-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_3/scaffold_3_9118518-9372009

-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_7194-T1
Valid prediction for GeneMark_model.11881_t
Valid prediction for snap_scaffold_3-snap.1827-T1
Valid prediction for GlimmerHMM_glimmerT_7180-T1
Valid prediction for snap_scaffold_3-snap.1828-T1
Valid prediction for GlimmerHMM_glimmerT_7189-T1
Valid prediction for GeneMark_model.11888_t
Valid prediction for GlimmerHMM_glimmerT_7177-T1
Valid prediction for GeneMark_model.11906_t
Valid prediction for snap_scaffold_3-snap.1853-T1
Valid prediction for snap_scaffold_3-snap.1844-T1
Valid prediction for GeneMark_model.11902_t
Valid prediction for snap_scaffold_3-snap.1849-T1
Valid prediction for snap_scaffold_3-snap.1830-T1
Valid prediction for snap_scaffold_3-snap.1829-T1
Valid prediction for Augustus_model.g4716.t1
Valid prediction for GlimmerHMM_glimmerT_7188-T1
Valid prediction for Augustus_model.g4722.t1
Valid prediction for Augustus_model.g4718.t1
Valid prediction for snap_scaffold_3-snap.1834-T1
Valid prediction for snap_scaffold_3-snap.1841-T1
Valid prediction for GeneMark_model.11901_t
Valid prediction for GeneMark_model.11886_t
Valid prediction for GlimmerHMM_glimmerT_7208-T1
Valid prediction for snap_scaffold_3-snap.1848-T1
Valid prediction for snap_scaffold_3-snap.1852-T1
Valid prediction for GeneMark_model.11890_t
Valid prediction for GeneMark_model.11903_t
Valid prediction for snap_scaffold_3-snap.1851-T1
Valid prediction for GlimmerHMM_glimmerT_7185-T1
Valid prediction for GlimmerHMM_glimmerT_7192-T1
Valid prediction for GlimmerHMM_glimmerT_7181-T1
Valid prediction for snap_scaffold_3-snap.1838-T1
Valid prediction for GeneMark_model.11905_t
Valid prediction for snap_scaffold_3-snap.1831-T1
Valid prediction for GeneMark_model.11876_t
Valid prediction for snap_scaffold_3-snap.1839-T1
Valid prediction for GeneMark_model.11878_t
Valid prediction for GlimmerHMM_glimmerT_7198-T1
Valid prediction for GlimmerHMM_glimmerT_7179-T1
Valid prediction for GlimmerHMM_glimmerT_7204-T1
Valid prediction for Augustus_model.g4723.t1
Valid prediction for GeneMark_model.11875_t
Valid prediction for GeneMark_model.11874_t
Valid prediction for GeneMark_model.11871_t
Valid prediction for GeneMark_model.11879_t
Valid prediction for Augustus_model.g4719.t1
Valid prediction for Augustus_model.g4724.t1
Valid prediction for Augustus_model.g4725.t1
Valid prediction for snap_scaffold_3-snap.1836-T1
Valid prediction for snap_scaffold_3-snap.1826-T1
Valid prediction for GeneMark_model.11898_t
Valid prediction for GeneMark_model.11894_t
Valid prediction for snap_scaffold_3-snap.1833-T1
Valid prediction for GlimmerHMM_glimmerT_7201-T1
Valid prediction for GlimmerHMM_glimmerT_7206-T1
Valid prediction for snap_scaffold_3-snap.1835-T1
Valid prediction for GeneMark_model.11883_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 GeneMark_model.11900_t
Valid prediction for snap_scaffold_3-snap.1832-T1
Valid prediction for GlimmerHMM_glimmerT_7200-T1
Valid prediction for GeneMark_model.11885_t
Valid prediction for GeneMark_model.11877_t
Valid prediction for GeneMark_model.11872_t
Valid prediction for snap_scaffold_3-snap.1837-T1
Valid prediction for GeneMark_model.11907_t
Valid prediction for GlimmerHMM_glimmerT_7182-T1
Valid prediction for GlimmerHMM_glimmerT_7187-T1
Valid prediction for GlimmerHMM_glimmerT_7207-T1
Valid prediction for GlimmerHMM_glimmerT_7196-T1
Valid prediction for GeneMark_model.11897_t
Valid prediction for GeneMark_model.11882_t
Valid prediction for Augustus_model.g4720.t1
Valid prediction for GeneMark_model.11895_t
Valid prediction for GeneMark_model.11896_t
Valid prediction for GeneMark_model.11893_t
Valid prediction for snap_scaffold_3-snap.1847-T1
Valid prediction for GlimmerHMM_glimmerT_7184-T1
Valid prediction for Augustus_model.g4721.t1
Valid prediction for GeneMark_model.11899_t
Valid prediction for GlimmerHMM_glimmerT_7202-T1
Valid prediction for GeneMark_model.11889_t
Valid prediction for snap_scaffold_3-snap.1846-T1
Valid prediction for GlimmerHMM_glimmerT_7186-T1
Valid prediction for GlimmerHMM_glimmerT_7183-T1
Valid prediction for GeneMark_model.11904_t
Valid prediction for GlimmerHMM_glimmerT_7205-T1
Valid prediction for snap_scaffold_3-snap.1842-T1
Valid prediction for GeneMark_model.11873_t
Valid prediction for GeneMark_model.11887_t
Valid prediction for GlimmerHMM_glimmerT_7203-T1
Valid prediction for snap_scaffold_3-snap.1845-T1
Valid prediction for GlimmerHMM_glimmerT_7195-T1
Valid prediction for GlimmerHMM_glimmerT_7178-T1
Valid prediction for snap_scaffold_3-snap.1843-T1
Valid prediction for GlimmerHMM_glimmerT_7190-T1
Valid prediction for GlimmerHMM_glimmerT_7191-T1
Valid prediction for Augustus_model.g4717.t1
Valid prediction for GeneMark_model.11884_t
Valid prediction for GlimmerHMM_glimmerT_7193-T1
Valid prediction for snap_scaffold_3-snap.1825-T1
Valid prediction for GlimmerHMM_glimmerT_7199-T1
Valid prediction for snap_scaffold_3-snap.1850-T1
Valid prediction for GeneMark_model.11892_t
Valid prediction for GlimmerHMM_glimmerT_7197-T1
Valid prediction for snap_scaffold_3-snap.1840-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 150769, rend_intergenic: 143886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167247, rend_intergenic: 160731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178168, rend_intergenic: 172076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194921, rend_intergenic: 186786  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200317, rend_intergenic: 197922  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215454, rend_intergenic: 201405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 253492
-exon list size: 447


building trellis

0.2    
0.4    
0.7    
0.9    
1.1    
1.3    
1.6    
1.8    
2.0    
2.2    
2.4    
2.7    
2.9    
3.1    
3.3    
3.6    
3.8    
4.0    
4.2    
4.5    
4.7    
4.9    
5.1    
5.3    
5.6    
5.8    
6.0    
6.2    
6.5    
6.7    
6.9    
7.1    
7.3    
7.6    
7.8    
8.0    
8.2    
8.5    
8.7    
8.9    
9.1    
9.4    
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9.8    
10.0    
10.2    
10.5    
10.7    
10.9    
11.1    
11.4    
11.6    
11.8    
12.0    
12.2    
12.5    
12.7    
12.9    
13.1    
13.4    
13.6    
13.8    
14.0    
14.3    
14.5    
14.7    
14.9    
15.1    
15.4    
15.6    
15.8    
16.0    
16.3    
16.5    
16.7    
16.9    
17.1    
17.4    
17.6    
17.8    
18.0    
18.3    
18.5    
18.7    
18.9    
19.2    
19.4    
19.6    
19.8    
20.0    
20.3    
20.5    
20.7    
20.9    
21.2    
21.4    
21.6    
21.8    
22.0    
22.3    
22.5    
22.7    
22.9    
23.2    
23.4    
23.6    
23.8    
24.1    
24.3    
24.5    
24.7    
24.9    
25.2    
25.4    
25.6    
25.8    
26.1    
26.3    
26.5    
26.7    
26.9    
27.2    
27.4    
27.6    
27.8    
28.1    
28.3    
28.5    
28.7    
29.0    
29.2    
29.4    
29.6    
29.8    
30.1    
30.3    
30.5    
30.7    
31.0    
31.2    
31.4    
31.6    
31.8    
32.1    
32.3    
32.5    
32.7    
33.0    
33.2    
33.4    
33.6    
33.9    
34.1    
34.3    
34.5    
34.7    
35.0    
35.2    
35.4    
35.6    
35.9    
36.1    
36.3    
36.5    
36.7    
37.0    
37.2    
37.4    
37.6    
37.9    
38.1    
38.3    
38.5    
38.8    
39.0    
39.2    
39.4    
39.6    
39.9    
40.1    
40.3    
40.5    
40.8    
41.0    
41.2    
41.4    
41.6    
41.9    
42.1    
42.3    
42.5    
42.8    
43.0    
43.2    
43.4    
43.7    
43.9    
44.1    
44.3    
44.5    
44.8    
45.0    
45.2    
45.4    
45.7    
45.9    
46.1    
46.3    
46.5    
46.8    
47.0    
47.2    
47.4    
47.7    
47.9    
48.1    
48.3    
48.6    
48.8    
49.0    
49.2    
49.4    
49.7    
49.9    
50.1    
50.3    
50.6    
50.8    
51.0    
51.2    
51.4    
51.7    
51.9    
52.1    
52.3    
52.6    
52.8    
53.0    
53.2    
53.5    
53.7    
53.9    
54.1    
54.3    
54.6    
54.8    
55.0    
55.2    
55.5    
55.7    
55.9    
56.1    
56.3    
56.6    
56.8    
57.0    
57.2    
57.5    
57.7    
57.9    
58.1    
58.4    
58.6    
58.8    
59.0    
59.2    
59.5    
59.7    
59.9    
60.1    
60.4    
60.6    
60.8    
61.0    
61.2    
61.5    
61.7    
61.9    
62.1    
62.4    
62.6    
62.8    
63.0    
63.3    
63.5    
63.7    
63.9    
64.1    
64.4    
64.6    
64.8    
65.0    
65.3    
65.5    
65.7    
65.9    
66.1    
66.4    
66.6    
66.8    
67.0    
67.3    
67.5    
67.7    
67.9    
68.2    
68.4    
68.6    
68.8    
69.0    
69.3    
69.5    
69.7    
69.9    
70.2    
70.4    
70.6    
70.8    
71.0    
71.3    
71.5    
71.7    
71.9    
72.2    
72.4    
72.6    
72.8    
73.1    
73.3    
73.5    
73.7    
73.9    
74.2    
74.4    
74.6    
74.8    
75.1    
75.3    
75.5    
75.7    
75.9    
76.2    
76.4    
76.6    
76.8    
77.1    
77.3    
77.5    
77.7    
78.0    
78.2    
78.4    
78.6    
78.8    
79.1    
79.3    
79.5    
79.7    
80.0    
80.2    
80.4    
80.6    
80.8    
81.1    
81.3    
81.5    
81.7    
82.0    
82.2    
82.4    
82.6    
82.9    
83.1    
83.3    
83.5    
83.7    
84.0    
84.2    
84.4    
84.6    
84.9    
85.1    
85.3    
85.5    
85.7    
86.0    
86.2    
86.4    
86.6    
86.9    
87.1    
87.3    
87.5    
87.8    
88.0    
88.2    
88.4    
88.6    
88.9    
89.1    
89.3    
89.5    
89.8    
90.0    
90.2    
90.4    
90.6    
90.9    
91.1    
91.3    
91.5    
91.8    
92.0    
92.2    
92.4    
92.7    
92.9    
93.1    
93.3    
93.5    
93.8    
94.0    
94.2    
94.4    
94.7    
94.9    
95.1    
95.3    
95.5    
95.8    
96.0    
96.2    
96.4    
96.7    
96.9    
97.1    
97.3    
97.6    
97.8    
98.0    
98.2    
98.4    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 150769, rend_intergenic: 143886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167247, rend_intergenic: 160731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178168, rend_intergenic: 172076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194921, rend_intergenic: 186786  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200317, rend_intergenic: 197922  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215454, rend_intergenic: 201405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 9 predictions persist after filtering for low support