-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_337

-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 223, 312
Sorry, prediction snap_scaffold_337-snap.1-T1 fails validation.
(GCC)	 AG	223-312	GT	AGG
(CCA)	 AG	489-620	GT	AGG
(ATG)	 AG	689-777	GT	AAG
(TCC)	 AG	1461-1680	GT	TGG
(GTA)	 AG	1817-1914	GT	TAG
(TAC)	 AG	2130-2237	GT	CCG
(ATG)	 AG	2848-2967	GG	AAG
-recovered snap_scaffold_337-snap.1-T1, initial, 689, 777
-recovered snap_scaffold_337-snap.1-T1, terminal, 2848, 2967
-recovered snap_scaffold_337-snap.1-T1, internal, 223, 312
-recovered snap_scaffold_337-snap.1-T1, internal, 489, 620
-recovered snap_scaffold_337-snap.1-T1, internal, 689, 777
-recovered snap_scaffold_337-snap.1-T1, internal, 1461, 1680
-recovered snap_scaffold_337-snap.1-T1, internal, 1817, 1914
-recovered snap_scaffold_337-snap.1-T1, internal, 2130, 2237
Valid prediction for Augustus_model.g39869.t1
Couldn't classify 223, 312
Sorry, prediction Augustus_model.g39868.t1 fails validation.
(GCC)	 AG	223-312	GT	AGG
(ATG)	 AG	689-777	GT	AAG
(TCC)	 AG	1461-1680	GT	TGG
(GTA)	 AG	1817-1939	GT	CTG
(TAT)	 AG	2107-2272	GT	AGG
(GGG)	 AG	4713-4798	GT	TGG
(AAT)	 AG	5023-5117	CT	GAC
-recovered Augustus_model.g39868.t1, initial, 689, 777
-recovered Augustus_model.g39868.t1, terminal, 5023, 5117
-recovered Augustus_model.g39868.t1, internal, 223, 312
-recovered Augustus_model.g39868.t1, internal, 689, 777
-recovered Augustus_model.g39868.t1, internal, 1461, 1680
-recovered Augustus_model.g39868.t1, internal, 1817, 1939
-recovered Augustus_model.g39868.t1, internal, 2107, 2272
-recovered Augustus_model.g39868.t1, internal, 4713, 4798
Valid prediction for GlimmerHMM_glimmerT_60225-T1
Valid prediction for GlimmerHMM_glimmerT_60224-T1
Couldn't classify 222, 312
Sorry, prediction pasa_asmbl_40998.p1 fails validation.
(GGC)	 CA	222-312	GT	AGG
(ATG)	 AG	689-777	GT	AAG
(TCC)	 AG	1461-1680	GT	TGG
(GTA)	 AG	1817-1939	GT	CTG
(TAT)	 AG	2107-2272	GT	AGG
(GGG)	 AG	4713-4798	GT	TGG
(AAT)	 AG	5023-5117	CT	GAC
-recovered pasa_asmbl_40998.p1, initial, 689, 777
-recovered pasa_asmbl_40998.p1, terminal, 5023, 5117
-recovered pasa_asmbl_40998.p1, internal, 689, 777
-recovered pasa_asmbl_40998.p1, internal, 1461, 1680
-recovered pasa_asmbl_40998.p1, internal, 1817, 1939
-recovered pasa_asmbl_40998.p1, internal, 2107, 2272
-recovered pasa_asmbl_40998.p1, internal, 4713, 4798
Couldn't classify 7074, 7540
Sorry, prediction snap_scaffold_337-snap.3-T1 fails validation.
(ATG)	 TG	5466-5548	GT	ATG
(AGA)	 AG	6730-6849	GT	ATG
(CTC)	 AG	7074-7540	GT	GGG
-recovered snap_scaffold_337-snap.3-T1, initial, 5466, 5548
-recovered snap_scaffold_337-snap.3-T1, internal, 6730, 6849
-recovered snap_scaffold_337-snap.3-T1, internal, 7074, 7540

-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 727, 901
Couldn't classify 7418, 7532
Sorry, prediction snap_scaffold_337-snap.2-T1 fails validation.
(GGG)	 AG	727-901	GT	CGG
(GTA)	 AG	1171-1259	GT	CGG
(TCA)	 AG	2885-2999	GT	CGG
(CGG)	 AG	5793-5869	GT	AGG
(CCA)	 AG	6364-6481	GT	AGG
(GCT)	 AG	7418-7532	GT	AGG
-recovered snap_scaffold_337-snap.2-T1, internal, 727, 901
-recovered snap_scaffold_337-snap.2-T1, internal, 1171, 1259
-recovered snap_scaffold_337-snap.2-T1, internal, 2885, 2999
-recovered snap_scaffold_337-snap.2-T1, internal, 5793, 5869
-recovered snap_scaffold_337-snap.2-T1, internal, 6364, 6481
-recovered snap_scaffold_337-snap.2-T1, internal, 7418, 7532

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2967, rend_intergenic: 470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7275, rend_intergenic: 5466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 8001
-exon list size: 32


building trellis

2.9    
5.9    
8.8    
11.8    
14.7    
17.6    
20.6    
23.5    
26.5    
29.4    
32.4    
35.3    
38.2    
41.2    
44.1    
47.1    
50.0    
52.9    
55.9    
58.8    
61.8    
64.7    
67.6    
70.6    
73.5    
76.5    
79.4    
82.4    
85.3    
88.2    
91.2    
94.1    
97.1    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 2967, rend_intergenic: 470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7275, rend_intergenic: 5466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support