-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_389

-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 671, 710
Sorry, prediction snap_scaffold_389-snap.1-T1 fails validation.
(AAC)	 AG	671-710	GT	TGG
(GAC)	 AG	5398-5546	GT	AGG
(GAC)	 AG	6432-6446	GC	AGG
-recovered snap_scaffold_389-snap.1-T1, terminal, 6432, 6446
-recovered snap_scaffold_389-snap.1-T1, internal, 671, 710
-recovered snap_scaffold_389-snap.1-T1, internal, 5398, 5546
-recovered snap_scaffold_389-snap.1-T1, internal, 6432, 6446
Couldn't classify 6876, 7034
Sorry, prediction GeneMark_model.107501_t fails validation.
(ATG)	 TG	5440-5456	GT	TGG
(GCT)	 AG	5489-5563	GT	AGG
(AGA)	 AG	5593-5649	GT	GTG
(GAT)	 AG	5678-5743	GT	AGG
(TGT)	 AG	6281-6287	GT	CTG
(GAC)	 AG	6432-6442	GT	CTG
(AGG)	 AG	6491-6496	GT	ATG
(AGG)	 AG	6527-6586	GT	GAG
(GAA)	 AG	6608-6748	GT	GTG
(TGA)	 AG	6876-7034	GT	TCG
-recovered GeneMark_model.107501_t, initial, 5440, 5456
-recovered GeneMark_model.107501_t, internal, 5489, 5563
-recovered GeneMark_model.107501_t, internal, 5593, 5649
-recovered GeneMark_model.107501_t, internal, 5678, 5743
-recovered GeneMark_model.107501_t, internal, 6281, 6287
-recovered GeneMark_model.107501_t, internal, 6432, 6442
-recovered GeneMark_model.107501_t, internal, 6491, 6496
-recovered GeneMark_model.107501_t, internal, 6527, 6586
-recovered GeneMark_model.107501_t, internal, 6608, 6748
-recovered GeneMark_model.107501_t, internal, 6876, 7034
Couldn't classify 1889, 1900
Sorry, prediction GeneMark_model.107499_t fails validation.
(AGT)	 AG	1889-1900	GT	GAG
(AGA)	 AG	1926-1934	GT	GAG
(AGA)	 AG	1976-2032	GC	CAG
(CAG)	 AG	2063-2224	GC	CAG
(CAG)	 AG	2245-2268	GT	GAG
(CAG)	 AG	2290-2542	AT	AGA
-recovered GeneMark_model.107499_t, terminal, 2290, 2542
-recovered GeneMark_model.107499_t, internal, 1889, 1900
-recovered GeneMark_model.107499_t, internal, 1926, 1934
-recovered GeneMark_model.107499_t, internal, 1976, 2032
-recovered GeneMark_model.107499_t, internal, 2063, 2224
-recovered GeneMark_model.107499_t, internal, 2245, 2268

-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: -)Valid prediction for GeneMark_model.107500_t
Couldn't classify 408, 554
Sorry, prediction GlimmerHMM_glimmerT_61785-T1 fails validation.
(GAA)	 AG	408-554	GT	CCG
(CTA)	 AG	3532-4567	GA	GAG
-recovered GlimmerHMM_glimmerT_61785-T1, terminal, 3532, 4567
-recovered GlimmerHMM_glimmerT_61785-T1, internal, 408, 554
Couldn't classify 628, 681
Couldn't classify 5842, 5932
Sorry, prediction snap_scaffold_389-snap.2-T1 fails validation.
(ACT)	 AG	628-681	GT	TAG
(CCT)	 AG	1964-2170	GT	GTG
(GGT)	 AG	2871-2990	GT	TCG
(CTA)	 AG	3944-4522	GT	CAG
(TCT)	 AG	5842-5932	GT	GGG
-recovered snap_scaffold_389-snap.2-T1, internal, 628, 681
-recovered snap_scaffold_389-snap.2-T1, internal, 1964, 2170
-recovered snap_scaffold_389-snap.2-T1, internal, 2871, 2990
-recovered snap_scaffold_389-snap.2-T1, internal, 3944, 4522
-recovered snap_scaffold_389-snap.2-T1, internal, 5842, 5932

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6446, rend_intergenic: 1521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 7452
-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 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 6446, rend_intergenic: 1521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support