-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_196

-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.g39735.t1
Couldn't classify 9649, 9790
Sorry, prediction GlimmerHMM_glimmerT_59990-T1 fails validation.
(ATG)	 AG	3657-3951	GT	AGG
(CCT)	 AG	4687-4844	GT	AGG
(AAC)	 AG	6327-6437	GT	AGG
(ATG)	 AG	7632-7794	GT	CGG
(GAG)	 AG	8409-8558	GT	AGG
(AGT)	 AG	8767-8930	GT	TGG
(TTG)	 AG	9197-9373	GT	AGG
(AAT)	 AG	9649-9790	GT	AGG
-recovered GlimmerHMM_glimmerT_59990-T1, initial, 3657, 3951
-recovered GlimmerHMM_glimmerT_59990-T1, initial, 7632, 7794
add_exon() Sorry, GlimmerHMM_glimmerT_59990-T1 3657-3951-terminal-3 is invalid.
-recovered GlimmerHMM_glimmerT_59990-T1, terminal, 3657, 3951
-recovered GlimmerHMM_glimmerT_59990-T1, internal, 3657, 3951
-recovered GlimmerHMM_glimmerT_59990-T1, internal, 4687, 4844
-recovered GlimmerHMM_glimmerT_59990-T1, internal, 6327, 6437
-recovered GlimmerHMM_glimmerT_59990-T1, internal, 7632, 7794
-recovered GlimmerHMM_glimmerT_59990-T1, internal, 8409, 8558
-recovered GlimmerHMM_glimmerT_59990-T1, internal, 8767, 8930
-recovered GlimmerHMM_glimmerT_59990-T1, internal, 9197, 9373
-recovered GlimmerHMM_glimmerT_59990-T1, internal, 9649, 9790
Couldn't classify 9649, 9790
Sorry, prediction snap_scaffold_196-snap.2-T1 fails validation.
(ATG)	 GT	7457-7498	GT	ATG
(ATG)	 AG	7632-7794	GT	CGG
(GAG)	 AG	8409-8558	GT	AGG
(AGT)	 AG	8767-8930	GT	TGG
(TTG)	 AG	9197-9373	GT	AGG
(AAT)	 AG	9649-9790	GT	AGG
-recovered snap_scaffold_196-snap.2-T1, initial, 7457, 7498
-recovered snap_scaffold_196-snap.2-T1, initial, 7632, 7794
-recovered snap_scaffold_196-snap.2-T1, internal, 7632, 7794
-recovered snap_scaffold_196-snap.2-T1, internal, 8409, 8558
-recovered snap_scaffold_196-snap.2-T1, internal, 8767, 8930
-recovered snap_scaffold_196-snap.2-T1, internal, 9197, 9373
-recovered snap_scaffold_196-snap.2-T1, internal, 9649, 9790
Valid prediction for GlimmerHMM_glimmerT_59989-T1
Valid prediction for snap_scaffold_196-snap.1-T1
Couldn't classify 9649, 9790
Sorry, prediction Augustus_model.g39736.t1 fails validation.
(ATG)	 AG	7632-7794	GT	CGG
(GAG)	 AG	8409-8558	GT	AGG
(AGT)	 AG	8767-8930	GT	TGG
(TTG)	 AG	9197-9373	GT	AGG
(AAT)	 AG	9649-9790	GT	AGG
-recovered Augustus_model.g39736.t1, initial, 7632, 7794
-recovered Augustus_model.g39736.t1, internal, 7632, 7794
-recovered Augustus_model.g39736.t1, internal, 8409, 8558
-recovered Augustus_model.g39736.t1, internal, 8767, 8930
-recovered Augustus_model.g39736.t1, internal, 9197, 9373
-recovered Augustus_model.g39736.t1, internal, 9649, 9790

-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 - 9924
-exon list size: 26


building trellis

3.6    
7.1    
10.7    
14.3    
17.9    
21.4    
25.0    
28.6    
32.1    
35.7    
39.3    
42.9    
46.4    
50.0    
53.6    
57.1    
60.7    
64.3    
67.9    
71.4    
75.0    
78.6    
82.1    
85.7    
89.3    
92.9    
96.4    
-found 2 predictions from path traversal

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