-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_5/scaffold_5_2671587-2870905

-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.19969_t
Valid prediction for GeneMark_model.19961_t
Valid prediction for GeneMark_model.19981_t
Valid prediction for GeneMark_model.19946_t
Valid prediction for snap_scaffold_5-snap.541-T1
Valid prediction for snap_scaffold_5-snap.554-T1
Valid prediction for GlimmerHMM_glimmerT_11874-T1
Valid prediction for GlimmerHMM_glimmerT_11861-T1
Valid prediction for Augustus_model.g7804.t1
Valid prediction for snap_scaffold_5-snap.553-T1
Valid prediction for snap_scaffold_5-snap.561-T1
Valid prediction for GeneMark_model.19943_t
Valid prediction for GlimmerHMM_glimmerT_11875-T1
Valid prediction for GeneMark_model.19983_t
Valid prediction for GeneMark_model.19976_t
Valid prediction for GeneMark_model.19940_t
Valid prediction for GeneMark_model.19978_t
Valid prediction for GlimmerHMM_glimmerT_11858-T1
Valid prediction for GeneMark_model.19945_t
Valid prediction for GeneMark_model.19948_t
Valid prediction for GeneMark_model.19938_t
Valid prediction for snap_scaffold_5-snap.537-T1
Valid prediction for snap_scaffold_5-snap.557-T1
Valid prediction for snap_scaffold_5-snap.549-T1
Valid prediction for snap_scaffold_5-snap.563-T1
Valid prediction for snap_scaffold_5-snap.559-T1
Valid prediction for GeneMark_model.19960_t
Valid prediction for snap_scaffold_5-snap.568-T1
Valid prediction for snap_scaffold_5-snap.547-T1
Valid prediction for GeneMark_model.19949_t
Valid prediction for snap_scaffold_5-snap.566-T1
Valid prediction for GeneMark_model.19958_t
Valid prediction for snap_scaffold_5-snap.543-T1
Valid prediction for snap_scaffold_5-snap.538-T1
Valid prediction for GlimmerHMM_glimmerT_11879-T1
Valid prediction for GeneMark_model.19971_t
Valid prediction for GeneMark_model.19953_t
Valid prediction for snap_scaffold_5-snap.544-T1
Valid prediction for GeneMark_model.19967_t
Valid prediction for Augustus_model.g7803.t1
Valid prediction for GlimmerHMM_glimmerT_11865-T1
Valid prediction for GlimmerHMM_glimmerT_11877-T1
Valid prediction for GeneMark_model.19975_t

-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.g7806.t1
Valid prediction for GlimmerHMM_glimmerT_11873-T1
Valid prediction for GeneMark_model.19968_t
Valid prediction for GeneMark_model.19965_t
Valid prediction for GeneMark_model.19980_t
Valid prediction for GeneMark_model.19964_t
Valid prediction for snap_scaffold_5-snap.551-T1
Valid prediction for GlimmerHMM_glimmerT_11869-T1
Valid prediction for snap_scaffold_5-snap.546-T1
Valid prediction for GlimmerHMM_glimmerT_11860-T1
Valid prediction for GeneMark_model.19941_t
Valid prediction for GeneMark_model.19963_t
Valid prediction for GeneMark_model.19957_t
Valid prediction for GlimmerHMM_glimmerT_11867-T1
Valid prediction for GlimmerHMM_glimmerT_11859-T1
Valid prediction for snap_scaffold_5-snap.558-T1
Valid prediction for GeneMark_model.19939_t
Valid prediction for GeneMark_model.19974_t
Valid prediction for GeneMark_model.19942_t
Valid prediction for HiQ_model.g7805.t1
Valid prediction for GlimmerHMM_glimmerT_11866-T1
Valid prediction for snap_scaffold_5-snap.556-T1
Valid prediction for GeneMark_model.19972_t
Valid prediction for snap_scaffold_5-snap.562-T1
Valid prediction for GlimmerHMM_glimmerT_11862-T1
Valid prediction for GeneMark_model.19966_t
Valid prediction for snap_scaffold_5-snap.564-T1
Valid prediction for snap_scaffold_5-snap.567-T1
Valid prediction for GeneMark_model.19947_t
Valid prediction for snap_scaffold_5-snap.545-T1
Valid prediction for GeneMark_model.19950_t
Valid prediction for GlimmerHMM_glimmerT_11871-T1
Valid prediction for snap_scaffold_5-snap.560-T1
Valid prediction for GeneMark_model.19956_t
Valid prediction for snap_scaffold_5-snap.565-T1
Valid prediction for snap_scaffold_5-snap.550-T1
Valid prediction for snap_scaffold_5-snap.548-T1
Valid prediction for snap_scaffold_5-snap.539-T1
Valid prediction for GlimmerHMM_glimmerT_11870-T1
Valid prediction for GeneMark_model.19944_t
Valid prediction for GlimmerHMM_glimmerT_11876-T1
Valid prediction for GeneMark_model.19951_t
Valid prediction for GlimmerHMM_glimmerT_11872-T1
Valid prediction for GlimmerHMM_glimmerT_11880-T1
Valid prediction for snap_scaffold_5-snap.540-T1
Valid prediction for GeneMark_model.19937_t
Valid prediction for GlimmerHMM_glimmerT_11863-T1
Valid prediction for GeneMark_model.19982_t
Valid prediction for GeneMark_model.19970_t
Valid prediction for GlimmerHMM_glimmerT_11864-T1
Valid prediction for snap_scaffold_5-snap.552-T1
Valid prediction for GeneMark_model.19962_t
Valid prediction for GeneMark_model.19952_t
Valid prediction for snap_scaffold_5-snap.569-T1
Valid prediction for snap_scaffold_5-snap.555-T1
Valid prediction for GlimmerHMM_glimmerT_11878-T1
Valid prediction for GeneMark_model.19954_t
Valid prediction for snap_scaffold_5-snap.542-T1
Valid prediction for GeneMark_model.19979_t
Valid prediction for GeneMark_model.19955_t
Valid prediction for GlimmerHMM_glimmerT_11868-T1
Valid prediction for GeneMark_model.19984_t
Valid prediction for GeneMark_model.19977_t
Valid prediction for GeneMark_model.19973_t
Valid prediction for Augustus_model.g7807.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14704, rend_intergenic: 10994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111081, rend_intergenic: 107374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134594, rend_intergenic: 132593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156973, rend_intergenic: 152409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165776, rend_intergenic: 160564  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169629, rend_intergenic: 168086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171695, rend_intergenic: 170115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178064, rend_intergenic: 173471  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182496, rend_intergenic: 180905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189404, rend_intergenic: 182932  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196536, rend_intergenic: 190195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 199319
-exon list size: 550


building trellis

0.2    
0.4    
0.5    
0.7    
0.9    
1.1    
1.3    
1.4    
1.6    
1.8    
2.0    
2.2    
2.4    
2.5    
2.7    
2.9    
3.1    
3.3    
3.4    
3.6    
3.8    
4.0    
4.2    
4.3    
4.5    
4.7    
4.9    
5.1    
5.3    
5.4    
5.6    
5.8    
6.0    
6.2    
6.3    
6.5    
6.7    
6.9    
7.1    
7.2    
7.4    
7.6    
7.8    
8.0    
8.2    
8.3    
8.5    
8.7    
8.9    
9.1    
9.2    
9.4    
9.6    
9.8    
10.0    
10.1    
10.3    
10.5    
10.7    
10.9    
11.1    
11.2    
11.4    
11.6    
11.8    
12.0    
12.1    
12.3    
12.5    
12.7    
12.9    
13.0    
13.2    
13.4    
13.6    
13.8    
13.9    
14.1    
14.3    
14.5    
14.7    
14.9    
15.0    
15.2    
15.4    
15.6    
15.8    
15.9    
16.1    
16.3    
16.5    
16.7    
16.8    
17.0    
17.2    
17.4    
17.6    
17.8    
17.9    
18.1    
18.3    
18.5    
18.7    
18.8    
19.0    
19.2    
19.4    
19.6    
19.7    
19.9    
20.1    
20.3    
20.5    
20.7    
20.8    
21.0    
21.2    
21.4    
21.6    
21.7    
21.9    
22.1    
22.3    
22.5    
22.6    
22.8    
23.0    
23.2    
23.4    
23.6    
23.7    
23.9    
24.1    
24.3    
24.5    
24.6    
24.8    
25.0    
25.2    
25.4    
25.5    
25.7    
25.9    
26.1    
26.3    
26.4    
26.6    
26.8    
27.0    
27.2    
27.4    
27.5    
27.7    
27.9    
28.1    
28.3    
28.4    
28.6    
28.8    
29.0    
29.2    
29.3    
29.5    
29.7    
29.9    
30.1    
30.3    
30.4    
30.6    
30.8    
31.0    
31.2    
31.3    
31.5    
31.7    
31.9    
32.1    
32.2    
32.4    
32.6    
32.8    
33.0    
33.2    
33.3    
33.5    
33.7    
33.9    
34.1    
34.2    
34.4    
34.6    
34.8    
35.0    
35.1    
35.3    
35.5    
35.7    
35.9    
36.1    
36.2    
36.4    
36.6    
36.8    
37.0    
37.1    
37.3    
37.5    
37.7    
37.9    
38.0    
38.2    
38.4    
38.6    
38.8    
38.9    
39.1    
39.3    
39.5    
39.7    
39.9    
40.0    
40.2    
40.4    
40.6    
40.8    
40.9    
41.1    
41.3    
41.5    
41.7    
41.8    
42.0    
42.2    
42.4    
42.6    
42.8    
42.9    
43.1    
43.3    
43.5    
43.7    
43.8    
44.0    
44.2    
44.4    
44.6    
44.7    
44.9    
45.1    
45.3    
45.5    
45.7    
45.8    
46.0    
46.2    
46.4    
46.6    
46.7    
46.9    
47.1    
47.3    
47.5    
47.6    
47.8    
48.0    
48.2    
48.4    
48.6    
48.7    
48.9    
49.1    
49.3    
49.5    
49.6    
49.8    
50.0    
50.2    
50.4    
50.5    
50.7    
50.9    
51.1    
51.3    
51.4    
51.6    
51.8    
52.0    
52.2    
52.4    
52.5    
52.7    
52.9    
53.1    
53.3    
53.4    
53.6    
53.8    
54.0    
54.2    
54.3    
54.5    
54.7    
54.9    
55.1    
55.3    
55.4    
55.6    
55.8    
56.0    
56.2    
56.3    
56.5    
56.7    
56.9    
57.1    
57.2    
57.4    
57.6    
57.8    
58.0    
58.2    
58.3    
58.5    
58.7    
58.9    
59.1    
59.2    
59.4    
59.6    
59.8    
60.0    
60.1    
60.3    
60.5    
60.7    
60.9    
61.1    
61.2    
61.4    
61.6    
61.8    
62.0    
62.1    
62.3    
62.5    
62.7    
62.9    
63.0    
63.2    
63.4    
63.6    
63.8    
63.9    
64.1    
64.3    
64.5    
64.7    
64.9    
65.0    
65.2    
65.4    
65.6    
65.8    
65.9    
66.1    
66.3    
66.5    
66.7    
66.8    
67.0    
67.2    
67.4    
67.6    
67.8    
67.9    
68.1    
68.3    
68.5    
68.7    
68.8    
69.0    
69.2    
69.4    
69.6    
69.7    
69.9    
70.1    
70.3    
70.5    
70.7    
70.8    
71.0    
71.2    
71.4    
71.6    
71.7    
71.9    
72.1    
72.3    
72.5    
72.6    
72.8    
73.0    
73.2    
73.4    
73.6    
73.7    
73.9    
74.1    
74.3    
74.5    
74.6    
74.8    
75.0    
75.2    
75.4    
75.5    
75.7    
75.9    
76.1    
76.3    
76.4    
76.6    
76.8    
77.0    
77.2    
77.4    
77.5    
77.7    
77.9    
78.1    
78.3    
78.4    
78.6    
78.8    
79.0    
79.2    
79.3    
79.5    
79.7    
79.9    
80.1    
80.3    
80.4    
80.6    
80.8    
81.0    
81.2    
81.3    
81.5    
81.7    
81.9    
82.1    
82.2    
82.4    
82.6    
82.8    
83.0    
83.2    
83.3    
83.5    
83.7    
83.9    
84.1    
84.2    
84.4    
84.6    
84.8    
85.0    
85.1    
85.3    
85.5    
85.7    
85.9    
86.1    
86.2    
86.4    
86.6    
86.8    
87.0    
87.1    
87.3    
87.5    
87.7    
87.9    
88.0    
88.2    
88.4    
88.6    
88.8    
88.9    
89.1    
89.3    
89.5    
89.7    
89.9    
90.0    
90.2    
90.4    
90.6    
90.8    
90.9    
91.1    
91.3    
91.5    
91.7    
91.8    
92.0    
92.2    
92.4    
92.6    
92.8    
92.9    
93.1    
93.3    
93.5    
93.7    
93.8    
94.0    
94.2    
94.4    
94.6    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.8    
96.0    
96.2    
96.4    
96.6    
96.7    
96.9    
97.1    
97.3    
97.5    
97.6    
97.8    
98.0    
98.2    
98.4    
98.6    
98.7    
98.9    
99.1    
99.3    
99.5    
99.6    
99.8    
-found 19 predictions from path traversal
Error with prediction: snap lend_intergenic: 14704, rend_intergenic: 10994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111081, rend_intergenic: 107374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134594, rend_intergenic: 132593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156973, rend_intergenic: 152409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165776, rend_intergenic: 160564  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169629, rend_intergenic: 168086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171695, rend_intergenic: 170115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178064, rend_intergenic: 173471  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182496, rend_intergenic: 180905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189404, rend_intergenic: 182932  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196536, rend_intergenic: 190195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 180703 - 199319
-exon list size: 82


building trellis

1.2    
2.4    
3.6    
4.8    
6.0    
7.1    
8.3    
9.5    
10.7    
11.9    
13.1    
14.3    
15.5    
16.7    
17.9    
19.0    
20.2    
21.4    
22.6    
23.8    
25.0    
26.2    
27.4    
28.6    
29.8    
31.0    
32.1    
33.3    
34.5    
35.7    
36.9    
38.1    
39.3    
40.5    
41.7    
42.9    
44.0    
45.2    
46.4    
47.6    
48.8    
50.0    
51.2    
52.4    
53.6    
54.8    
56.0    
57.1    
58.3    
59.5    
60.7    
61.9    
63.1    
64.3    
65.5    
66.7    
67.9    
69.0    
70.2    
71.4    
72.6    
73.8    
75.0    
76.2    
77.4    
78.6    
79.8    
81.0    
82.1    
83.3    
84.5    
85.7    
86.9    
88.1    
89.3    
90.5    
91.7    
92.9    
94.0    
95.2    
96.4    
97.6    
98.8    
-found 2 predictions from path traversal
GOT 5prime partial gene.

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

-building DP trellis

-building trellis in range 184979 - 199319
-exon list size: 60


building trellis

1.6    
3.2    
4.8    
6.5    
8.1    
9.7    
11.3    
12.9    
14.5    
16.1    
17.7    
19.4    
21.0    
22.6    
24.2    
25.8    
27.4    
29.0    
30.6    
32.3    
33.9    
35.5    
37.1    
38.7    
40.3    
41.9    
43.5    
45.2    
46.8    
48.4    
50.0    
51.6    
53.2    
54.8    
56.5    
58.1    
59.7    
61.3    
62.9    
64.5    
66.1    
67.7    
69.4    
71.0    
72.6    
74.2    
75.8    
77.4    
79.0    
80.6    
82.3    
83.9    
85.5    
87.1    
88.7    
90.3    
91.9    
93.5    
95.2    
96.8    
98.4    
-found 1 predictions from path traversal

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