-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1/scaffold_1_440234-673151

-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_1-snap.93-T1
Valid prediction for GlimmerHMM_glimmerT_74-T1
Valid prediction for snap_scaffold_1-snap.102-T1
Valid prediction for GlimmerHMM_glimmerT_66-T1
Valid prediction for GlimmerHMM_glimmerT_87-T1
Valid prediction for GlimmerHMM_glimmerT_85-T1
Valid prediction for GlimmerHMM_glimmerT_90-T1
Valid prediction for Augustus_model.g58.t1
Valid prediction for snap_scaffold_1-snap.101-T1
Valid prediction for snap_scaffold_1-snap.118-T1
Valid prediction for GlimmerHMM_glimmerT_81-T1
Valid prediction for snap_scaffold_1-snap.123-T1
Valid prediction for GeneMark_model.76_t
Valid prediction for snap_scaffold_1-snap.97-T1
Valid prediction for Augustus_model.g57.t1
Valid prediction for snap_scaffold_1-snap.117-T1
Valid prediction for pasa_asmbl_1406.p1
Valid prediction for snap_scaffold_1-snap.94-T1
Valid prediction for Augustus_model.g64.t1
Valid prediction for GlimmerHMM_glimmerT_88-T1
Valid prediction for snap_scaffold_1-snap.119-T1
Valid prediction for GlimmerHMM_glimmerT_71-T1
Valid prediction for snap_scaffold_1-snap.116-T1
Valid prediction for Augustus_model.g75.t1
Valid prediction for Augustus_model.g67.t1
Valid prediction for Augustus_model.g50.t1
Valid prediction for GeneMark_model.83_t
Valid prediction for snap_scaffold_1-snap.111-T1
Valid prediction for GeneMark_model.94_t
Valid prediction for Augustus_model.g49.t1
Valid prediction for Augustus_model.g70.t1
Valid prediction for GlimmerHMM_glimmerT_73-T1
Valid prediction for GlimmerHMM_glimmerT_78-T1
Valid prediction for Augustus_model.g48.t1
Valid prediction for GlimmerHMM_glimmerT_86-T1
Valid prediction for GlimmerHMM_glimmerT_69-T1
Valid prediction for GeneMark_model.64_t
Valid prediction for GeneMark_model.73_t
Valid prediction for snap_scaffold_1-snap.106-T1
Valid prediction for Augustus_model.g60.t1
Valid prediction for GlimmerHMM_glimmerT_76-T1
Valid prediction for GlimmerHMM_glimmerT_75-T1
Valid prediction for snap_scaffold_1-snap.113-T1
Valid prediction for GeneMark_model.70_t
Valid prediction for Augustus_model.g73.t1
Valid prediction for Augustus_model.g72.t1
Valid prediction for GeneMark_model.91_t
Valid prediction for snap_scaffold_1-snap.96-T1
Valid prediction for Augustus_model.g68.t1
Valid prediction for Augustus_model.g53.t1
Valid prediction for snap_scaffold_1-snap.92-T1
Valid prediction for GeneMark_model.71_t
Valid prediction for snap_scaffold_1-snap.125-T1
Valid prediction for GeneMark_model.93_t
Valid prediction for GlimmerHMM_glimmerT_89-T1
Valid prediction for GeneMark_model.89_t
Valid prediction for snap_scaffold_1-snap.108-T1
Valid prediction for snap_scaffold_1-snap.110-T1
Valid prediction for GlimmerHMM_glimmerT_80-T1
Valid prediction for GeneMark_model.87_t
Valid prediction for Augustus_model.g62.t1
Valid prediction for snap_scaffold_1-snap.121-T1
Valid prediction for snap_scaffold_1-snap.126-T1
Valid prediction for GeneMark_model.84_t
Valid prediction for GeneMark_model.79_t
Valid prediction for snap_scaffold_1-snap.103-T1
Valid prediction for GeneMark_model.62_t
Valid prediction for GeneMark_model.82_t
Valid prediction for GeneMark_model.67_t
Valid prediction for snap_scaffold_1-snap.109-T1
Valid prediction for snap_scaffold_1-snap.122-T1
Valid prediction for GlimmerHMM_glimmerT_67-T1
Valid prediction for Augustus_model.g65.t1
Valid prediction for snap_scaffold_1-snap.124-T1
Valid prediction for GeneMark_model.92_t
Valid prediction for GlimmerHMM_glimmerT_92-T1
Valid prediction for Augustus_model.g63.t1
Valid prediction for Augustus_model.g55.t1
Valid prediction for snap_scaffold_1-snap.104-T1
Valid prediction for Augustus_model.g71.t1
Valid prediction for snap_scaffold_1-snap.112-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GeneMark_model.75_t
Valid prediction for Augustus_model.g56.t1
Valid prediction for Augustus_model.g52.t1
Valid prediction for GlimmerHMM_glimmerT_82-T1
Valid prediction for GeneMark_model.90_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.72_t
Valid prediction for GlimmerHMM_glimmerT_91-T1
Valid prediction for Augustus_model.g66.t1
Valid prediction for GlimmerHMM_glimmerT_70-T1
Valid prediction for snap_scaffold_1-snap.114-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_72-T1
Valid prediction for Augustus_model.g61.t1
Valid prediction for Augustus_model.g54.t1
Valid prediction for GlimmerHMM_glimmerT_77-T1
Valid prediction for GeneMark_model.77_t
Valid prediction for snap_scaffold_1-snap.105-T1
Valid prediction for Augustus_model.g74.t1
Valid prediction for snap_scaffold_1-snap.115-T1
Valid prediction for GlimmerHMM_glimmerT_84-T1
Valid prediction for GeneMark_model.69_t
Valid prediction for GeneMark_model.85_t
Valid prediction for GeneMark_model.65_t
Valid prediction for Augustus_model.g59.t1
Valid prediction for Augustus_model.g51.t1
Valid prediction for GeneMark_model.88_t
Valid prediction for GeneMark_model.78_t
Valid prediction for GeneMark_model.81_t
Valid prediction for Augustus_model.g69.t1
Valid prediction for GeneMark_model.66_t
Valid prediction for snap_scaffold_1-snap.98-T1
Valid prediction for GlimmerHMM_glimmerT_64-T1
Valid prediction for snap_scaffold_1-snap.99-T1
Valid prediction for Augustus_model.g47.t1
Valid prediction for GlimmerHMM_glimmerT_68-T1
Valid prediction for snap_scaffold_1-snap.100-T1
Valid prediction for snap_scaffold_1-snap.107-T1
Valid prediction for GlimmerHMM_glimmerT_65-T1
Valid prediction for GeneMark_model.68_t
Valid prediction for GeneMark_model.63_t
Valid prediction for GlimmerHMM_glimmerT_79-T1
Valid prediction for snap_scaffold_1-snap.91-T1
Valid prediction for snap_scaffold_1-snap.95-T1
Valid prediction for snap_scaffold_1-snap.120-T1
Valid prediction for GlimmerHMM_glimmerT_83-T1
Valid prediction for Augustus_model.g76.t1
Valid prediction for GlimmerHMM_glimmerT_93-T1
Valid prediction for GeneMark_model.86_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 219033, rend_intergenic: 219030  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56661, rend_intergenic: 54134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119381, rend_intergenic: 117144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 232918
-exon list size: 419


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.4    
1.7    
1.9    
2.1    
2.4    
2.6    
2.9    
3.1    
3.3    
3.6    
3.8    
4.0    
4.3    
4.5    
4.8    
5.0    
5.2    
5.5    
5.7    
5.9    
6.2    
6.4    
6.7    
6.9    
7.1    
7.4    
7.6    
7.8    
8.1    
8.3    
8.6    
8.8    
9.0    
9.3    
9.5    
9.7    
10.0    
10.2    
10.5    
10.7    
10.9    
11.2    
11.4    
11.6    
11.9    
12.1    
12.4    
12.6    
12.8    
13.1    
13.3    
13.5    
13.8    
14.0    
14.3    
14.5    
14.7    
15.0    
15.2    
15.4    
15.7    
15.9    
16.2    
16.4    
16.6    
16.9    
17.1    
17.3    
17.6    
17.8    
18.1    
18.3    
18.5    
18.8    
19.0    
19.2    
19.5    
19.7    
20.0    
20.2    
20.4    
20.7    
20.9    
21.1    
21.4    
21.6    
21.9    
22.1    
22.3    
22.6    
22.8    
23.0    
23.3    
23.5    
23.8    
24.0    
24.2    
24.5    
24.7    
24.9    
25.2    
25.4    
25.7    
25.9    
26.1    
26.4    
26.6    
26.8    
27.1    
27.3    
27.6    
27.8    
28.0    
28.3    
28.5    
28.7    
29.0    
29.2    
29.5    
29.7    
29.9    
30.2    
30.4    
30.6    
30.9    
31.1    
31.4    
31.6    
31.8    
32.1    
32.3    
32.5    
32.8    
33.0    
33.3    
33.5    
33.7    
34.0    
34.2    
34.4    
34.7    
34.9    
35.2    
35.4    
35.6    
35.9    
36.1    
36.3    
36.6    
36.8    
37.1    
37.3    
37.5    
37.8    
38.0    
38.2    
38.5    
38.7    
39.0    
39.2    
39.4    
39.7    
39.9    
40.1    
40.4    
40.6    
40.9    
41.1    
41.3    
41.6    
41.8    
42.0    
42.3    
42.5    
42.8    
43.0    
43.2    
43.5    
43.7    
43.9    
44.2    
44.4    
44.7    
44.9    
45.1    
45.4    
45.6    
45.8    
46.1    
46.3    
46.6    
46.8    
47.0    
47.3    
47.5    
47.7    
48.0    
48.2    
48.5    
48.7    
48.9    
49.2    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.8    
51.1    
51.3    
51.5    
51.8    
52.0    
52.3    
52.5    
52.7    
53.0    
53.2    
53.4    
53.7    
53.9    
54.2    
54.4    
54.6    
54.9    
55.1    
55.3    
55.6    
55.8    
56.1    
56.3    
56.5    
56.8    
57.0    
57.2    
57.5    
57.7    
58.0    
58.2    
58.4    
58.7    
58.9    
59.1    
59.4    
59.6    
59.9    
60.1    
60.3    
60.6    
60.8    
61.0    
61.3    
61.5    
61.8    
62.0    
62.2    
62.5    
62.7    
62.9    
63.2    
63.4    
63.7    
63.9    
64.1    
64.4    
64.6    
64.8    
65.1    
65.3    
65.6    
65.8    
66.0    
66.3    
66.5    
66.7    
67.0    
67.2    
67.5    
67.7    
67.9    
68.2    
68.4    
68.6    
68.9    
69.1    
69.4    
69.6    
69.8    
70.1    
70.3    
70.5    
70.8    
71.0    
71.3    
71.5    
71.7    
72.0    
72.2    
72.4    
72.7    
72.9    
73.2    
73.4    
73.6    
73.9    
74.1    
74.3    
74.6    
74.8    
75.1    
75.3    
75.5    
75.8    
76.0    
76.2    
76.5    
76.7    
77.0    
77.2    
77.4    
77.7    
77.9    
78.1    
78.4    
78.6    
78.9    
79.1    
79.3    
79.6    
79.8    
80.0    
80.3    
80.5    
80.8    
81.0    
81.2    
81.5    
81.7    
81.9    
82.2    
82.4    
82.7    
82.9    
83.1    
83.4    
83.6    
83.8    
84.1    
84.3    
84.6    
84.8    
85.0    
85.3    
85.5    
85.7    
86.0    
86.2    
86.5    
86.7    
86.9    
87.2    
87.4    
87.6    
87.9    
88.1    
88.4    
88.6    
88.8    
89.1    
89.3    
89.5    
89.8    
90.0    
90.3    
90.5    
90.7    
91.0    
91.2    
91.4    
91.7    
91.9    
92.2    
92.4    
92.6    
92.9    
93.1    
93.3    
93.6    
93.8    
94.1    
94.3    
94.5    
94.8    
95.0    
95.2    
95.5    
95.7    
96.0    
96.2    
96.4    
96.7    
96.9    
97.1    
97.4    
97.6    
97.9    
98.1    
98.3    
98.6    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 36 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 219033, rend_intergenic: 219030  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56661, rend_intergenic: 54134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119381, rend_intergenic: 117144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 31 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 11030
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support