-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_210

-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_61511-T1
Valid prediction for GlimmerHMM_glimmerT_61510-T1
Couldn't classify 9357, 9483
Sorry, prediction GeneMark_model.106947_t fails validation.
(ATG)	 AC	8684-8700	GT	GAG
(GGA)	 AG	8820-8867	GT	AGG
(GAA)	 AG	9070-9084	GT	GGG
(GAA)	 AG	9105-9197	GT	GAG
(GCG)	 AG	9357-9483	GT	CGG
-recovered GeneMark_model.106947_t, initial, 8684, 8700
-recovered GeneMark_model.106947_t, terminal, 8820, 8867
-recovered GeneMark_model.106947_t, internal, 8820, 8867
-recovered GeneMark_model.106947_t, internal, 9070, 9084
-recovered GeneMark_model.106947_t, internal, 9105, 9197
-recovered GeneMark_model.106947_t, internal, 9357, 9483
Couldn't classify 60, 131
Sorry, prediction Augustus_model.g40908.t1 fails validation.
(GTG)	 AG	60-131	GT	AGG
(ATG)	 AG	259-359	GT	AGG
(GAT)	 AG	1787-1908	GT	TGG
(ACC)	 AG	2568-2646	GT	CGG
(TAT)	 AG	2921-3091	GT	GCG
(GTA)	 AG	3311-3428	GT	AGG
(TTG)	 AG	3539-3690	GT	AGG
(GTT)	 AG	4572-4734	GT	AGG
(GAG)	 AG	4980-5090	CA	GAC
-recovered Augustus_model.g40908.t1, initial, 259, 359
-recovered Augustus_model.g40908.t1, terminal, 4980, 5090
-recovered Augustus_model.g40908.t1, internal, 60, 131
-recovered Augustus_model.g40908.t1, internal, 259, 359
-recovered Augustus_model.g40908.t1, internal, 1787, 1908
-recovered Augustus_model.g40908.t1, internal, 2568, 2646
-recovered Augustus_model.g40908.t1, internal, 2921, 3091
-recovered Augustus_model.g40908.t1, internal, 3311, 3428
-recovered Augustus_model.g40908.t1, internal, 3539, 3690
-recovered Augustus_model.g40908.t1, internal, 4572, 4734
Couldn't classify 60, 131
Sorry, prediction snap_scaffold_210-snap.1-T1 fails validation.
(GTG)	 AG	60-131	GT	AGG
(ACC)	 AG	253-359	GT	AGG
(GAT)	 AG	1787-1908	GT	TGG
(GCA)	 AG	1956-2384	GT	GAG
(ACC)	 AG	2568-2646	GT	CGG
(TAT)	 AG	2921-3091	GT	GCG
(GTA)	 AG	3311-3428	GT	AGG
(TTG)	 AG	3539-3690	GT	AGG
(GTT)	 AG	4572-4734	GT	AGG
(GTT)	 AG	5940-6015	GT	AGG
(GAT)	 AG	7105-7199	TG	GAT
-recovered snap_scaffold_210-snap.1-T1, terminal, 7105, 7199
-recovered snap_scaffold_210-snap.1-T1, internal, 60, 131
-recovered snap_scaffold_210-snap.1-T1, internal, 253, 359
-recovered snap_scaffold_210-snap.1-T1, internal, 1787, 1908
-recovered snap_scaffold_210-snap.1-T1, internal, 1956, 2384
-recovered snap_scaffold_210-snap.1-T1, internal, 2568, 2646
-recovered snap_scaffold_210-snap.1-T1, internal, 2921, 3091
-recovered snap_scaffold_210-snap.1-T1, internal, 3311, 3428
-recovered snap_scaffold_210-snap.1-T1, internal, 3539, 3690
-recovered snap_scaffold_210-snap.1-T1, internal, 4572, 4734
-recovered snap_scaffold_210-snap.1-T1, internal, 5940, 6015
Valid prediction for GeneMark_model.106946_t
Valid prediction for GlimmerHMM_glimmerT_61509-T1
Couldn't classify 310, 359
Sorry, prediction pasa_asmbl_29045.p1 fails validation.
(CAG)	 TG	310-359	GT	AGG
(GAT)	 AG	1787-1908	GT	TGG
(ACC)	 AG	2568-2646	GT	CGG
(TAT)	 AG	2921-3091	GT	GCG
(GTA)	 AG	3311-3428	GT	AGG
(TTG)	 AG	3539-3690	GT	AGG
(GTT)	 AG	4572-4734	GT	AGG
(GAG)	 AG	4980-5090	CA	GAC
-recovered pasa_asmbl_29045.p1, terminal, 4980, 5090
-recovered pasa_asmbl_29045.p1, internal, 1787, 1908
-recovered pasa_asmbl_29045.p1, internal, 2568, 2646
-recovered pasa_asmbl_29045.p1, internal, 2921, 3091
-recovered pasa_asmbl_29045.p1, internal, 3311, 3428
-recovered pasa_asmbl_29045.p1, internal, 3539, 3690
-recovered pasa_asmbl_29045.p1, internal, 4572, 4734
Valid prediction for GlimmerHMM_glimmerT_61512-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 107, 254
Couldn't classify 9507, 9513
Sorry, prediction snap_scaffold_210-snap.2-T1 fails validation.
(GAC)	 AG	107-254	GT	GTG
(GTA)	 AG	2431-2482	GT	AGG
(GCC)	 AG	4890-5005	GT	AGG
(TGG)	 AG	6544-6612	GT	TAG
(ATG)	 AG	7714-7858	GT	GGG
(GGT)	 AG	9507-9513	GT	CGG
-recovered snap_scaffold_210-snap.2-T1, initial, 7714, 7858
-recovered snap_scaffold_210-snap.2-T1, internal, 107, 254
-recovered snap_scaffold_210-snap.2-T1, internal, 2431, 2482
-recovered snap_scaffold_210-snap.2-T1, internal, 4890, 5005
-recovered snap_scaffold_210-snap.2-T1, internal, 6544, 6612
-recovered snap_scaffold_210-snap.2-T1, internal, 7714, 7858
-recovered snap_scaffold_210-snap.2-T1, internal, 9507, 9513
Couldn't classify 9253, 9307
Sorry, prediction GeneMark_model.106945_t fails validation.
(ATG)	 AC	7798-7897	GT	GGG
(AGA)	 AG	7999-8011	GT	GTG
(TGT)	 AG	8099-8113	GT	GTG
(AGA)	 AG	8288-8296	GT	GAG
(AGA)	 AG	8325-8339	GT	GAG
(AGA)	 AG	8512-8520	GT	GTG
(TGT)	 AG	8911-8931	GT	GAG
(AGA)	 AG	9101-9109	GT	GAG
(AGC)	 AG	9253-9307	GT	AGG
-recovered GeneMark_model.106945_t, initial, 7798, 7897
-recovered GeneMark_model.106945_t, internal, 7999, 8011
-recovered GeneMark_model.106945_t, internal, 8099, 8113
-recovered GeneMark_model.106945_t, internal, 8288, 8296
-recovered GeneMark_model.106945_t, internal, 8325, 8339
-recovered GeneMark_model.106945_t, internal, 8512, 8520
-recovered GeneMark_model.106945_t, internal, 8911, 8931
-recovered GeneMark_model.106945_t, internal, 9101, 9109
-recovered GeneMark_model.106945_t, internal, 9253, 9307
Valid prediction for Augustus_model.g40909.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7199, rend_intergenic: 92  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 9604
-exon list size: 85


building trellis

1.1    
2.3    
3.4    
4.6    
5.7    
6.9    
8.0    
9.2    
10.3    
11.5    
12.6    
13.8    
14.9    
16.1    
17.2    
18.4    
19.5    
20.7    
21.8    
23.0    
24.1    
25.3    
26.4    
27.6    
28.7    
29.9    
31.0    
32.2    
33.3    
34.5    
35.6    
36.8    
37.9    
39.1    
40.2    
41.4    
42.5    
43.7    
44.8    
46.0    
47.1    
48.3    
49.4    
50.6    
51.7    
52.9    
54.0    
55.2    
56.3    
57.5    
58.6    
59.8    
60.9    
62.1    
63.2    
64.4    
65.5    
66.7    
67.8    
69.0    
70.1    
71.3    
72.4    
73.6    
74.7    
75.9    
77.0    
78.2    
79.3    
80.5    
81.6    
82.8    
83.9    
85.1    
86.2    
87.4    
88.5    
89.7    
90.8    
92.0    
93.1    
94.3    
95.4    
96.6    
97.7    
98.9    
-found 3 predictions from path traversal
Error with prediction: snap lend_intergenic: 7199, rend_intergenic: 92  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