-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_397

-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 GlimmerHMM_glimmerT_60287-T1
Couldn't classify 6519, 6709
Sorry, prediction snap_scaffold_397-snap.2-T1 fails validation.
(ATG)	 AG	1393-1462	GT	CAG
(GGC)	 AG	2059-2149	GT	AGG
(CTC)	 AG	2639-2735	GT	GGG
(GTT)	 AG	3693-3793	GT	CCG
(GAG)	 AG	3825-4146	GT	GGG
(GTT)	 AG	4312-4400	GT	GCG
(CTC)	 AG	4488-4519	GT	GGG
(GCA)	 AG	4984-5039	GT	TGG
(GTT)	 AG	6519-6709	GT	GAG
-recovered snap_scaffold_397-snap.2-T1, initial, 1393, 1462
-recovered snap_scaffold_397-snap.2-T1, internal, 1393, 1462
-recovered snap_scaffold_397-snap.2-T1, internal, 2059, 2149
-recovered snap_scaffold_397-snap.2-T1, internal, 2639, 2735
-recovered snap_scaffold_397-snap.2-T1, internal, 3693, 3793
-recovered snap_scaffold_397-snap.2-T1, internal, 3825, 4146
-recovered snap_scaffold_397-snap.2-T1, internal, 4312, 4400
-recovered snap_scaffold_397-snap.2-T1, internal, 4488, 4519
-recovered snap_scaffold_397-snap.2-T1, internal, 4984, 5039
-recovered snap_scaffold_397-snap.2-T1, internal, 6519, 6709
Valid prediction for Augustus_model.g39907.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 161, 312
Sorry, prediction GlimmerHMM_glimmerT_60288-T1 fails validation.
(GGA)	 AG	161-312	GT	GGG
(GGA)	 AG	698-860	GT	AGG
(CTG)	 AG	2903-3067	GT	AGG
(GAG)	 AG	3209-3595	CC	AGC
-recovered GlimmerHMM_glimmerT_60288-T1, terminal, 3209, 3595
-recovered GlimmerHMM_glimmerT_60288-T1, internal, 161, 312
-recovered GlimmerHMM_glimmerT_60288-T1, internal, 698, 860
-recovered GlimmerHMM_glimmerT_60288-T1, internal, 2903, 3067
Couldn't classify 161, 312
Sorry, prediction Augustus_model.g39908.t1 fails validation.
(GGA)	 AG	161-312	GT	GGG
(AGC)	 AG	635-860	GT	AGG
(CTC)	 AG	1987-2012	GT	AGG
(AGC)	 AG	2836-3067	GT	AGG
(GAG)	 AG	3209-3595	CC	AGC
-recovered Augustus_model.g39908.t1, terminal, 3209, 3595
-recovered Augustus_model.g39908.t1, internal, 161, 312
-recovered Augustus_model.g39908.t1, internal, 635, 860
-recovered Augustus_model.g39908.t1, internal, 1987, 2012
-recovered Augustus_model.g39908.t1, internal, 2836, 3067
Couldn't classify 161, 312
Sorry, prediction snap_scaffold_397-snap.1-T1 fails validation.
(GGA)	 AG	161-312	GT	GGG
(GGA)	 AG	698-860	GT	AGG
(GAG)	 AG	2352-2470	GT	AGG
(GGA)	 AG	2899-3067	GT	AGG
(GAG)	 AG	3209-3463	GT	TCG
(TCT)	 AG	3480-3846	GT	AGG
(AGG)	 AG	4545-4656	GT	CGG
(AGG)	 AG	4743-4859	GT	AGG
(TAA)	 AG	6008-6020	TT	AAT
-recovered snap_scaffold_397-snap.1-T1, terminal, 6008, 6020
-recovered snap_scaffold_397-snap.1-T1, internal, 161, 312
-recovered snap_scaffold_397-snap.1-T1, internal, 698, 860
-recovered snap_scaffold_397-snap.1-T1, internal, 2352, 2470
-recovered snap_scaffold_397-snap.1-T1, internal, 2899, 3067
-recovered snap_scaffold_397-snap.1-T1, internal, 3209, 3463
-recovered snap_scaffold_397-snap.1-T1, internal, 3480, 3846
-recovered snap_scaffold_397-snap.1-T1, internal, 4545, 4656
-recovered snap_scaffold_397-snap.1-T1, internal, 4743, 4859

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7164, rend_intergenic: 1393  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 7324
-exon list size: 43


building trellis

2.2    
4.4    
6.7    
8.9    
11.1    
13.3    
15.6    
17.8    
20.0    
22.2    
24.4    
26.7    
28.9    
31.1    
33.3    
35.6    
37.8    
40.0    
42.2    
44.4    
46.7    
48.9    
51.1    
53.3    
55.6    
57.8    
60.0    
62.2    
64.4    
66.7    
68.9    
71.1    
73.3    
75.6    
77.8    
80.0    
82.2    
84.4    
86.7    
88.9    
91.1    
93.3    
95.6    
97.8    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 7164, rend_intergenic: 1393  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.
GOT 5prime partial gene.

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