-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_837

-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 195, 203
Sorry, prediction GeneMark_model.108462_t fails validation.
(AGG)	 AG	195-203	GT	GAG
(CAG)	 AG	234-242	GT	AAG
(GAG)	 AG	278-475	GT	CGG
(ATG)	 AG	594-597	AG	GAA
-recovered GeneMark_model.108462_t, terminal, 594, 597
-recovered GeneMark_model.108462_t, internal, 195, 203
-recovered GeneMark_model.108462_t, internal, 234, 242
-recovered GeneMark_model.108462_t, internal, 278, 475
Couldn't classify 237, 475
Couldn't classify 3356, 3562
Sorry, prediction snap_scaffold_837-snap.1-T1 fails validation.
(AGT)	 AG	237-475	GT	CGG
(GTT)	 AG	1088-1224	GT	AGG
(GTG)	 AG	1992-2078	GT	TGG
(CCC)	 AG	3356-3562	GT	ACG
-recovered snap_scaffold_837-snap.1-T1, internal, 237, 475
-recovered snap_scaffold_837-snap.1-T1, internal, 1088, 1224
-recovered snap_scaffold_837-snap.1-T1, internal, 1992, 2078
-recovered snap_scaffold_837-snap.1-T1, internal, 3356, 3562

-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 730, 934
Couldn't classify 2164, 2276
Sorry, prediction snap_scaffold_837-snap.2-T1 fails validation.
(TGA)	 AG	730-934	GT	AGG
(GCT)	 AG	1397-1449	GT	ACG
(CGG)	 AG	1845-1918	GT	CAG
(CGA)	 AG	2164-2276	GT	CTG
-recovered snap_scaffold_837-snap.2-T1, internal, 730, 934
-recovered snap_scaffold_837-snap.2-T1, internal, 1397, 1449
-recovered snap_scaffold_837-snap.2-T1, internal, 1845, 1918
-recovered snap_scaffold_837-snap.2-T1, internal, 2164, 2276
Couldn't classify 730, 934
Sorry, prediction Augustus_model.g41397.t1 fails validation.
(TGA)	 AG	730-934	GT	AGG
(GCT)	 AG	1397-1460	GT	AGG
(CGA)	 AG	2164-2280	GA	AAG
-recovered Augustus_model.g41397.t1, terminal, 2164, 2280
-recovered Augustus_model.g41397.t1, internal, 730, 934
-recovered Augustus_model.g41397.t1, internal, 1397, 1460
Couldn't classify 13, 33
Sorry, prediction GeneMark_model.108463_t fails validation.
(CTC)	 AG	13-33	GT	GAG
(AGG)	 AG	61-75	GT	GAG
(AGG)	 AG	103-117	GT	GAG
(AGG)	 AG	145-159	GT	GAG
(AGG)	 AG	187-255	GT	GAG
(AGA)	 AG	277-285	GT	GAG
(AGG)	 AG	313-327	GT	GAG
(AGA)	 AG	349-357	GT	GAG
(AGG)	 AG	385-399	GT	GAG
(GGA)	 AG	445-459	GC	GAG
(AGC)	 AG	483-527	GT	GGG
(AAA)	 AG	548-555	GT	AAG
(TGA)	 AG	730-934	GT	AGG
(GCT)	 AG	1397-1460	GT	AGG
(CGG)	 AG	1845-1918	GT	CAG
(GGG)	 AG	1946-2009	GT	GGG
(CGA)	 AG	2164-2280	GA	AAG
-recovered GeneMark_model.108463_t, terminal, 2164, 2280
-recovered GeneMark_model.108463_t, internal, 13, 33
-recovered GeneMark_model.108463_t, internal, 61, 75
-recovered GeneMark_model.108463_t, internal, 103, 117
-recovered GeneMark_model.108463_t, internal, 145, 159
-recovered GeneMark_model.108463_t, internal, 187, 255
-recovered GeneMark_model.108463_t, internal, 277, 285
-recovered GeneMark_model.108463_t, internal, 313, 327
-recovered GeneMark_model.108463_t, internal, 349, 357
-recovered GeneMark_model.108463_t, internal, 385, 399
-recovered GeneMark_model.108463_t, internal, 445, 459
-recovered GeneMark_model.108463_t, internal, 483, 527
-recovered GeneMark_model.108463_t, internal, 548, 555
-recovered GeneMark_model.108463_t, internal, 730, 934
-recovered GeneMark_model.108463_t, internal, 1397, 1460
-recovered GeneMark_model.108463_t, internal, 1845, 1918
-recovered GeneMark_model.108463_t, internal, 1946, 2009
Couldn't classify 730, 934
Sorry, prediction GlimmerHMM_glimmerT_62281-T1 fails validation.
(TGA)	 AG	730-934	GT	AGG
(GCT)	 AG	1397-1460	GT	AGG
(CGA)	 AG	2164-2280	GA	AAG
-recovered GlimmerHMM_glimmerT_62281-T1, terminal, 2164, 2280
-recovered GlimmerHMM_glimmerT_62281-T1, internal, 730, 934
-recovered GlimmerHMM_glimmerT_62281-T1, internal, 1397, 1460

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3562, rend_intergenic: 1990  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4265
-exon list size: 61


building trellis

1.6    
3.2    
4.8    
6.3    
7.9    
9.5    
11.1    
12.7    
14.3    
15.9    
17.5    
19.0    
20.6    
22.2    
23.8    
25.4    
27.0    
28.6    
30.2    
31.7    
33.3    
34.9    
36.5    
38.1    
39.7    
41.3    
42.9    
44.4    
46.0    
47.6    
49.2    
50.8    
52.4    
54.0    
55.6    
57.1    
58.7    
60.3    
61.9    
63.5    
65.1    
66.7    
68.3    
69.8    
71.4    
73.0    
74.6    
76.2    
77.8    
79.4    
81.0    
82.5    
84.1    
85.7    
87.3    
88.9    
90.5    
92.1    
93.7    
95.2    
96.8    
98.4    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 3562, rend_intergenic: 1990  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