-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_662

-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 1179, 1454
Sorry, prediction snap_scaffold_662-snap.1-T1 fails validation.
(AGA)	 AG	1179-1454	GT	GGG
(CCC)	 AG	2069-2326	GT	ATG
(ACG)	 AG	2803-2919	CA	AAC
-recovered snap_scaffold_662-snap.1-T1, terminal, 2803, 2919
-recovered snap_scaffold_662-snap.1-T1, internal, 1179, 1454
-recovered snap_scaffold_662-snap.1-T1, internal, 2069, 2326
Valid prediction for snap_scaffold_662-snap.3-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 1008, 1229
Couldn't classify 3481, 3717
Sorry, prediction pasa_asmbl_49510.p1 fails validation.
(GCA)	 AG	1008-1229	GT	AGG
(GCT)	 AG	1739-1849	GT	AGG
(GTG)	 AG	1941-2135	GT	AGG
(ATG)	 AG	2566-2672	GT	AGG
(GGC)	 AG	3009-3135	GT	AGG
(ATG)	 AG	3481-3717	GT	AGG
-recovered pasa_asmbl_49510.p1, initial, 2566, 2672
-recovered pasa_asmbl_49510.p1, initial, 3481, 3717
-recovered pasa_asmbl_49510.p1, internal, 1008, 1229
-recovered pasa_asmbl_49510.p1, internal, 1739, 1849
-recovered pasa_asmbl_49510.p1, internal, 1941, 2135
-recovered pasa_asmbl_49510.p1, internal, 2566, 2672
-recovered pasa_asmbl_49510.p1, internal, 3009, 3135
-recovered pasa_asmbl_49510.p1, internal, 3481, 3717
Couldn't classify 998, 1229
Couldn't classify 3481, 3717
Sorry, prediction snap_scaffold_662-snap.2-T1 fails validation.
(GTC)	 AG	998-1229	GT	AGG
(GCT)	 AG	1739-1849	GT	AGG
(GTG)	 AG	1941-2135	GT	AGG
(ATG)	 AG	2566-2672	GT	AGG
(GGC)	 AG	3009-3135	GT	AGG
(ATG)	 AG	3481-3717	GT	AGG
-recovered snap_scaffold_662-snap.2-T1, initial, 2566, 2672
-recovered snap_scaffold_662-snap.2-T1, initial, 3481, 3717
-recovered snap_scaffold_662-snap.2-T1, internal, 998, 1229
-recovered snap_scaffold_662-snap.2-T1, internal, 1739, 1849
-recovered snap_scaffold_662-snap.2-T1, internal, 1941, 2135
-recovered snap_scaffold_662-snap.2-T1, internal, 2566, 2672
-recovered snap_scaffold_662-snap.2-T1, internal, 3009, 3135
-recovered snap_scaffold_662-snap.2-T1, internal, 3481, 3717
Couldn't classify 998, 1229
Sorry, prediction Augustus_model.g40117.t1 fails validation.
(GTC)	 AG	998-1229	GT	AGG
(GCT)	 AG	1739-1849	GT	AGG
(GTG)	 AG	1941-2135	GT	AGG
(ATG)	 AG	2566-2672	GT	AGG
(GGC)	 AG	3009-3135	GT	AGG
(ATG)	 AG	3481-3747	TG	GAT
-recovered Augustus_model.g40117.t1, initial, 2566, 2672
-recovered Augustus_model.g40117.t1, terminal, 3481, 3747
-recovered Augustus_model.g40117.t1, internal, 998, 1229
-recovered Augustus_model.g40117.t1, internal, 1739, 1849
-recovered Augustus_model.g40117.t1, internal, 1941, 2135
-recovered Augustus_model.g40117.t1, internal, 2566, 2672
-recovered Augustus_model.g40117.t1, internal, 3009, 3135
Couldn't classify 998, 1229
Sorry, prediction GlimmerHMM_glimmerT_60599-T1 fails validation.
(GTC)	 AG	998-1229	GT	AGG
(GCT)	 AG	1739-1849	GT	AGG
(GTG)	 AG	1941-2135	GT	AGG
(ATG)	 AG	2566-2672	GT	AGG
(GGC)	 AG	3009-3135	GT	AGG
(ATG)	 AG	3481-3747	TG	GAT
-recovered GlimmerHMM_glimmerT_60599-T1, initial, 2566, 2672
-recovered GlimmerHMM_glimmerT_60599-T1, terminal, 3481, 3747
-recovered GlimmerHMM_glimmerT_60599-T1, internal, 998, 1229
-recovered GlimmerHMM_glimmerT_60599-T1, internal, 1739, 1849
-recovered GlimmerHMM_glimmerT_60599-T1, internal, 1941, 2135
-recovered GlimmerHMM_glimmerT_60599-T1, internal, 2566, 2672
-recovered GlimmerHMM_glimmerT_60599-T1, internal, 3009, 3135

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2919, rend_intergenic: 1362  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 4081, rend_intergenic: 2971  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 5078
-exon list size: 20


building trellis

4.5    
9.1    
13.6    
18.2    
22.7    
27.3    
31.8    
36.4    
40.9    
45.5    
50.0    
54.5    
59.1    
63.6    
68.2    
72.7    
77.3    
81.8    
86.4    
90.9    
95.5    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 2919, rend_intergenic: 1362  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 4081, rend_intergenic: 2971  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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