-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_835

-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 553, 1042
Sorry, prediction snap_scaffold_835-snap.2-T1 fails validation.
(GAG)	 AG	553-1042	GT	GAG
(GTA)	 AG	2577-2688	GT	AGG
(GCC)	 AG	3377-3678	TT	GAT
add_exon() Sorry, snap_scaffold_835-snap.2-T1 2577-2688-terminal-3 is invalid.
-recovered snap_scaffold_835-snap.2-T1, terminal, 2577, 2688
-recovered snap_scaffold_835-snap.2-T1, terminal, 3377, 3678
-recovered snap_scaffold_835-snap.2-T1, internal, 553, 1042
-recovered snap_scaffold_835-snap.2-T1, internal, 2577, 2688

-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 162, 374
Couldn't classify 4145, 4243
Sorry, prediction snap_scaffold_835-snap.1-T1 fails validation.
(GTC)	 AG	162-374	GT	CGG
(CAA)	 AG	543-776	GT	TGG
(TCC)	 AG	1563-1724	GT	AGG
(CGC)	 AG	1847-2008	GT	AGG
(GAC)	 AG	2488-2634	GT	CAG
(GTT)	 AG	3723-3822	GT	ATG
(GTG)	 AG	4048-4112	GT	GGG
(GTA)	 AG	4145-4243	GT	TGG
-recovered snap_scaffold_835-snap.1-T1, internal, 162, 374
-recovered snap_scaffold_835-snap.1-T1, internal, 543, 776
-recovered snap_scaffold_835-snap.1-T1, internal, 1563, 1724
-recovered snap_scaffold_835-snap.1-T1, internal, 1847, 2008
-recovered snap_scaffold_835-snap.1-T1, internal, 2488, 2634
-recovered snap_scaffold_835-snap.1-T1, internal, 3723, 3822
-recovered snap_scaffold_835-snap.1-T1, internal, 4048, 4112
-recovered snap_scaffold_835-snap.1-T1, internal, 4145, 4243
Couldn't classify 162, 374
Couldn't classify 4048, 4243
Sorry, prediction Augustus_model.g40228.t1 fails validation.
(GTC)	 AG	162-374	GT	CGG
(CAA)	 AG	543-776	GT	TGG
(TCC)	 AG	1563-1724	GT	AGG
(CGC)	 AG	1847-2008	GT	AGG
(GAC)	 AG	2488-2634	GT	CAG
(GTT)	 AG	3723-3811	GT	AGG
(GTG)	 AG	4048-4243	GT	TGG
-recovered Augustus_model.g40228.t1, internal, 162, 374
-recovered Augustus_model.g40228.t1, internal, 543, 776
-recovered Augustus_model.g40228.t1, internal, 1563, 1724
-recovered Augustus_model.g40228.t1, internal, 1847, 2008
-recovered Augustus_model.g40228.t1, internal, 2488, 2634
-recovered Augustus_model.g40228.t1, internal, 3723, 3811
-recovered Augustus_model.g40228.t1, internal, 4048, 4243
Couldn't classify 162, 374
Sorry, prediction GlimmerHMM_glimmerT_60777-T1 fails validation.
(GTC)	 AG	162-374	GT	CGG
(CAA)	 AG	543-776	GT	TGG
(TCC)	 AG	1563-1724	GT	AGG
(CGC)	 AG	1847-2008	GT	AGG
(GAC)	 AG	2488-2638	GT	GGG
(GTT)	 AG	3723-3774	GG	GAG
-recovered GlimmerHMM_glimmerT_60777-T1, terminal, 3723, 3774
-recovered GlimmerHMM_glimmerT_60777-T1, internal, 162, 374
-recovered GlimmerHMM_glimmerT_60777-T1, internal, 543, 776
-recovered GlimmerHMM_glimmerT_60777-T1, internal, 1563, 1724
-recovered GlimmerHMM_glimmerT_60777-T1, internal, 1847, 2008
-recovered GlimmerHMM_glimmerT_60777-T1, internal, 2488, 2638

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4108, rend_intergenic: 553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4269
-exon list size: 24


building trellis

3.8    
7.7    
11.5    
15.4    
19.2    
23.1    
26.9    
30.8    
34.6    
38.5    
42.3    
46.2    
50.0    
53.8    
57.7    
61.5    
65.4    
69.2    
73.1    
76.9    
80.8    
84.6    
88.5    
92.3    
96.2    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 4108, rend_intergenic: 553  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