-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_5/scaffold_5_3355289-3486380

-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.20117_t
Valid prediction for GeneMark_model.20137_t
Valid prediction for snap_scaffold_5-snap.665-T1
Valid prediction for GlimmerHMM_glimmerT_11936-T1
Valid prediction for GlimmerHMM_glimmerT_11937-T1
Valid prediction for Augustus_model.g7847.t1
Valid prediction for GeneMark_model.20133_t
Valid prediction for GlimmerHMM_glimmerT_11931-T1
Valid prediction for snap_scaffold_5-snap.671-T1
Valid prediction for Augustus_model.g7845.t1
Valid prediction for GeneMark_model.20140_t
Valid prediction for GeneMark_model.20127_t
Valid prediction for snap_scaffold_5-snap.668-T1
Valid prediction for GeneMark_model.20110_t
Valid prediction for snap_scaffold_5-snap.674-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g7846.t1
Valid prediction for snap_scaffold_5-snap.660-T1
Valid prediction for GeneMark_model.20123_t
Valid prediction for GeneMark_model.20125_t
Valid prediction for GeneMark_model.20112_t
Valid prediction for GlimmerHMM_glimmerT_11940-T1
Valid prediction for snap_scaffold_5-snap.663-T1
Valid prediction for GeneMark_model.20109_t
Valid prediction for GeneMark_model.20107_t
Valid prediction for GeneMark_model.20141_t
Valid prediction for snap_scaffold_5-snap.661-T1
Valid prediction for snap_scaffold_5-snap.670-T1
Valid prediction for snap_scaffold_5-snap.659-T1
Valid prediction for GlimmerHMM_glimmerT_11933-T1
Valid prediction for GeneMark_model.20129_t
Valid prediction for GeneMark_model.20131_t
Valid prediction for GlimmerHMM_glimmerT_11939-T1
Valid prediction for GeneMark_model.20111_t
Valid prediction for GeneMark_model.20134_t
Valid prediction for GeneMark_model.20139_t
Valid prediction for GeneMark_model.20121_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 GlimmerHMM_glimmerT_11938-T1
Valid prediction for snap_scaffold_5-snap.675-T1
Valid prediction for GeneMark_model.20135_t
Valid prediction for GeneMark_model.20113_t
Valid prediction for GlimmerHMM_glimmerT_11941-T1
Valid prediction for GeneMark_model.20132_t
Valid prediction for snap_scaffold_5-snap.672-T1
Valid prediction for GeneMark_model.20118_t
Valid prediction for GeneMark_model.20138_t
Valid prediction for Augustus_model.g7850.t1
Valid prediction for snap_scaffold_5-snap.666-T1
Valid prediction for GeneMark_model.20124_t
Valid prediction for GlimmerHMM_glimmerT_11943-T1
Valid prediction for GeneMark_model.20128_t
Valid prediction for GeneMark_model.20115_t
Valid prediction for GeneMark_model.20119_t
Valid prediction for GeneMark_model.20126_t
Valid prediction for GeneMark_model.20106_t
Valid prediction for GeneMark_model.20108_t
Valid prediction for Augustus_model.g7848.t1
Valid prediction for GeneMark_model.20116_t
Valid prediction for GlimmerHMM_glimmerT_11932-T1
Valid prediction for snap_scaffold_5-snap.673-T1
Valid prediction for snap_scaffold_5-snap.669-T1
Valid prediction for GlimmerHMM_glimmerT_11934-T1
Valid prediction for snap_scaffold_5-snap.676-T1
Valid prediction for GeneMark_model.20136_t
Valid prediction for snap_scaffold_5-snap.664-T1
Valid prediction for GlimmerHMM_glimmerT_11944-T1
Valid prediction for GlimmerHMM_glimmerT_11942-T1
Valid prediction for snap_scaffold_5-snap.667-T1
Valid prediction for GeneMark_model.20130_t
Valid prediction for GeneMark_model.20114_t
Valid prediction for snap_scaffold_5-snap.678-T1
Valid prediction for GeneMark_model.20122_t
Valid prediction for GlimmerHMM_glimmerT_11935-T1
Valid prediction for snap_scaffold_5-snap.677-T1
Valid prediction for snap_scaffold_5-snap.662-T1
Valid prediction for GeneMark_model.20142_t
Valid prediction for Augustus_model.g7849.t1
Valid prediction for GeneMark_model.20120_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 69926, rend_intergenic: 69923  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51552, rend_intergenic: 45356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54890, rend_intergenic: 53730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75208, rend_intergenic: 73241  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104435, rend_intergenic: 102421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111395, rend_intergenic: 104828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 131092
-exon list size: 337


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
2.9    
3.2    
3.5    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.3    
13.6    
13.9    
14.2    
14.5    
14.7    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
25.1    
25.4    
25.7    
26.0    
26.3    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.2    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.2    
44.5    
44.8    
45.1    
45.4    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
47.8    
48.1    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.9    
52.2    
52.5    
52.8    
53.1    
53.4    
53.7    
54.0    
54.3    
54.6    
54.9    
55.2    
55.5    
55.8    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.7    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.3    
67.6    
67.8    
68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.7    
74.0    
74.3    
74.6    
74.9    
75.2    
75.5    
75.8    
76.1    
76.4    
76.7    
77.0    
77.3    
77.6    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.3    
85.5    
85.8    
86.1    
86.4    
86.7    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.5    
96.8    
97.1    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 16 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 69926, rend_intergenic: 69923  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51552, rend_intergenic: 45356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54890, rend_intergenic: 53730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75208, rend_intergenic: 73241  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104435, rend_intergenic: 102421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111395, rend_intergenic: 104828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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