-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_612

-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 snap_scaffold_612-snap.2-T1
Valid prediction for GeneMark_model.108037_t
add_exon() Sorry, GeneMark_model.108037_t 22-466-terminal-1 is invalid.
Valid prediction for GeneMark_model.108038_t
Couldn't classify 5361, 5408
Sorry, prediction GeneMark_model.108039_t fails validation.
(ATG)	 CG	4139-4155	GT	GGG
(AGA)	 AG	4417-4558	GT	GAG
(GAG)	 AG	4585-4853	GT	GAG
(GAG)	 AG	5361-5408	GT	GGG
-recovered GeneMark_model.108039_t, initial, 4139, 4155
-recovered GeneMark_model.108039_t, internal, 4417, 4558
-recovered GeneMark_model.108039_t, internal, 4585, 4853
-recovered GeneMark_model.108039_t, internal, 5361, 5408

-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 632, 747
Couldn't classify 5248, 5417
Sorry, prediction Augustus_model.g41241.t1 fails validation.
(CTG)	 AG	632-747	GT	CGG
(GGA)	 AG	1159-1286	GT	AGG
(CTC)	 AG	2250-2322	GT	GGG
(CCC)	 AG	2578-2705	GT	AGG
(ATC)	 AG	4553-4703	GT	CGG
(GCC)	 AG	5248-5417		TG
-recovered Augustus_model.g41241.t1, internal, 632, 747
-recovered Augustus_model.g41241.t1, internal, 1159, 1286
-recovered Augustus_model.g41241.t1, internal, 2250, 2322
-recovered Augustus_model.g41241.t1, internal, 2578, 2705
-recovered Augustus_model.g41241.t1, internal, 4553, 4703
Couldn't classify 632, 747
Couldn't classify 5248, 5387
Sorry, prediction snap_scaffold_612-snap.1-T1 fails validation.
(CTG)	 AG	632-747	GT	CGG
(GGA)	 AG	1159-1286	GT	AGG
(CTC)	 AG	2250-2322	GT	GGG
(CCC)	 AG	2578-2705	GT	AGG
(ATC)	 AG	4553-4703	GT	CGG
(GCC)	 AG	5248-5387	GT	CAG
-recovered snap_scaffold_612-snap.1-T1, internal, 632, 747
-recovered snap_scaffold_612-snap.1-T1, internal, 1159, 1286
-recovered snap_scaffold_612-snap.1-T1, internal, 2250, 2322
-recovered snap_scaffold_612-snap.1-T1, internal, 2578, 2705
-recovered snap_scaffold_612-snap.1-T1, internal, 4553, 4703
-recovered snap_scaffold_612-snap.1-T1, internal, 5248, 5387
Couldn't classify 630, 747
Couldn't classify 2607, 2705
Sorry, prediction pasa_asmbl_49403.p2 fails validation.
(AGC)	 CC	630-747	GT	CGG
(GGA)	 AG	1159-1286	GT	AGG
(GAT)	 AG	2607-2705	GT	AGG
-recovered pasa_asmbl_49403.p2, internal, 1159, 1286
-recovered pasa_asmbl_49403.p2, internal, 2607, 2705
Couldn't classify 4553, 4703
Couldn't classify 5248, 5417
Sorry, prediction pasa_asmbl_49404.p1 fails validation.
(ATC)	 AG	4553-4703	GT	CGG
(GCC)	 AG	5248-5417		TG
-recovered pasa_asmbl_49404.p1, internal, 4553, 4703
Couldn't classify 632, 747
Sorry, prediction GlimmerHMM_glimmerT_62048-T1 fails validation.
(CTG)	 AG	632-747	GT	CGG
(GGA)	 AG	1159-1286	GT	AGG
(GAT)	 AG	2607-2705	GT	AGG
(ATC)	 AG	4553-4713	GT	CTG
(GCC)	 AG	5248-5338	CC	GAC
-recovered GlimmerHMM_glimmerT_62048-T1, terminal, 5248, 5338
-recovered GlimmerHMM_glimmerT_62048-T1, internal, 632, 747
-recovered GlimmerHMM_glimmerT_62048-T1, internal, 1159, 1286
-recovered GlimmerHMM_glimmerT_62048-T1, internal, 2607, 2705
-recovered GlimmerHMM_glimmerT_62048-T1, internal, 4553, 4713

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4786, rend_intergenic: 605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 5417
-exon list size: 34


building trellis

2.8    
5.6    
8.3    
11.1    
13.9    
16.7    
19.4    
22.2    
25.0    
27.8    
30.6    
33.3    
36.1    
38.9    
41.7    
44.4    
47.2    
50.0    
52.8    
55.6    
58.3    
61.1    
63.9    
66.7    
69.4    
72.2    
75.0    
77.8    
80.6    
83.3    
86.1    
88.9    
91.7    
94.4    
97.2    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 4786, rend_intergenic: 605  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