-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1/scaffold_1_440234-690514

-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 Augustus_model.g56.t1
Valid prediction for snap_scaffold_1-snap.110-T1
Valid prediction for GlimmerHMM_glimmerT_62-T1
Valid prediction for snap_scaffold_1-snap.120-T1
Valid prediction for snap_scaffold_1-snap.100-T1
Valid prediction for snap_scaffold_1-snap.106-T1
Valid prediction for Augustus_model.g57.t1
Valid prediction for snap_scaffold_1-snap.98-T1
Valid prediction for snap_scaffold_1-snap.117-T1
Valid prediction for GlimmerHMM_glimmerT_90-T1
Valid prediction for GlimmerHMM_glimmerT_84-T1
Valid prediction for Augustus_model.g63.t1
Valid prediction for GlimmerHMM_glimmerT_79-T1
Valid prediction for Augustus_model.g73.t1
Valid prediction for GlimmerHMM_glimmerT_88-T1
Valid prediction for GlimmerHMM_glimmerT_72-T1
Valid prediction for snap_scaffold_1-snap.115-T1
Valid prediction for GlimmerHMM_glimmerT_61-T1
Valid prediction for GlimmerHMM_glimmerT_68-T1
Valid prediction for snap_scaffold_1-snap.124-T1
Valid prediction for GlimmerHMM_glimmerT_76-T1
Valid prediction for GlimmerHMM_glimmerT_66-T1
Valid prediction for Augustus_model.g61.t1
Valid prediction for snap_scaffold_1-snap.116-T1
Valid prediction for pasa_asmbl_1410.p1
Valid prediction for GlimmerHMM_glimmerT_86-T1
Valid prediction for GlimmerHMM_glimmerT_74-T1
Valid prediction for snap_scaffold_1-snap.108-T1
Valid prediction for Augustus_model.g69.t1
Valid prediction for snap_scaffold_1-snap.121-T1
Valid prediction for Augustus_model.g62.t1
Valid prediction for GlimmerHMM_glimmerT_80-T1
Valid prediction for snap_scaffold_1-snap.99-T1
Valid prediction for GlimmerHMM_glimmerT_64-T1
Valid prediction for Augustus_model.g65.t1
Valid prediction for snap_scaffold_1-snap.90-T1
Valid prediction for Augustus_model.g71.t1
Valid prediction for snap_scaffold_1-snap.103-T1
Valid prediction for snap_scaffold_1-snap.114-T1
Valid prediction for GlimmerHMM_glimmerT_73-T1
Valid prediction for snap_scaffold_1-snap.122-T1
Valid prediction for Augustus_model.g59.t1
Valid prediction for snap_scaffold_1-snap.119-T1
Valid prediction for Augustus_model.g68.t1
Valid prediction for snap_scaffold_1-snap.92-T1
Valid prediction for snap_scaffold_1-snap.94-T1
Valid prediction for GlimmerHMM_glimmerT_83-T1
Valid prediction for Augustus_model.g48.t1
Valid prediction for snap_scaffold_1-snap.109-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_1-snap.101-T1
Valid prediction for snap_scaffold_1-snap.118-T1
Valid prediction for Augustus_model.g52.t1
Valid prediction for Augustus_model.g55.t1
Valid prediction for Augustus_model.g54.t1
Valid prediction for GlimmerHMM_glimmerT_85-T1
Valid prediction for Augustus_model.g70.t1
Valid prediction for GlimmerHMM_glimmerT_87-T1
Valid prediction for snap_scaffold_1-snap.105-T1
Valid prediction for GlimmerHMM_glimmerT_78-T1
Valid prediction for Augustus_model.g49.t1
Valid prediction for snap_scaffold_1-snap.95-T1
Valid prediction for GlimmerHMM_glimmerT_71-T1
Valid prediction for Augustus_model.g51.t1
Valid prediction for Augustus_model.g66.t1
Valid prediction for snap_scaffold_1-snap.91-T1
Valid prediction for snap_scaffold_1-snap.107-T1
Valid prediction for snap_scaffold_1-snap.113-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: -)Valid prediction for Augustus_model.g74.t1
Valid prediction for Augustus_model.g67.t1
Valid prediction for GlimmerHMM_glimmerT_70-T1
Valid prediction for snap_scaffold_1-snap.93-T1
Valid prediction for Augustus_model.g58.t1
Valid prediction for Augustus_model.g53.t1
Valid prediction for snap_scaffold_1-snap.96-T1
Valid prediction for Augustus_model.g72.t1
Valid prediction for snap_scaffold_1-snap.104-T1
Valid prediction for GlimmerHMM_glimmerT_77-T1
Valid prediction for GlimmerHMM_glimmerT_67-T1
Valid prediction for snap_scaffold_1-snap.126-T1
Valid prediction for Augustus_model.g64.t1
Valid prediction for snap_scaffold_1-snap.125-T1
Valid prediction for GlimmerHMM_glimmerT_82-T1
Valid prediction for GlimmerHMM_glimmerT_91-T1
Valid prediction for snap_scaffold_1-snap.102-T1
Valid prediction for snap_scaffold_1-snap.111-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for Augustus_model.g50.t1
Valid prediction for snap_scaffold_1-snap.89-T1
Valid prediction for Augustus_model.g75.t1
Valid prediction for GlimmerHMM_glimmerT_69-T1
Valid prediction for GlimmerHMM_glimmerT_92-T1
Valid prediction for GlimmerHMM_glimmerT_89-T1
Valid prediction for snap_scaffold_1-snap.97-T1
Valid prediction for snap_scaffold_1-snap.112-T1
Valid prediction for GlimmerHMM_glimmerT_75-T1
Valid prediction for GlimmerHMM_glimmerT_81-T1
Valid prediction for GlimmerHMM_glimmerT_63-T1
Valid prediction for Augustus_model.g47.t1
Valid prediction for GlimmerHMM_glimmerT_65-T1
Valid prediction for Augustus_model.g60.t1
Valid prediction for snap_scaffold_1-snap.123-T1
Valid prediction for Augustus_model.g76.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 219033, rend_intergenic: 219030  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56661, rend_intergenic: 54134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119381, rend_intergenic: 117144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 250281
-exon list size: 311


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.2    
2.6    
2.9    
3.2    
3.5    
3.8    
4.2    
4.5    
4.8    
5.1    
5.4    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.7    
8.0    
8.3    
8.6    
8.9    
9.3    
9.6    
9.9    
10.2    
10.5    
10.9    
11.2    
11.5    
11.8    
12.1    
12.5    
12.8    
13.1    
13.4    
13.7    
14.1    
14.4    
14.7    
15.0    
15.3    
15.7    
16.0    
16.3    
16.6    
16.9    
17.3    
17.6    
17.9    
18.2    
18.5    
18.8    
19.2    
19.5    
19.8    
20.1    
20.4    
20.8    
21.1    
21.4    
21.7    
22.0    
22.4    
22.7    
23.0    
23.3    
23.6    
24.0    
24.3    
24.6    
24.9    
25.2    
25.6    
25.9    
26.2    
26.5    
26.8    
27.2    
27.5    
27.8    
28.1    
28.4    
28.8    
29.1    
29.4    
29.7    
30.0    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.3    
32.6    
32.9    
33.2    
33.5    
33.9    
34.2    
34.5    
34.8    
35.1    
35.5    
35.8    
36.1    
36.4    
36.7    
37.1    
37.4    
37.7    
38.0    
38.3    
38.7    
39.0    
39.3    
39.6    
39.9    
40.3    
40.6    
40.9    
41.2    
41.5    
41.9    
42.2    
42.5    
42.8    
43.1    
43.5    
43.8    
44.1    
44.4    
44.7    
45.0    
45.4    
45.7    
46.0    
46.3    
46.6    
47.0    
47.3    
47.6    
47.9    
48.2    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.8    
52.1    
52.4    
52.7    
53.0    
53.4    
53.7    
54.0    
54.3    
54.6    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.9    
57.2    
57.5    
57.8    
58.1    
58.5    
58.8    
59.1    
59.4    
59.7    
60.1    
60.4    
60.7    
61.0    
61.3    
61.7    
62.0    
62.3    
62.6    
62.9    
63.3    
63.6    
63.9    
64.2    
64.5    
64.9    
65.2    
65.5    
65.8    
66.1    
66.5    
66.8    
67.1    
67.4    
67.7    
68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
70.0    
70.3    
70.6    
70.9    
71.2    
71.6    
71.9    
72.2    
72.5    
72.8    
73.2    
73.5    
73.8    
74.1    
74.4    
74.8    
75.1    
75.4    
75.7    
76.0    
76.4    
76.7    
77.0    
77.3    
77.6    
78.0    
78.3    
78.6    
78.9    
79.2    
79.6    
79.9    
80.2    
80.5    
80.8    
81.2    
81.5    
81.8    
82.1    
82.4    
82.7    
83.1    
83.4    
83.7    
84.0    
84.3    
84.7    
85.0    
85.3    
85.6    
85.9    
86.3    
86.6    
86.9    
87.2    
87.5    
87.9    
88.2    
88.5    
88.8    
89.1    
89.5    
89.8    
90.1    
90.4    
90.7    
91.1    
91.4    
91.7    
92.0    
92.3    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.6    
94.9    
95.2    
95.5    
95.8    
96.2    
96.5    
96.8    
97.1    
97.4    
97.8    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 45 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 219033, rend_intergenic: 219030  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56661, rend_intergenic: 54134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119381, rend_intergenic: 117144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 39 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 11034
-exon list size: 2


building trellis

25.0    
50.0    
75.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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