107808_t, internal, 3533, 3568
-recovered GeneMark_model.107808_t, internal, 3925, 4028
-recovered GeneMark_model.107808_t, internal, 4133, 4167
-recovered GeneMark_model.107808_t, internal, 4458, 4533
-recovered GeneMark_model.107808_t, internal, 5191, 5295

-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 - 6433
-exon list size: 28


building trellis

3.3    
6.7    
10.0    
13.3    
16.7    
20.0    
23.3    
26.7    
30.0    
33.3    
36.7    
40.0    
43.3    
46.7    
50.0    
53.3    
56.7    
60.0    
63.3    
66.7    
70.0    
73.3    
76.7    
80.0    
83.3    
86.7    
90.0    
93.3    
96.7    
-found 2 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support