-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_947

-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 1597, 1917
Couldn't classify 3722, 3834
Sorry, prediction pasa_asmbl_55847.p1 fails validation.
(AGA)	 CC	1597-1917	GT	AGG
(AGC)	 AG	2176-2280	GT	AGG
(GGA)	 AG	2368-2547	GT	AGG
(GCA)	 AG	2633-2731	GT	AGG
(AGT)	 AG	3073-3589	GT	AGG
(CAA)	 AG	3722-3834	GT	AGG
-recovered pasa_asmbl_55847.p1, internal, 2176, 2280
-recovered pasa_asmbl_55847.p1, internal, 2368, 2547
-recovered pasa_asmbl_55847.p1, internal, 2633, 2731
-recovered pasa_asmbl_55847.p1, internal, 3073, 3589
-recovered pasa_asmbl_55847.p1, internal, 3722, 3834
Couldn't classify 3073, 3589
Sorry, prediction GlimmerHMM_glimmerT_60856-T1 fails validation.
(ATG)	 AG	996-1007	GT	AGG
(GTT)	 AG	1375-1452	GT	AGG
(GCC)	 AG	1552-1917	GT	AGG
(AGC)	 AG	2176-2280	GT	AGG
(GGA)	 AG	2368-2547	GT	AGG
(GCA)	 AG	2633-2731	GT	AGG
(AGT)	 AG	3073-3589	GT	AGG
-recovered GlimmerHMM_glimmerT_60856-T1, initial, 996, 1007
-recovered GlimmerHMM_glimmerT_60856-T1, internal, 996, 1007
-recovered GlimmerHMM_glimmerT_60856-T1, internal, 1375, 1452
-recovered GlimmerHMM_glimmerT_60856-T1, internal, 1552, 1917
-recovered GlimmerHMM_glimmerT_60856-T1, internal, 2176, 2280
-recovered GlimmerHMM_glimmerT_60856-T1, internal, 2368, 2547
-recovered GlimmerHMM_glimmerT_60856-T1, internal, 2633, 2731
-recovered GlimmerHMM_glimmerT_60856-T1, internal, 3073, 3589
Couldn't classify 434, 708
Couldn't classify 3722, 3834
Sorry, prediction snap_scaffold_947-snap.1-T1 fails validation.
(ACT)	 AG	434-708	GT	CTG
(GTA)	 AG	954-1007	GT	AGG
(GCC)	 AG	1552-1917	GT	AGG
(AGC)	 AG	2176-2280	GT	AGG
(GGA)	 AG	2368-2547	GT	AGG
(GCA)	 AG	2633-2731	GT	AGG
(AGT)	 AG	3073-3589	GT	AGG
(CAA)	 AG	3722-3834	GT	AGG
-recovered snap_scaffold_947-snap.1-T1, internal, 434, 708
-recovered snap_scaffold_947-snap.1-T1, internal, 954, 1007
-recovered snap_scaffold_947-snap.1-T1, internal, 1552, 1917
-recovered snap_scaffold_947-snap.1-T1, internal, 2176, 2280
-recovered snap_scaffold_947-snap.1-T1, internal, 2368, 2547
-recovered snap_scaffold_947-snap.1-T1, internal, 2633, 2731
-recovered snap_scaffold_947-snap.1-T1, internal, 3073, 3589
-recovered snap_scaffold_947-snap.1-T1, internal, 3722, 3834
Couldn't classify 434, 708
Couldn't classify 3073, 3589
Sorry, prediction Augustus_model.g40279.t1 fails validation.
(ACT)	 AG	434-708	GT	CTG
(GTA)	 AG	954-1007	GT	AGG
(GTT)	 AG	1375-1452	GT	AGG
(GCC)	 AG	1552-1917	GT	AGG
(AGC)	 AG	2176-2280	GT	AGG
(GGA)	 AG	2368-2547	GT	AGG
(GCA)	 AG	2633-2731	GT	AGG
(AGT)	 AG	3073-3589	GT	AGG
-recovered Augustus_model.g40279.t1, internal, 434, 708
-recovered Augustus_model.g40279.t1, internal, 954, 1007
-recovered Augustus_model.g40279.t1, internal, 1375, 1452
-recovered Augustus_model.g40279.t1, internal, 1552, 1917
-recovered Augustus_model.g40279.t1, internal, 2176, 2280
-recovered Augustus_model.g40279.t1, internal, 2368, 2547
-recovered Augustus_model.g40279.t1, internal, 2633, 2731
-recovered Augustus_model.g40279.t1, internal, 3073, 3589
Valid prediction for GlimmerHMM_glimmerT_60855-T1
add_exon() Sorry, GlimmerHMM_glimmerT_60855-T1 434-837-terminal-1 is invalid.

-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 - 3865
-exon list size: 18


building trellis

5.0    
10.0    
15.0    
20.0    
25.0    
30.0    
35.0    
40.0    
45.0    
50.0    
55.0    
60.0    
65.0    
70.0    
75.0    
80.0    
85.0    
90.0    
95.0    
-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