-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_734

-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_60675-T1
Couldn't classify 193, 360
Sorry, prediction snap_scaffold_734-snap.1-T1 fails validation.
(GTG)	 AG	193-360	GT	ACG
(GTA)	 AG	1694-1821	GT	AGG
(AGT)	 AG	2827-2980	GA	AAG
-recovered snap_scaffold_734-snap.1-T1, terminal, 2827, 2980
-recovered snap_scaffold_734-snap.1-T1, internal, 193, 360
-recovered snap_scaffold_734-snap.1-T1, internal, 1694, 1821
Valid prediction for Augustus_model.g40164.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 320, 486
Sorry, prediction GlimmerHMM_glimmerT_60676-T1 fails validation.
(GGG)	 AG	320-486	GT	TGG
(TGA)	 AG	630-772	GT	AGG
(CTG)	 AG	986-1057	GT	AGG
(GAT)	 AG	1762-2250	AC	AAA
-recovered GlimmerHMM_glimmerT_60676-T1, terminal, 1762, 2250
-recovered GlimmerHMM_glimmerT_60676-T1, internal, 320, 486
-recovered GlimmerHMM_glimmerT_60676-T1, internal, 630, 772
-recovered GlimmerHMM_glimmerT_60676-T1, internal, 986, 1057
Couldn't classify 1058, 1145
Couldn't classify 1762, 2046
Sorry, prediction pasa_asmbl_51636.p1 fails validation.
(GTG)	 AG	1058-1145	GT	CAG
(AGG)	 AG	1368-1449	GT	AGG
(TAA)	 AG	1548-1635	GT	GGG
(GAT)	 AG	1762-2046	GG	GGG
-recovered pasa_asmbl_51636.p1, internal, 1058, 1145
-recovered pasa_asmbl_51636.p1, internal, 1368, 1449
-recovered pasa_asmbl_51636.p1, internal, 1548, 1635
Valid prediction for snap_scaffold_734-snap.2-T1
Valid prediction for snap_scaffold_734-snap.3-T1
add_exon() Sorry, snap_scaffold_734-snap.3-T1 320-500-terminal-1 is invalid.
Couldn't classify 320, 486
Sorry, prediction Augustus_model.g40165.t1 fails validation.
(GGG)	 AG	320-486	GT	TGG
(TGA)	 AG	630-772	GT	AGG
(CTG)	 AG	986-1145	GT	CAG
(AGG)	 AG	1368-1449	GT	AGG
(TAA)	 AG	1548-1635	GT	GGG
(GAT)	 AG	1762-2250	AC	AAA
-recovered Augustus_model.g40165.t1, terminal, 1762, 2250
-recovered Augustus_model.g40165.t1, internal, 320, 486
-recovered Augustus_model.g40165.t1, internal, 630, 772
-recovered Augustus_model.g40165.t1, internal, 986, 1145
-recovered Augustus_model.g40165.t1, internal, 1368, 1449
-recovered Augustus_model.g40165.t1, internal, 1548, 1635

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2980, rend_intergenic: 201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4749
-exon list size: 20


building trellis

4.5    
9.1    
13.6    
18.2    
22.7    
27.3    
31.8    
36.4    
40.9    
45.5    
50.0    
54.5    
59.1    
63.6    
68.2    
72.7    
77.3    
81.8    
86.4    
90.9    
95.5    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 2980, rend_intergenic: 201  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 2 predictions persist after filtering for low support