-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_354

-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 GeneMark_model.107401_t
Couldn't classify 82, 115
Sorry, prediction GeneMark_model.107399_t fails validation.
(GTG)	 AG	82-115	GT	AGG
(GTG)	 AG	1425-1434	GT	CAG
(CCT)	 AG	1534-1855	GT	GAG
(AGA)	 AG	3159-3242	GT	GGG
(AGA)	 AG	3271-3318	GT	GAG
(GAA)	 AG	3344-3361	GC	AAG
(AGA)	 AG	3385-3405	GT	GAG
(ACC)	 AG	3511-3526	CA	AGC
-recovered GeneMark_model.107399_t, terminal, 3511, 3526
-recovered GeneMark_model.107399_t, internal, 82, 115
-recovered GeneMark_model.107399_t, internal, 1425, 1434
-recovered GeneMark_model.107399_t, internal, 1534, 1855
-recovered GeneMark_model.107399_t, internal, 3159, 3242
-recovered GeneMark_model.107399_t, internal, 3271, 3318
-recovered GeneMark_model.107399_t, internal, 3344, 3361
-recovered GeneMark_model.107399_t, internal, 3385, 3405

-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 3168, 3218
Sorry, prediction GlimmerHMM_glimmerT_61744-T1 fails validation.
(ATC)	 AG	3168-3218	GT	AGG
(GTG)	 AG	3834-3953	GT	AGG
(GTA)	 AG	4197-4324	GT	CAG
(GAC)	 AG	4682-4783	GT	AAG
(AGA)	 AG	6153-6393	AA	AGA
-recovered GlimmerHMM_glimmerT_61744-T1, terminal, 6153, 6393
-recovered GlimmerHMM_glimmerT_61744-T1, internal, 3168, 3218
-recovered GlimmerHMM_glimmerT_61744-T1, internal, 3834, 3953
-recovered GlimmerHMM_glimmerT_61744-T1, internal, 4197, 4324
-recovered GlimmerHMM_glimmerT_61744-T1, internal, 4682, 4783
Valid prediction for GeneMark_model.107400_t
Couldn't classify 1195, 1373
Sorry, prediction snap_scaffold_354-snap.1-T1 fails validation.
(AAG)	 AG	1195-1373	GT	TAG
(CTA)	 AG	3025-3078	GT	ACG
(ATC)	 AG	3168-3218	GT	AGG
(GTG)	 AG	3834-3953	GT	AGG
(GTA)	 AG	4197-4324	GT	CAG
(GAC)	 AG	4682-4783	GT	AAG
(AGA)	 AG	6153-6364	GT	CAG
(GTC)	 AG	7428-7561	TA	AAT
-recovered snap_scaffold_354-snap.1-T1, terminal, 7428, 7561
-recovered snap_scaffold_354-snap.1-T1, internal, 1195, 1373
-recovered snap_scaffold_354-snap.1-T1, internal, 3025, 3078
-recovered snap_scaffold_354-snap.1-T1, internal, 3168, 3218
-recovered snap_scaffold_354-snap.1-T1, internal, 3834, 3953
-recovered snap_scaffold_354-snap.1-T1, internal, 4197, 4324
-recovered snap_scaffold_354-snap.1-T1, internal, 4682, 4783
-recovered snap_scaffold_354-snap.1-T1, internal, 6153, 6364
Valid prediction for Augustus_model.g41040.t1

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

-building trellis in range 1 - 7813
-exon list size: 54


building trellis

1.8    
3.6    
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10.7    
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17.9    
19.6    
21.4    
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25.0    
26.8    
28.6    
30.4    
32.1    
33.9    
35.7    
37.5    
39.3    
41.1    
42.9    
44.6    
46.4    
48.2    
50.0    
51.8    
53.6    
55.4    
57.1    
58.9    
60.7    
62.5    
64.3    
66.1    
67.9    
69.6    
71.4    
73.2    
75.0    
76.8    
78.6    
80.4    
82.1    
83.9    
85.7    
87.5    
89.3    
91.1    
92.9    
94.6    
96.4    
98.2    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support