-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_4/scaffold_4_11984864-12237964

-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_4-snap.2581-T1
Valid prediction for Augustus_model.g6715.t1
Valid prediction for GlimmerHMM_glimmerT_10322-T1
Valid prediction for GlimmerHMM_glimmerT_10335-T1
Valid prediction for snap_scaffold_4-snap.2591-T1
Valid prediction for GlimmerHMM_glimmerT_10319-T1
Valid prediction for snap_scaffold_4-snap.2577-T1
Valid prediction for GlimmerHMM_glimmerT_10327-T1
Valid prediction for snap_scaffold_4-snap.2583-T1
Valid prediction for snap_scaffold_4-snap.2567-T1
Valid prediction for snap_scaffold_4-snap.2566-T1
Valid prediction for snap_scaffold_4-snap.2600-T1
Valid prediction for snap_scaffold_4-snap.2587-T1
Valid prediction for snap_scaffold_4-snap.2580-T1
Valid prediction for snap_scaffold_4-snap.2597-T1
Valid prediction for Augustus_model.g6707.t1
Valid prediction for snap_scaffold_4-snap.2605-T1
Valid prediction for snap_scaffold_4-snap.2568-T1
Valid prediction for GlimmerHMM_glimmerT_10352-T1
Valid prediction for GlimmerHMM_glimmerT_10355-T1
Valid prediction for GlimmerHMM_glimmerT_10340-T1
Valid prediction for Augustus_model.g6702.t1
Valid prediction for GlimmerHMM_glimmerT_10320-T1
Valid prediction for Augustus_model.g6718.t1
Valid prediction for snap_scaffold_4-snap.2573-T1
Valid prediction for snap_scaffold_4-snap.2592-T1
Valid prediction for Augustus_model.g6725.t1
Valid prediction for Augustus_model.g6704.t1
Valid prediction for GlimmerHMM_glimmerT_10333-T1
Valid prediction for Augustus_model.g6697.t1
Valid prediction for GlimmerHMM_glimmerT_10346-T1
Valid prediction for Augustus_model.g6716.t1
Valid prediction for snap_scaffold_4-snap.2556-T1
Valid prediction for snap_scaffold_4-snap.2572-T1
Valid prediction for GlimmerHMM_glimmerT_10331-T1
Valid prediction for GlimmerHMM_glimmerT_10316-T1
Valid prediction for GlimmerHMM_glimmerT_10318-T1
Valid prediction for GlimmerHMM_glimmerT_10332-T1
Valid prediction for Augustus_model.g6720.t1
Valid prediction for GlimmerHMM_glimmerT_10349-T1
Valid prediction for GlimmerHMM_glimmerT_10336-T1
Valid prediction for GlimmerHMM_glimmerT_10311-T1
Valid prediction for snap_scaffold_4-snap.2559-T1
Valid prediction for GlimmerHMM_glimmerT_10312-T1
Valid prediction for snap_scaffold_4-snap.2603-T1
Valid prediction for GlimmerHMM_glimmerT_10341-T1
Valid prediction for GlimmerHMM_glimmerT_10347-T1
Valid prediction for snap_scaffold_4-snap.2558-T1
Valid prediction for Augustus_model.g6705.t1
Valid prediction for snap_scaffold_4-snap.2570-T1
Valid prediction for snap_scaffold_4-snap.2564-T1
Valid prediction for GlimmerHMM_glimmerT_10326-T1
Valid prediction for Augustus_model.g6700.t1
Valid prediction for Augustus_model.g6722.t1
Valid prediction for GlimmerHMM_glimmerT_10328-T1
Valid prediction for snap_scaffold_4-snap.2588-T1
Valid prediction for Augustus_model.g6719.t1
Valid prediction for snap_scaffold_4-snap.2579-T1
Valid prediction for Augustus_model.g6708.t1
Valid prediction for GlimmerHMM_glimmerT_10345-T1
Valid prediction for snap_scaffold_4-snap.2595-T1
Valid prediction for snap_scaffold_4-snap.2586-T1
Valid prediction for GlimmerHMM_glimmerT_10343-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 GlimmerHMM_glimmerT_10351-T1
Valid prediction for snap_scaffold_4-snap.2571-T1
Valid prediction for GlimmerHMM_glimmerT_10330-T1
Valid prediction for snap_scaffold_4-snap.2585-T1
Valid prediction for HiQ_model.g6723.t1
Valid prediction for snap_scaffold_4-snap.2589-T1
Valid prediction for snap_scaffold_4-snap.2575-T1
Valid prediction for snap_scaffold_4-snap.2555-T1
Valid prediction for snap_scaffold_4-snap.2602-T1
Valid prediction for GlimmerHMM_glimmerT_10334-T1
Valid prediction for Augustus_model.g6726.t1
Valid prediction for snap_scaffold_4-snap.2598-T1
Valid prediction for snap_scaffold_4-snap.2562-T1
Valid prediction for GlimmerHMM_glimmerT_10348-T1
Valid prediction for GlimmerHMM_glimmerT_10350-T1
Valid prediction for GlimmerHMM_glimmerT_10325-T1
Valid prediction for GlimmerHMM_glimmerT_10353-T1
Valid prediction for snap_scaffold_4-snap.2604-T1
Valid prediction for Augustus_model.g6724.t1
Valid prediction for Augustus_model.g6709.t1
Valid prediction for GlimmerHMM_glimmerT_10315-T1
Valid prediction for Augustus_model.g6721.t1
Valid prediction for CodingQuarry_transcript_49141-T1
Valid prediction for Augustus_model.g6713.t1
Valid prediction for Augustus_model.g6717.t1
Valid prediction for snap_scaffold_4-snap.2557-T1
Valid prediction for snap_scaffold_4-snap.2593-T1
Valid prediction for GlimmerHMM_glimmerT_10324-T1
Valid prediction for Augustus_model.g6699.t1
Valid prediction for snap_scaffold_4-snap.2584-T1
Valid prediction for GlimmerHMM_glimmerT_10344-T1
Valid prediction for snap_scaffold_4-snap.2563-T1
Valid prediction for GlimmerHMM_glimmerT_10314-T1
Valid prediction for HiQ_model.g6696.t1
Valid prediction for snap_scaffold_4-snap.2582-T1
Valid prediction for snap_scaffold_4-snap.2596-T1
Valid prediction for Augustus_model.g6710.t1
Valid prediction for Augustus_model.g6711.t1
Valid prediction for GlimmerHMM_glimmerT_10354-T1
Valid prediction for snap_scaffold_4-snap.2569-T1
Valid prediction for snap_scaffold_4-snap.2578-T1
Valid prediction for GlimmerHMM_glimmerT_10342-T1
Valid prediction for GlimmerHMM_glimmerT_10317-T1
Valid prediction for snap_scaffold_4-snap.2560-T1
Valid prediction for Augustus_model.g6703.t1
Valid prediction for snap_scaffold_4-snap.2590-T1
Valid prediction for snap_scaffold_4-snap.2576-T1
Valid prediction for Augustus_model.g6706.t1
Valid prediction for Augustus_model.g6701.t1
Valid prediction for Augustus_model.g6714.t1
Valid prediction for GlimmerHMM_glimmerT_10339-T1
Valid prediction for Augustus_model.g6712.t1
Valid prediction for snap_scaffold_4-snap.2601-T1
Valid prediction for GlimmerHMM_glimmerT_10337-T1
Valid prediction for GlimmerHMM_glimmerT_10321-T1
Valid prediction for GlimmerHMM_glimmerT_10338-T1
Valid prediction for snap_scaffold_4-snap.2594-T1
Valid prediction for GlimmerHMM_glimmerT_10329-T1
Valid prediction for snap_scaffold_4-snap.2574-T1
Valid prediction for snap_scaffold_4-snap.2599-T1
Valid prediction for snap_scaffold_4-snap.2561-T1
Valid prediction for Augustus_model.g6698.t1
Valid prediction for GlimmerHMM_glimmerT_10313-T1
Valid prediction for GlimmerHMM_glimmerT_10323-T1
Valid prediction for CodingQuarry_transcript_49142-T1
Valid prediction for snap_scaffold_4-snap.2565-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12969, rend_intergenic: 7135  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50626, rend_intergenic: 46574  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78108, rend_intergenic: 55325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83766, rend_intergenic: 80862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98535, rend_intergenic: 94563  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110947, rend_intergenic: 108596  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126266, rend_intergenic: 111553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135617, rend_intergenic: 127162  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159219, rend_intergenic: 144533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178589, rend_intergenic: 160024  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188734, rend_intergenic: 179147  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197086, rend_intergenic: 192305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197480, rend_intergenic: 197352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210403, rend_intergenic: 200038  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226699, rend_intergenic: 220650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 236563, rend_intergenic: 234508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251166, rend_intergenic: 243726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 253101
-exon list size: 515


building trellis

0.2    
0.4    
0.6    
0.8    
1.0    
1.2    
1.4    
1.5    
1.7    
1.9    
2.1    
2.3    
2.5    
2.7    
2.9    
3.1    
3.3    
3.5    
3.7    
3.9    
4.1    
4.3    
4.4    
4.6    
4.8    
5.0    
5.2    
5.4    
5.6    
5.8    
6.0    
6.2    
6.4    
6.6    
6.8    
7.0    
7.2    
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7.5    
7.7    
7.9    
8.1    
8.3    
8.5    
8.7    
8.9    
9.1    
9.3    
9.5    
9.7    
9.9    
10.1    
10.3    
10.4    
10.6    
10.8    
11.0    
11.2    
11.4    
11.6    
11.8    
12.0    
12.2    
12.4    
12.6    
12.8    
13.0    
13.2    
13.3    
13.5    
13.7    
13.9    
14.1    
14.3    
14.5    
14.7    
14.9    
15.1    
15.3    
15.5    
15.7    
15.9    
16.1    
16.2    
16.4    
16.6    
16.8    
17.0    
17.2    
17.4    
17.6    
17.8    
18.0    
18.2    
18.4    
18.6    
18.8    
19.0    
19.1    
19.3    
19.5    
19.7    
19.9    
20.1    
20.3    
20.5    
20.7    
20.9    
21.1    
21.3    
21.5    
21.7    
21.9    
22.1    
22.2    
22.4    
22.6    
22.8    
23.0    
23.2    
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    
26.9    
27.1    
27.3    
27.5    
27.7    
27.9    
28.0    
28.2    
28.4    
28.6    
28.8    
29.0    
29.2    
29.4    
29.6    
29.8    
30.0    
30.2    
30.4    
30.6    
30.8    
30.9    
31.1    
31.3    
31.5    
31.7    
31.9    
32.1    
32.3    
32.5    
32.7    
32.9    
33.1    
33.3    
33.5    
33.7    
33.8    
34.0    
34.2    
34.4    
34.6    
34.8    
35.0    
35.2    
35.4    
35.6    
35.8    
36.0    
36.2    
36.4    
36.6    
36.8    
36.9    
37.1    
37.3    
37.5    
37.7    
37.9    
38.1    
38.3    
38.5    
38.7    
38.9    
39.1    
39.3    
39.5    
39.7    
39.8    
40.0    
40.2    
40.4    
40.6    
40.8    
41.0    
41.2    
41.4    
41.6    
41.8    
42.0    
42.2    
42.4    
42.6    
42.7    
42.9    
43.1    
43.3    
43.5    
43.7    
43.9    
44.1    
44.3    
44.5    
44.7    
44.9    
45.1    
45.3    
45.5    
45.6    
45.8    
46.0    
46.2    
46.4    
46.6    
46.8    
47.0    
47.2    
47.4    
47.6    
47.8    
48.0    
48.2    
48.4    
48.5    
48.7    
48.9    
49.1    
49.3    
49.5    
49.7    
49.9    
50.1    
50.3    
50.5    
50.7    
50.9    
51.1    
51.3    
51.5    
51.6    
51.8    
52.0    
52.2    
52.4    
52.6    
52.8    
53.0    
53.2    
53.4    
53.6    
53.8    
54.0    
54.2    
54.4    
54.5    
54.7    
54.9    
55.1    
55.3    
55.5    
55.7    
55.9    
56.1    
56.3    
56.5    
56.7    
56.9    
57.1    
57.3    
57.4    
57.6    
57.8    
58.0    
58.2    
58.4    
58.6    
58.8    
59.0    
59.2    
59.4    
59.6    
59.8    
60.0    
60.2    
60.3    
60.5    
60.7    
60.9    
61.1    
61.3    
61.5    
61.7    
61.9    
62.1    
62.3    
62.5    
62.7    
62.9    
63.1    
63.2    
63.4    
63.6    
63.8    
64.0    
64.2    
64.4    
64.6    
64.8    
65.0    
65.2    
65.4    
65.6    
65.8    
66.0    
66.2    
66.3    
66.5    
66.7    
66.9    
67.1    
67.3    
67.5    
67.7    
67.9    
68.1    
68.3    
68.5    
68.7    
68.9    
69.1    
69.2    
69.4    
69.6    
69.8    
70.0    
70.2    
70.4    
70.6    
70.8    
71.0    
71.2    
71.4    
71.6    
71.8    
72.0    
72.1    
72.3    
72.5    
72.7    
72.9    
73.1    
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    
76.8    
77.0    
77.2    
77.4    
77.6    
77.8    
77.9    
78.1    
78.3    
78.5    
78.7    
78.9    
79.1    
79.3    
79.5    
79.7    
79.9    
80.1    
80.3    
80.5    
80.7    
80.9    
81.0    
81.2    
81.4    
81.6    
81.8    
82.0    
82.2    
82.4    
82.6    
82.8    
83.0    
83.2    
83.4    
83.6    
83.8    
83.9    
84.1    
84.3    
84.5    
84.7    
84.9    
85.1    
85.3    
85.5    
85.7    
85.9    
86.1    
86.3    
86.5    
86.7    
86.8    
87.0    
87.2    
87.4    
87.6    
87.8    
88.0    
88.2    
88.4    
88.6    
88.8    
89.0    
89.2    
89.4    
89.6    
89.7    
89.9    
90.1    
90.3    
90.5    
90.7    
90.9    
91.1    
91.3    
91.5    
91.7    
91.9    
92.1    
92.3    
92.5    
92.6    
92.8    
93.0    
93.2    
93.4    
93.6    
93.8    
94.0    
94.2    
94.4    
94.6    
94.8    
95.0    
95.2    
95.4    
95.6    
95.7    
95.9    
96.1    
96.3    
96.5    
96.7    
96.9    
97.1    
97.3    
97.5    
97.7    
97.9    
98.1    
98.3    
98.5    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 48 predictions from path traversal
Error with prediction: snap lend_intergenic: 12969, rend_intergenic: 7135  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50626, rend_intergenic: 46574  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78108, rend_intergenic: 55325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83766, rend_intergenic: 80862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98535, rend_intergenic: 94563  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110947, rend_intergenic: 108596  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126266, rend_intergenic: 111553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135617, rend_intergenic: 127162  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159219, rend_intergenic: 144533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178589, rend_intergenic: 160024  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188734, rend_intergenic: 179147  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197086, rend_intergenic: 192305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197480, rend_intergenic: 197352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210403, rend_intergenic: 200038  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226699, rend_intergenic: 220650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 236563, rend_intergenic: 234508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251166, rend_intergenic: 243726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support