-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_28/scaffold_28_6186412-6331463

-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.105063_t
Valid prediction for Augustus_model.g40203.t1
Valid prediction for GeneMark_model.105061_t
Valid prediction for GlimmerHMM_glimmerT_60359-T1
Valid prediction for GeneMark_model.105047_t
Valid prediction for snap_scaffold_28-snap.1396-T1
Valid prediction for snap_scaffold_28-snap.1411-T1
Valid prediction for Augustus_model.g40201.t1
Valid prediction for snap_scaffold_28-snap.1412-T1
Valid prediction for Augustus_model.g40206.t1
Valid prediction for Augustus_model.g40196.t1
Valid prediction for GeneMark_model.105054_t
Valid prediction for snap_scaffold_28-snap.1394-T1
Valid prediction for GeneMark_model.105078_t
Valid prediction for Augustus_model.g40200.t1
Valid prediction for GeneMark_model.105069_t
Valid prediction for snap_scaffold_28-snap.1402-T1
Valid prediction for GlimmerHMM_glimmerT_60361-T1
Valid prediction for GlimmerHMM_glimmerT_60368-T1
Valid prediction for GeneMark_model.105067_t
Valid prediction for GeneMark_model.105073_t
Valid prediction for snap_scaffold_28-snap.1408-T1
Valid prediction for GlimmerHMM_glimmerT_60366-T1
Valid prediction for GlimmerHMM_glimmerT_60362-T1
Valid prediction for snap_scaffold_28-snap.1400-T1
Valid prediction for GlimmerHMM_glimmerT_60371-T1
Valid prediction for GeneMark_model.105071_t
Valid prediction for snap_scaffold_28-snap.1413-T1
Valid prediction for Augustus_model.g40208.t1
Valid prediction for GeneMark_model.105059_t
Valid prediction for GlimmerHMM_glimmerT_60360-T1
Valid prediction for GeneMark_model.105076_t
Valid prediction for GeneMark_model.105055_t
Valid prediction for GlimmerHMM_glimmerT_60357-T1
Valid prediction for GeneMark_model.105057_t
Valid prediction for snap_scaffold_28-snap.1390-T1
Valid prediction for GeneMark_model.105053_t
Valid prediction for snap_scaffold_28-snap.1389-T1
Valid prediction for snap_scaffold_28-snap.1406-T1
Valid prediction for GlimmerHMM_glimmerT_60364-T1
Valid prediction for GeneMark_model.105074_t
Valid prediction for GlimmerHMM_glimmerT_60372-T1
Valid prediction for GeneMark_model.105049_t
Valid prediction for GlimmerHMM_glimmerT_60374-T1
Valid prediction for GeneMark_model.105051_t
Valid prediction for GlimmerHMM_glimmerT_60376-T1
Valid prediction for Augustus_model.g40195.t1
Valid prediction for Augustus_model.g40207.t1
Valid prediction for GeneMark_model.105065_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 snap_scaffold_28-snap.1398-T1
Valid prediction for snap_scaffold_28-snap.1393-T1
Valid prediction for snap_scaffold_28-snap.1399-T1
Valid prediction for GlimmerHMM_glimmerT_60369-T1
Valid prediction for GeneMark_model.105068_t
Valid prediction for GeneMark_model.105066_t
Valid prediction for GeneMark_model.105048_t
Valid prediction for GlimmerHMM_glimmerT_60370-T1
Valid prediction for GlimmerHMM_glimmerT_60356-T1
Valid prediction for GlimmerHMM_glimmerT_60375-T1
Valid prediction for GeneMark_model.105072_t
Valid prediction for GeneMark_model.105058_t
Valid prediction for snap_scaffold_28-snap.1409-T1
Valid prediction for snap_scaffold_28-snap.1403-T1
Valid prediction for snap_scaffold_28-snap.1410-T1
Valid prediction for snap_scaffold_28-snap.1395-T1
Valid prediction for snap_scaffold_28-snap.1407-T1
Valid prediction for Augustus_model.g40199.t1
Valid prediction for Augustus_model.g40197.t1
Valid prediction for GeneMark_model.105050_t
Valid prediction for snap_scaffold_28-snap.1404-T1
Valid prediction for GeneMark_model.105056_t
Valid prediction for snap_scaffold_28-snap.1392-T1
Valid prediction for GlimmerHMM_glimmerT_60373-T1
Valid prediction for GlimmerHMM_glimmerT_60358-T1
Valid prediction for GlimmerHMM_glimmerT_60367-T1
Valid prediction for GeneMark_model.105075_t
Valid prediction for GeneMark_model.105062_t
Valid prediction for GeneMark_model.105079_t
Valid prediction for GeneMark_model.105077_t
Valid prediction for snap_scaffold_28-snap.1397-T1
Valid prediction for Augustus_model.g40204.t1
Valid prediction for Augustus_model.g40205.t1
Valid prediction for snap_scaffold_28-snap.1401-T1
Valid prediction for GeneMark_model.105064_t
Valid prediction for snap_scaffold_28-snap.1405-T1
Valid prediction for GeneMark_model.105070_t
Valid prediction for Augustus_model.g40202.t1
Valid prediction for GeneMark_model.105060_t
Valid prediction for GlimmerHMM_glimmerT_60365-T1
Valid prediction for GeneMark_model.105052_t
Valid prediction for Augustus_model.g40198.t1
Valid prediction for GlimmerHMM_glimmerT_60363-T1
Valid prediction for snap_scaffold_28-snap.1391-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 74087, rend_intergenic: 69672  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113010, rend_intergenic: 107313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114678, rend_intergenic: 113892  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 145052
-exon list size: 395


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
1.8    
2.0    
2.3    
2.5    
2.8    
3.0    
3.3    
3.5    
3.8    
4.0    
4.3    
4.5    
4.8    
5.0    
5.3    
5.5    
5.8    
6.0    
6.3    
6.5    
6.8    
7.1    
7.3    
7.6    
7.8    
8.1    
8.3    
8.6    
8.8    
9.1    
9.3    
9.6    
9.8    
10.1    
10.3    
10.6    
10.8    
11.1    
11.3    
11.6    
11.8    
12.1    
12.3    
12.6    
12.8    
13.1    
13.4    
13.6    
13.9    
14.1    
14.4    
14.6    
14.9    
15.1    
15.4    
15.6    
15.9    
16.1    
16.4    
16.6    
16.9    
17.1    
17.4    
17.6    
17.9    
18.1    
18.4    
18.6    
18.9    
19.1    
19.4    
19.6    
19.9    
20.2    
20.4    
20.7    
20.9    
21.2    
21.4    
21.7    
21.9    
22.2    
22.4    
22.7    
22.9    
23.2    
23.4    
23.7    
23.9    
24.2    
24.4    
24.7    
24.9    
25.2    
25.4    
25.7    
25.9    
26.2    
26.4    
26.7    
27.0    
27.2    
27.5    
27.7    
28.0    
28.2    
28.5    
28.7    
29.0    
29.2    
29.5    
29.7    
30.0    
30.2    
30.5    
30.7    
31.0    
31.2    
31.5    
31.7    
32.0    
32.2    
32.5    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.5    
34.8    
35.0    
35.3    
35.5    
35.8    
36.0    
36.3    
36.5    
36.8    
37.0    
37.3    
37.5    
37.8    
38.0    
38.3    
38.5    
38.8    
39.0    
39.3    
39.5    
39.8    
40.1    
40.3    
40.6    
40.8    
41.1    
41.3    
41.6    
41.8    
42.1    
42.3    
42.6    
42.8    
43.1    
43.3    
43.6    
43.8    
44.1    
44.3    
44.6    
44.8    
45.1    
45.3    
45.6    
45.8    
46.1    
46.3    
46.6    
46.9    
47.1    
47.4    
47.6    
47.9    
48.1    
48.4    
48.6    
48.9    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.1    
51.4    
51.6    
51.9    
52.1    
52.4    
52.6    
52.9    
53.1    
53.4    
53.7    
53.9    
54.2    
54.4    
54.7    
54.9    
55.2    
55.4    
55.7    
55.9    
56.2    
56.4    
56.7    
56.9    
57.2    
57.4    
57.7    
57.9    
58.2    
58.4    
58.7    
58.9    
59.2    
59.4    
59.7    
59.9    
60.2    
60.5    
60.7    
61.0    
61.2    
61.5    
61.7    
62.0    
62.2    
62.5    
62.7    
63.0    
63.2    
63.5    
63.7    
64.0    
64.2    
64.5    
64.7    
65.0    
65.2    
65.5    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.5    
67.8    
68.0    
68.3    
68.5    
68.8    
69.0    
69.3    
69.5    
69.8    
70.0    
70.3    
70.5    
70.8    
71.0    
71.3    
71.5    
71.8    
72.0    
72.3    
72.5    
72.8    
73.0    
73.3    
73.6    
73.8    
74.1    
74.3    
74.6    
74.8    
75.1    
75.3    
75.6    
75.8    
76.1    
76.3    
76.6    
76.8    
77.1    
77.3    
77.6    
77.8    
78.1    
78.3    
78.6    
78.8    
79.1    
79.3    
79.6    
79.8    
80.1    
80.4    
80.6    
80.9    
81.1    
81.4    
81.6    
81.9    
82.1    
82.4    
82.6    
82.9    
83.1    
83.4    
83.6    
83.9    
84.1    
84.4    
84.6    
84.9    
85.1    
85.4    
85.6    
85.9    
86.1    
86.4    
86.6    
86.9    
87.2    
87.4    
87.7    
87.9    
88.2    
88.4    
88.7    
88.9    
89.2    
89.4    
89.7    
89.9    
90.2    
90.4    
90.7    
90.9    
91.2    
91.4    
91.7    
91.9    
92.2    
92.4    
92.7    
92.9    
93.2    
93.5    
93.7    
94.0    
94.2    
94.5    
94.7    
95.0    
95.2    
95.5    
95.7    
96.0    
96.2    
96.5    
96.7    
97.0    
97.2    
97.5    
97.7    
98.0    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 74087, rend_intergenic: 69672  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113010, rend_intergenic: 107313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114678, rend_intergenic: 113892  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support