-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_565

-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 5658, 5801
Sorry, prediction snap_scaffold_565-snap.3-T1 fails validation.
(ATG)	 CC	2762-2777	GT	CTG
(GTG)	 AG	3114-3224	GT	GGG
(GAA)	 AG	4522-4579	GT	AAG
(CTG)	 AG	5658-5801	GT	ATG
-recovered snap_scaffold_565-snap.3-T1, initial, 2762, 2777
-recovered snap_scaffold_565-snap.3-T1, internal, 3114, 3224
-recovered snap_scaffold_565-snap.3-T1, internal, 4522, 4579
-recovered snap_scaffold_565-snap.3-T1, internal, 5658, 5801
Couldn't classify 5658, 5814
Sorry, prediction GlimmerHMM_glimmerT_60494-T1 fails validation.
(ATG)	 AT	657-742	GT	GGG
(GTA)	 AG	1445-1577	GT	AGG
(GCC)	 AG	1812-1948	GT	CTG
(CTA)	 AG	2289-2416	GT	AGG
(GAA)	 AG	4522-4579	GT	AAG
(CTG)	 AG	5658-5814		AG
-recovered GlimmerHMM_glimmerT_60494-T1, initial, 657, 742
-recovered GlimmerHMM_glimmerT_60494-T1, internal, 1445, 1577
-recovered GlimmerHMM_glimmerT_60494-T1, internal, 1812, 1948
-recovered GlimmerHMM_glimmerT_60494-T1, internal, 2289, 2416
-recovered GlimmerHMM_glimmerT_60494-T1, internal, 4522, 4579
Couldn't classify 5658, 5814
Sorry, prediction HiQ_model.g40046.t1 fails validation.
(ATG)	 AT	657-742	GT	GGG
(GTA)	 AG	1445-1577	GT	AGG
(GCC)	 AG	1812-1948	GT	CTG
(CTA)	 AG	2289-2416	GT	AGG
(GAA)	 AG	4522-4579	GT	AAG
(CTG)	 AG	5658-5814		AG
-recovered HiQ_model.g40046.t1, initial, 657, 742
-recovered HiQ_model.g40046.t1, internal, 1445, 1577
-recovered HiQ_model.g40046.t1, internal, 1812, 1948
-recovered HiQ_model.g40046.t1, internal, 2289, 2416
-recovered HiQ_model.g40046.t1, internal, 4522, 4579
Couldn't classify 1445, 1577
Sorry, prediction snap_scaffold_565-snap.1-T1 fails validation.
(GTA)	 AG	1445-1577	GT	AGG
(GCC)	 AG	1812-1948	GT	CTG
(CTA)	 AG	2289-2568	CC	GAC
-recovered snap_scaffold_565-snap.1-T1, terminal, 2289, 2568
-recovered snap_scaffold_565-snap.1-T1, internal, 1445, 1577
-recovered snap_scaffold_565-snap.1-T1, internal, 1812, 1948
Couldn't classify 654, 742
Couldn't classify 5658, 5814
Sorry, prediction pasa_asmbl_46578.p1 fails validation.
(TAT)	 CG	654-742	GT	GGG
(GTA)	 AG	1445-1577	GT	AGG
(GCC)	 AG	1812-1948	GT	CTG
(CTA)	 AG	2289-2416	GT	AGG
(GAA)	 AG	4522-4579	GT	AAG
(CTG)	 AG	5658-5814		AG
-recovered pasa_asmbl_46578.p1, internal, 1445, 1577
-recovered pasa_asmbl_46578.p1, internal, 1812, 1948
-recovered pasa_asmbl_46578.p1, internal, 2289, 2416
-recovered pasa_asmbl_46578.p1, internal, 4522, 4579

-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 49, 197
Couldn't classify 3279, 3380
Sorry, prediction snap_scaffold_565-snap.2-T1 fails validation.
(GTC)	 AG	49-197	GT	GGG
(CAT)	 AG	1212-1328	GT	TGG
(CAC)	 AG	2697-2856	GT	AGG
(TGG)	 AG	3279-3380	GT	ATG
-recovered snap_scaffold_565-snap.2-T1, internal, 49, 197
-recovered snap_scaffold_565-snap.2-T1, internal, 1212, 1328
-recovered snap_scaffold_565-snap.2-T1, internal, 2697, 2856
-recovered snap_scaffold_565-snap.2-T1, internal, 3279, 3380

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2568, rend_intergenic: 2435  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5766, rend_intergenic: 2762  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 5814
-exon list size: 15


building trellis

5.9    
11.8    
17.6    
23.5    
29.4    
35.3    
41.2    
47.1    
52.9    
58.8    
64.7    
70.6    
76.5    
82.4    
88.2    
94.1    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 2568, rend_intergenic: 2435  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5766, rend_intergenic: 2762  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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