-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_303

-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 GeneMark_model.107239_t
Valid prediction for GlimmerHMM_glimmerT_61662-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61662-T1 112-296-terminal-1 is invalid.
Couldn't classify 7662, 7721
Sorry, prediction GeneMark_model.107241_t fails validation.
(ATG)	 AC	6650-6655	GT	CTG
(CCT)	 AG	7409-7581	GT	GAG
(GGA)	 AG	7612-7638	GT	GAG
(GGA)	 AG	7662-7721	GT	CAG
-recovered GeneMark_model.107241_t, initial, 6650, 6655
-recovered GeneMark_model.107241_t, internal, 7409, 7581
-recovered GeneMark_model.107241_t, internal, 7612, 7638
-recovered GeneMark_model.107241_t, internal, 7662, 7721
Couldn't classify 7424, 7728
Sorry, prediction snap_scaffold_303-snap.4-T1 fails validation.
(ATG)	 AG	4726-4797	GT	TGG
(AGA)	 AG	7424-7728	GT	AGG
-recovered snap_scaffold_303-snap.4-T1, initial, 4726, 4797
-recovered snap_scaffold_303-snap.4-T1, internal, 4726, 4797
-recovered snap_scaffold_303-snap.4-T1, internal, 7424, 7728
Valid prediction for snap_scaffold_303-snap.2-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 12, 292
Sorry, prediction GeneMark_model.107237_t fails validation.
(TTC)	 AG	12-292	GT	GGG
(AGG)	 AG	322-550	GA	GAG
-recovered GeneMark_model.107237_t, terminal, 322, 550
-recovered GeneMark_model.107237_t, internal, 12, 292

-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 8171, 8410
Sorry, prediction Augustus_model.g40997.t1 fails validation.
(ATG)	 AT	4366-5014	GT	AGG
(GTT)	 AG	5342-5547	GT	AGG
(GTG)	 AG	5864-6016	GT	AGG
(GTG)	 AG	6969-7148	GT	AGG
(GAC)	 AG	7715-7781	GT	AGG
(GGG)	 AG	7865-7972	GT	CTG
(AGG)	 AG	8171-8410		GC
-recovered Augustus_model.g40997.t1, initial, 4366, 5014
-recovered Augustus_model.g40997.t1, internal, 5342, 5547
-recovered Augustus_model.g40997.t1, internal, 5864, 6016
-recovered Augustus_model.g40997.t1, internal, 6969, 7148
-recovered Augustus_model.g40997.t1, internal, 7715, 7781
-recovered Augustus_model.g40997.t1, internal, 7865, 7972
Valid prediction for snap_scaffold_303-snap.3-T1
Valid prediction for GeneMark_model.107238_t
Couldn't classify 4419, 5014
Sorry, prediction GlimmerHMM_glimmerT_61663-T1 fails validation.
(CGG)	 AG	4419-5014	GT	AGG
(GTT)	 AG	5342-5547	GT	AGG
(GTG)	 AG	5864-6016	GT	AGG
(GTG)	 AG	6969-7190	TA	AGT
-recovered GlimmerHMM_glimmerT_61663-T1, terminal, 6969, 7190
-recovered GlimmerHMM_glimmerT_61663-T1, internal, 4419, 5014
-recovered GlimmerHMM_glimmerT_61663-T1, internal, 5342, 5547
-recovered GlimmerHMM_glimmerT_61663-T1, internal, 5864, 6016
Couldn't classify 7865, 8355
Sorry, prediction snap_scaffold_303-snap.1-T1 fails validation.
(ATG)	 AT	4366-5014	GT	AGG
(GTT)	 AG	5342-5547	GT	AGG
(GTG)	 AG	5864-5998	GT	CCG
(GTG)	 AG	6969-7148	GT	AGG
(GAC)	 AG	7715-7781	GT	AGG
(GGG)	 AG	7865-8355	GT	TGG
-recovered snap_scaffold_303-snap.1-T1, initial, 4366, 5014
-recovered snap_scaffold_303-snap.1-T1, internal, 5342, 5547
-recovered snap_scaffold_303-snap.1-T1, internal, 5864, 5998
-recovered snap_scaffold_303-snap.1-T1, internal, 6969, 7148
-recovered snap_scaffold_303-snap.1-T1, internal, 7715, 7781
-recovered snap_scaffold_303-snap.1-T1, internal, 7865, 8355
Valid prediction for GeneMark_model.107240_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4045, rend_intergenic: 390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6485, rend_intergenic: 4726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 8410
-exon list size: 58


building trellis

1.7    
3.3    
5.0    
6.7    
8.3    
10.0    
11.7    
13.3    
15.0    
16.7    
18.3    
20.0    
21.7    
23.3    
25.0    
26.7    
28.3    
30.0    
31.7    
33.3    
35.0    
36.7    
38.3    
40.0    
41.7    
43.3    
45.0    
46.7    
48.3    
50.0    
51.7    
53.3    
55.0    
56.7    
58.3    
60.0    
61.7    
63.3    
65.0    
66.7    
68.3    
70.0    
71.7    
73.3    
75.0    
76.7    
78.3    
80.0    
81.7    
83.3    
85.0    
86.7    
88.3    
90.0    
91.7    
93.3    
95.0    
96.7    
98.3    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 4045, rend_intergenic: 390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6485, rend_intergenic: 4726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support