-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_2258

-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 GlimmerHMM_glimmerT_63044-T1

-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 509, 618
Sorry, prediction GlimmerHMM_glimmerT_63045-T1 fails validation.
(TTC)	 AG	509-618	GT	AGG
(GTC)	 AG	821-874	GT	AGG
(TTC)	 AG	1028-1041	CA	AGC
-recovered GlimmerHMM_glimmerT_63045-T1, terminal, 1028, 1041
-recovered GlimmerHMM_glimmerT_63045-T1, internal, 509, 618
-recovered GlimmerHMM_glimmerT_63045-T1, internal, 821, 874
Couldn't classify 43, 52
Couldn't classify 1273, 1371
Sorry, prediction GeneMark_model.110179_t fails validation.
(CGA)	 AG	43-52	GT	CTG
(CAA)	 AG	93-184	GT	CAG
(GTT)	 AG	536-618	GT	AGG
(GTC)	 AG	821-874	GT	AGG
(TTC)	 AG	1028-1037	GT	AGG
(GTT)	 AG	1061-1137	GT	AGG
(GTC)	 AG	1273-1371	GT	AGG
-recovered GeneMark_model.110179_t, internal, 43, 52
-recovered GeneMark_model.110179_t, internal, 93, 184
-recovered GeneMark_model.110179_t, internal, 536, 618
-recovered GeneMark_model.110179_t, internal, 821, 874
-recovered GeneMark_model.110179_t, internal, 1028, 1037
-recovered GeneMark_model.110179_t, internal, 1061, 1137
-recovered GeneMark_model.110179_t, internal, 1273, 1371
Couldn't classify 93, 184
Couldn't classify 1273, 1371
Sorry, prediction snap_scaffold_2258-snap.1-T1 fails validation.
(CAA)	 AG	93-184	GT	CAG
(TTC)	 AG	509-618	GT	AGG
(GTC)	 AG	821-874	GT	AGG
(GGG)	 AG	1045-1137	GT	AGG
(GTC)	 AG	1273-1371	GT	AGG
-recovered snap_scaffold_2258-snap.1-T1, internal, 93, 184
-recovered snap_scaffold_2258-snap.1-T1, internal, 509, 618
-recovered snap_scaffold_2258-snap.1-T1, internal, 821, 874
-recovered snap_scaffold_2258-snap.1-T1, internal, 1045, 1137
-recovered snap_scaffold_2258-snap.1-T1, internal, 1273, 1371
Couldn't classify 1273, 1371
Sorry, prediction Augustus_model.g42016.t1 fails validation.
(ATG)	 GG	120-184	GT	CAG
(TTC)	 AG	509-618	GT	AGG
(GTC)	 AG	821-874	GT	AGG
(GGG)	 AG	1045-1137	GT	AGG
(GTC)	 AG	1273-1371	GT	AGG
-recovered Augustus_model.g42016.t1, initial, 120, 184
-recovered Augustus_model.g42016.t1, internal, 509, 618
-recovered Augustus_model.g42016.t1, internal, 821, 874
-recovered Augustus_model.g42016.t1, internal, 1045, 1137
-recovered Augustus_model.g42016.t1, internal, 1273, 1371
Couldn't classify 93, 184
Couldn't classify 1273, 1370
Sorry, prediction pasa_asmbl_30576.p1 fails validation.
(CAA)	 AG	93-184	GT	CAG
(TTC)	 AG	1028-1137	GT	AGG
(GTC)	 AG	1273-1370	GG	CAG
-recovered pasa_asmbl_30576.p1, internal, 93, 184
-recovered pasa_asmbl_30576.p1, internal, 1028, 1137

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

-building trellis in range 1 - 1429
-exon list size: 24


building trellis

3.8    
7.7    
11.5    
15.4    
19.2    
23.1    
26.9    
30.8    
34.6    
38.5    
42.3    
46.2    
50.0    
53.8    
57.7    
61.5    
65.4    
69.2    
73.1    
76.9    
80.8    
84.6    
88.5    
92.3    
96.2    
-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