-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/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_62176-T1
Valid prediction for GeneMark_model.108278_t
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.g41330.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_62177-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_62177-T1, terminal, 1762, 2250
-recovered GlimmerHMM_glimmerT_62177-T1, internal, 320, 486
-recovered GlimmerHMM_glimmerT_62177-T1, internal, 630, 772
-recovered GlimmerHMM_glimmerT_62177-T1, internal, 986, 1057
Couldn't classify 320, 486
Sorry, prediction Augustus_model.g41331.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.g41331.t1, terminal, 1762, 2250
-recovered Augustus_model.g41331.t1, internal, 320, 486
-recovered Augustus_model.g41331.t1, internal, 630, 772
-recovered Augustus_model.g41331.t1, internal, 986, 1145
-recovered Augustus_model.g41331.t1, internal, 1368, 1449
-recovered Augustus_model.g41331.t1, internal, 1548, 1635
Couldn't classify 1058, 1145
Couldn't classify 1762, 2046
Sorry, prediction pasa_asmbl_51589.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_51589.p1, internal, 1058, 1145
-recovered pasa_asmbl_51589.p1, internal, 1368, 1449
-recovered pasa_asmbl_51589.p1, internal, 1548, 1635
Couldn't classify 344, 486
Sorry, prediction GeneMark_model.108279_t fails validation.
(CGA)	 AG	344-486	GT	TGG
(TGA)	 AG	630-772	GT	AGG
(CTG)	 AG	986-1057	GT	AGG
(GAT)	 AG	1762-2250	AC	AAA
-recovered GeneMark_model.108279_t, terminal, 1762, 2250
-recovered GeneMark_model.108279_t, internal, 344, 486
-recovered GeneMark_model.108279_t, internal, 630, 772
-recovered GeneMark_model.108279_t, internal, 986, 1057
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.

-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: 21


building trellis

4.3    
8.7    
13.0    
17.4    
21.7    
26.1    
30.4    
34.8    
39.1    
43.5    
47.8    
52.2    
56.5    
60.9    
65.2    
69.6    
73.9    
78.3    
82.6    
87.0    
91.3    
95.7    
-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