-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_3/scaffold_3_10067800-10225233

-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 snap_scaffold_3-snap.2007-T1
Valid prediction for GeneMark_model.12156_t
Valid prediction for snap_scaffold_3-snap.2041-T1
Valid prediction for snap_scaffold_3-snap.2034-T1
Valid prediction for GeneMark_model.12152_t
Valid prediction for snap_scaffold_3-snap.2029-T1
Valid prediction for GlimmerHMM_glimmerT_7318-T1
Valid prediction for GeneMark_model.12130_t
Valid prediction for snap_scaffold_3-snap.2038-T1
Valid prediction for GeneMark_model.12150_t
Valid prediction for GeneMark_model.12146_t
Valid prediction for snap_scaffold_3-snap.2018-T1
Valid prediction for Augustus_model.g4807.t1
Valid prediction for GeneMark_model.12126_t
Valid prediction for GeneMark_model.12154_t
Valid prediction for Augustus_model.g4812.t1
Valid prediction for Augustus_model.g4803.t1
Valid prediction for Augustus_model.g4811.t1
Valid prediction for Augustus_model.g4802.t1
Valid prediction for snap_scaffold_3-snap.2021-T1
Valid prediction for snap_scaffold_3-snap.2011-T1
Valid prediction for snap_scaffold_3-snap.2009-T1
Valid prediction for GeneMark_model.12125_t
Valid prediction for GeneMark_model.12143_t
Valid prediction for GlimmerHMM_glimmerT_7324-T1
Valid prediction for GlimmerHMM_glimmerT_7332-T1
Valid prediction for GlimmerHMM_glimmerT_7340-T1
Valid prediction for snap_scaffold_3-snap.2020-T1
Valid prediction for snap_scaffold_3-snap.2006-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_3-snap.2013-T1
Valid prediction for snap_scaffold_3-snap.2016-T1
Valid prediction for GlimmerHMM_glimmerT_7335-T1
Valid prediction for GlimmerHMM_glimmerT_7342-T1
Valid prediction for GeneMark_model.12124_t
Valid prediction for GlimmerHMM_glimmerT_7343-T1
Valid prediction for GeneMark_model.12141_t
Valid prediction for GeneMark_model.12158_t
Valid prediction for GlimmerHMM_glimmerT_7338-T1
Valid prediction for GeneMark_model.12159_t
Valid prediction for GeneMark_model.12144_t
Valid prediction for Augustus_model.g4805.t1
Valid prediction for snap_scaffold_3-snap.2008-T1
Valid prediction for GeneMark_model.12122_t
Valid prediction for GlimmerHMM_glimmerT_7327-T1
Valid prediction for GlimmerHMM_glimmerT_7339-T1
Valid prediction for snap_scaffold_3-snap.2024-T1
Valid prediction for Augustus_model.g4815.t1
Valid prediction for GlimmerHMM_glimmerT_7319-T1
Valid prediction for snap_scaffold_3-snap.2027-T1
Valid prediction for GlimmerHMM_glimmerT_7336-T1
Valid prediction for Augustus_model.g4814.t1
Valid prediction for GlimmerHMM_glimmerT_7330-T1
Valid prediction for GeneMark_model.12138_t
Valid prediction for GlimmerHMM_glimmerT_7334-T1
Valid prediction for Augustus_model.g4808.t1
Valid prediction for snap_scaffold_3-snap.2036-T1
Valid prediction for GeneMark_model.12148_t
Valid prediction for snap_scaffold_3-snap.2031-T1
Valid prediction for GeneMark_model.12136_t
Valid prediction for GlimmerHMM_glimmerT_7315-T1
Valid prediction for GlimmerHMM_glimmerT_7316-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.g4813.t1
Valid prediction for snap_scaffold_3-snap.2012-T1
Valid prediction for GeneMark_model.12155_t
Valid prediction for GeneMark_model.12147_t
Valid prediction for GeneMark_model.12142_t
Valid prediction for GeneMark_model.12133_t
Valid prediction for GeneMark_model.12128_t
Valid prediction for GeneMark_model.12137_t
Valid prediction for GeneMark_model.12121_t
Valid prediction for GeneMark_model.12145_t
Valid prediction for GeneMark_model.12129_t
Valid prediction for GlimmerHMM_glimmerT_7331-T1
Valid prediction for GeneMark_model.12135_t
Valid prediction for Augustus_model.g4806.t1
Valid prediction for GlimmerHMM_glimmerT_7323-T1
Valid prediction for GeneMark_model.12123_t
Valid prediction for snap_scaffold_3-snap.2033-T1
Valid prediction for Augustus_model.g4804.t1
Valid prediction for snap_scaffold_3-snap.2014-T1
Valid prediction for snap_scaffold_3-snap.2022-T1
Valid prediction for snap_scaffold_3-snap.2010-T1
Valid prediction for GlimmerHMM_glimmerT_7321-T1
Valid prediction for GeneMark_model.12120_t
Valid prediction for snap_scaffold_3-snap.2005-T1
Valid prediction for GeneMark_model.12127_t
Valid prediction for GeneMark_model.12131_t
Valid prediction for snap_scaffold_3-snap.2023-T1
Valid prediction for snap_scaffold_3-snap.2030-T1
Valid prediction for GlimmerHMM_glimmerT_7328-T1
Valid prediction for GeneMark_model.12153_t
Valid prediction for Augustus_model.g4810.t1
Valid prediction for Augustus_model.g4809.t1
Valid prediction for GeneMark_model.12149_t
Valid prediction for GlimmerHMM_glimmerT_7320-T1
Valid prediction for snap_scaffold_3-snap.2028-T1
Valid prediction for GeneMark_model.12139_t
Valid prediction for snap_scaffold_3-snap.2025-T1
Valid prediction for snap_scaffold_3-snap.2039-T1
Valid prediction for GlimmerHMM_glimmerT_7341-T1
Valid prediction for snap_scaffold_3-snap.2019-T1
Valid prediction for GlimmerHMM_glimmerT_7317-T1
Valid prediction for snap_scaffold_3-snap.2032-T1
Valid prediction for snap_scaffold_3-snap.2026-T1
Valid prediction for GlimmerHMM_glimmerT_7333-T1
Valid prediction for snap_scaffold_3-snap.2040-T1
Valid prediction for snap_scaffold_3-snap.2035-T1
Valid prediction for GlimmerHMM_glimmerT_7337-T1
Valid prediction for snap_scaffold_3-snap.2015-T1
Valid prediction for GlimmerHMM_glimmerT_7329-T1
Valid prediction for snap_scaffold_3-snap.2017-T1
Valid prediction for GeneMark_model.12132_t
Valid prediction for GlimmerHMM_glimmerT_7322-T1
Valid prediction for GeneMark_model.12157_t
Valid prediction for GlimmerHMM_glimmerT_7326-T1
Valid prediction for snap_scaffold_3-snap.2037-T1
Valid prediction for GeneMark_model.12151_t
Valid prediction for GlimmerHMM_glimmerT_7325-T1
Valid prediction for GeneMark_model.12140_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 26825, rend_intergenic: 24438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65453, rend_intergenic: 63555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69477, rend_intergenic: 66899  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74475, rend_intergenic: 72584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82202, rend_intergenic: 76690  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86864, rend_intergenic: 82562  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98075, rend_intergenic: 93641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107601, rend_intergenic: 99839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111538, rend_intergenic: 108276  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112920, rend_intergenic: 111782  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115598, rend_intergenic: 114970  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118038, rend_intergenic: 115733  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133617, rend_intergenic: 126232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 157434
-exon list size: 527


building trellis

0.2    
0.4    
0.6    
0.8    
0.9    
1.1    
1.3    
1.5    
1.7    
1.9    
2.1    
2.3    
2.5    
2.6    
2.8    
3.0    
3.2    
3.4    
3.6    
3.8    
4.0    
4.2    
4.3    
4.5    
4.7    
4.9    
5.1    
5.3    
5.5    
5.7    
5.9    
6.0    
6.2    
6.4    
6.6    
6.8    
7.0    
7.2    
7.4    
7.6    
7.8    
7.9    
8.1    
8.3    
8.5    
8.7    
8.9    
9.1    
9.3    
9.5    
9.6    
9.8    
10.0    
10.2    
10.4    
10.6    
10.8    
11.0    
11.2    
11.3    
11.5    
11.7    
11.9    
12.1    
12.3    
12.5    
12.7    
12.9    
13.0    
13.2    
13.4    
13.6    
13.8    
14.0    
14.2    
14.4    
14.6    
14.7    
14.9    
15.1    
15.3    
15.5    
15.7    
15.9    
16.1    
16.3    
16.4    
16.6    
16.8    
17.0    
17.2    
17.4    
17.6    
17.8    
18.0    
18.1    
18.3    
18.5    
18.7    
18.9    
19.1    
19.3    
19.5    
19.7    
19.8    
20.0    
20.2    
20.4    
20.6    
20.8    
21.0    
21.2    
21.4    
21.6    
21.7    
21.9    
22.1    
22.3    
22.5    
22.7    
22.9    
23.1    
23.3    
23.4    
23.6    
23.8    
24.0    
24.2    
24.4    
24.6    
24.8    
25.0    
25.1    
25.3    
25.5    
25.7    
25.9    
26.1    
26.3    
26.5    
26.7    
26.8    
27.0    
27.2    
27.4    
27.6    
27.8    
28.0    
28.2    
28.4    
28.5    
28.7    
28.9    
29.1    
29.3    
29.5    
29.7    
29.9    
30.1    
30.2    
30.4    
30.6    
30.8    
31.0    
31.2    
31.4    
31.6    
31.8    
31.9    
32.1    
32.3    
32.5    
32.7    
32.9    
33.1    
33.3    
33.5    
33.6    
33.8    
34.0    
34.2    
34.4    
34.6    
34.8    
35.0    
35.2    
35.3    
35.5    
35.7    
35.9    
36.1    
36.3    
36.5    
36.7    
36.9    
37.1    
37.2    
37.4    
37.6    
37.8    
38.0    
38.2    
38.4    
38.6    
38.8    
38.9    
39.1    
39.3    
39.5    
39.7    
39.9    
40.1    
40.3    
40.5    
40.6    
40.8    
41.0    
41.2    
41.4    
41.6    
41.8    
42.0    
42.2    
42.3    
42.5    
42.7    
42.9    
43.1    
43.3    
43.5    
43.7    
43.9    
44.0    
44.2    
44.4    
44.6    
44.8    
45.0    
45.2    
45.4    
45.6    
45.7    
45.9    
46.1    
46.3    
46.5    
46.7    
46.9    
47.1    
47.3    
47.4    
47.6    
47.8    
48.0    
48.2    
48.4    
48.6    
48.8    
49.0    
49.1    
49.3    
49.5    
49.7    
49.9    
50.1    
50.3    
50.5    
50.7    
50.9    
51.0    
51.2    
51.4    
51.6    
51.8    
52.0    
52.2    
52.4    
52.6    
52.7    
52.9    
53.1    
53.3    
53.5    
53.7    
53.9    
54.1    
54.3    
54.4    
54.6    
54.8    
55.0    
55.2    
55.4    
55.6    
55.8    
56.0    
56.1    
56.3    
56.5    
56.7    
56.9    
57.1    
57.3    
57.5    
57.7    
57.8    
58.0    
58.2    
58.4    
58.6    
58.8    
59.0    
59.2    
59.4    
59.5    
59.7    
59.9    
60.1    
60.3    
60.5    
60.7    
60.9    
61.1    
61.2    
61.4    
61.6    
61.8    
62.0    
62.2    
62.4    
62.6    
62.8    
62.9    
63.1    
63.3    
63.5    
63.7    
63.9    
64.1    
64.3    
64.5    
64.7    
64.8    
65.0    
65.2    
65.4    
65.6    
65.8    
66.0    
66.2    
66.4    
66.5    
66.7    
66.9    
67.1    
67.3    
67.5    
67.7    
67.9    
68.1    
68.2    
68.4    
68.6    
68.8    
69.0    
69.2    
69.4    
69.6    
69.8    
69.9    
70.1    
70.3    
70.5    
70.7    
70.9    
71.1    
71.3    
71.5    
71.6    
71.8    
72.0    
72.2    
72.4    
72.6    
72.8    
73.0    
73.2    
73.3    
73.5    
73.7    
73.9    
74.1    
74.3    
74.5    
74.7    
74.9    
75.0    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.6    
76.7    
76.9    
77.1    
77.3    
77.5    
77.7    
77.9    
78.1    
78.3    
78.4    
78.6    
78.8    
79.0    
79.2    
79.4    
79.6    
79.8    
80.0    
80.2    
80.3    
80.5    
80.7    
80.9    
81.1    
81.3    
81.5    
81.7    
81.9    
82.0    
82.2    
82.4    
82.6    
82.8    
83.0    
83.2    
83.4    
83.6    
83.7    
83.9    
84.1    
84.3    
84.5    
84.7    
84.9    
85.1    
85.3    
85.4    
85.6    
85.8    
86.0    
86.2    
86.4    
86.6    
86.8    
87.0    
87.1    
87.3    
87.5    
87.7    
87.9    
88.1    
88.3    
88.5    
88.7    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.5    
90.7    
90.9    
91.1    
91.3    
91.5    
91.7    
91.9    
92.1    
92.2    
92.4    
92.6    
92.8    
93.0    
93.2    
93.4    
93.6    
93.8    
94.0    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.8    
96.0    
96.2    
96.4    
96.6    
96.8    
97.0    
97.2    
97.4    
97.5    
97.7    
97.9    
98.1    
98.3    
98.5    
98.7    
98.9    
99.1    
99.2    
99.4    
99.6    
99.8    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 26825, rend_intergenic: 24438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65453, rend_intergenic: 63555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69477, rend_intergenic: 66899  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74475, rend_intergenic: 72584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82202, rend_intergenic: 76690  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86864, rend_intergenic: 82562  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98075, rend_intergenic: 93641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107601, rend_intergenic: 99839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111538, rend_intergenic: 108276  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112920, rend_intergenic: 111782  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115598, rend_intergenic: 114970  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118038, rend_intergenic: 115733  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133617, rend_intergenic: 126232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support