-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_571

-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 4657, 4781
Sorry, prediction GlimmerHMM_glimmerT_62004-T1 fails validation.
(ATG)	 GC	2018-2087	GT	GGG
(GTA)	 AG	2746-2920	GT	AGG
(AAA)	 AG	3282-3363	GT	AGG
(GTG)	 AG	4657-4781	GT	CGG
-recovered GlimmerHMM_glimmerT_62004-T1, initial, 2018, 2087
-recovered GlimmerHMM_glimmerT_62004-T1, internal, 2746, 2920
-recovered GlimmerHMM_glimmerT_62004-T1, internal, 3282, 3363
-recovered GlimmerHMM_glimmerT_62004-T1, internal, 4657, 4781
Couldn't classify 1, 21
Couldn't classify 3282, 3345
Sorry, prediction pasa_asmbl_46545.p1 fails validation.
(CGC)	 CA	1-21	GT	GAG
(AAA)	 AG	481-602	GC	AGG
(TGA)	 AG	1924-2087	GT	GGG
(GTA)	 AG	2746-2920	GT	AGG
(AAA)	 AG	3282-3345	GA	TGG
-recovered pasa_asmbl_46545.p1, internal, 481, 602
-recovered pasa_asmbl_46545.p1, internal, 1924, 2087
-recovered pasa_asmbl_46545.p1, internal, 2746, 2920
Valid prediction for GeneMark_model.107956_t
Couldn't classify 481, 590
Couldn't classify 4657, 4781
Sorry, prediction snap_scaffold_571-snap.1-T1 fails validation.
(AAA)	 AG	481-590	GT	CAG
(TGA)	 AG	1924-2087	GT	GGG
(GTA)	 AG	2746-2920	GT	AGG
(AAA)	 AG	3282-3363	GT	AGG
(GTG)	 AG	4657-4781	GT	CGG
-recovered snap_scaffold_571-snap.1-T1, internal, 481, 590
-recovered snap_scaffold_571-snap.1-T1, internal, 1924, 2087
-recovered snap_scaffold_571-snap.1-T1, internal, 2746, 2920
-recovered snap_scaffold_571-snap.1-T1, internal, 3282, 3363
-recovered snap_scaffold_571-snap.1-T1, internal, 4657, 4781
Couldn't classify 1, 21
Sorry, prediction Augustus_model.g41212.t1 fails validation.
(CGC)	 CA	1-21	GT	GAG
(AAA)	 AG	481-602	GC	AGG
(TGA)	 AG	1924-2087	GT	GGG
(GTA)	 AG	2746-2920	GT	AGG
(AAA)	 AG	3282-3363	GT	AGG
(GTT)	 AG	3959-4000	GT	AGG
(TGG)	 AG	4138-4166	GT	AGG
(GTG)	 AG	4327-4360	GT	AGG
(GTG)	 AG	4657-4789	GT	ACG
(CTG)	 AG	5307-5335	CA	AGC
-recovered Augustus_model.g41212.t1, terminal, 5307, 5335
-recovered Augustus_model.g41212.t1, internal, 481, 602
-recovered Augustus_model.g41212.t1, internal, 1924, 2087
-recovered Augustus_model.g41212.t1, internal, 2746, 2920
-recovered Augustus_model.g41212.t1, internal, 3282, 3363
-recovered Augustus_model.g41212.t1, internal, 3959, 4000
-recovered Augustus_model.g41212.t1, internal, 4138, 4166
-recovered Augustus_model.g41212.t1, internal, 4327, 4360
-recovered Augustus_model.g41212.t1, internal, 4657, 4789

-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: -)Valid prediction for GeneMark_model.107955_t
Couldn't classify 5520, 5735
Sorry, prediction GeneMark_model.107954_t fails validation.
(ATG)	 TC	5331-5338	GT	CAG
(GAG)	 AG	5520-5735	GT	CGG
-recovered GeneMark_model.107954_t, initial, 5331, 5338
-recovered GeneMark_model.107954_t, internal, 5520, 5735
Couldn't classify 256, 270
Sorry, prediction GeneMark_model.107957_t fails validation.
(AGA)	 AG	256-270	GT	GCG
(ACT)	 AG	295-324	GT	ATG
(GAG)	 AG	457-691	CA	GAC
-recovered GeneMark_model.107957_t, terminal, 457, 691
-recovered GeneMark_model.107957_t, internal, 256, 270
-recovered GeneMark_model.107957_t, internal, 295, 324

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

-building trellis in range 1 - 5743
-exon list size: 38


building trellis

2.5    
5.0    
7.5    
10.0    
12.5    
15.0    
17.5    
20.0    
22.5    
25.0    
27.5    
30.0    
32.5    
35.0    
37.5    
40.0    
42.5    
45.0    
47.5    
50.0    
52.5    
55.0    
57.5    
60.0    
62.5    
65.0    
67.5    
70.0    
72.5    
75.0    
77.5    
80.0    
82.5    
85.0    
87.5    
90.0    
92.5    
95.0    
97.5    
-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