-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_322705-527081

-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_7-snap.114-T1
Valid prediction for snap_scaffold_7-snap.128-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_16724-T1
Valid prediction for snap_scaffold_7-snap.95-T1
Valid prediction for snap_scaffold_7-snap.104-T1
Valid prediction for GlimmerHMM_glimmerT_16738-T1
Valid prediction for snap_scaffold_7-snap.85-T1
Valid prediction for snap_scaffold_7-snap.91-T1
Valid prediction for GlimmerHMM_glimmerT_16741-T1
Valid prediction for snap_scaffold_7-snap.137-T1
Valid prediction for snap_scaffold_7-snap.102-T1
Valid prediction for snap_scaffold_7-snap.100-T1
Valid prediction for snap_scaffold_7-snap.115-T1
Valid prediction for GlimmerHMM_glimmerT_16732-T1
Valid prediction for snap_scaffold_7-snap.119-T1
Valid prediction for snap_scaffold_7-snap.129-T1
Valid prediction for snap_scaffold_7-snap.93-T1
Valid prediction for Augustus_model.g11182.t1
Valid prediction for snap_scaffold_7-snap.127-T1
Valid prediction for GlimmerHMM_glimmerT_16742-T1
Valid prediction for snap_scaffold_7-snap.135-T1
Valid prediction for snap_scaffold_7-snap.124-T1
Valid prediction for snap_scaffold_7-snap.89-T1
Valid prediction for GlimmerHMM_glimmerT_16740-T1
Valid prediction for Augustus_model.g11183.t1
Valid prediction for snap_scaffold_7-snap.103-T1
Valid prediction for GlimmerHMM_glimmerT_16736-T1
Valid prediction for snap_scaffold_7-snap.132-T1
Valid prediction for snap_scaffold_7-snap.82-T1
Valid prediction for snap_scaffold_7-snap.83-T1
Valid prediction for snap_scaffold_7-snap.108-T1
Valid prediction for GlimmerHMM_glimmerT_16730-T1
Valid prediction for GlimmerHMM_glimmerT_16725-T1
Valid prediction for snap_scaffold_7-snap.106-T1
Valid prediction for Augustus_model.g11187.t1
Valid prediction for snap_scaffold_7-snap.117-T1
Valid prediction for GlimmerHMM_glimmerT_16723-T1
Valid prediction for GlimmerHMM_glimmerT_16728-T1
Valid prediction for snap_scaffold_7-snap.88-T1
Valid prediction for snap_scaffold_7-snap.122-T1
Valid prediction for snap_scaffold_7-snap.84-T1
Valid prediction for snap_scaffold_7-snap.110-T1
Valid prediction for snap_scaffold_7-snap.109-T1
Valid prediction for snap_scaffold_7-snap.97-T1
Valid prediction for GlimmerHMM_glimmerT_16721-T1
Valid prediction for GlimmerHMM_glimmerT_16734-T1
Valid prediction for GlimmerHMM_glimmerT_16745-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.g11188.t1
Valid prediction for snap_scaffold_7-snap.125-T1
Valid prediction for GlimmerHMM_glimmerT_16735-T1
Valid prediction for snap_scaffold_7-snap.96-T1
Valid prediction for GlimmerHMM_glimmerT_16743-T1
Valid prediction for snap_scaffold_7-snap.133-T1
Valid prediction for GlimmerHMM_glimmerT_16731-T1
Couldn't classify 145371, 145832
Sorry, prediction pasa_asmbl_49555.p1 fails validation.
(CAG)	 AG	145371-145832	AA	GGA
Valid prediction for GlimmerHMM_glimmerT_16749-T1
Valid prediction for Augustus_model.g11191.t1
Valid prediction for GlimmerHMM_glimmerT_16726-T1
Valid prediction for GlimmerHMM_glimmerT_16739-T1
Valid prediction for snap_scaffold_7-snap.86-T1
Valid prediction for snap_scaffold_7-snap.136-T1
Valid prediction for Augustus_model.g11190.t1
Valid prediction for snap_scaffold_7-snap.121-T1
Valid prediction for GlimmerHMM_glimmerT_16727-T1
Valid prediction for snap_scaffold_7-snap.126-T1
Valid prediction for snap_scaffold_7-snap.101-T1
Valid prediction for snap_scaffold_7-snap.112-T1
Valid prediction for snap_scaffold_7-snap.105-T1
Valid prediction for GlimmerHMM_glimmerT_16729-T1
Valid prediction for Augustus_model.g11189.t1
Valid prediction for GlimmerHMM_glimmerT_16737-T1
Valid prediction for snap_scaffold_7-snap.130-T1
Valid prediction for snap_scaffold_7-snap.98-T1
Valid prediction for snap_scaffold_7-snap.134-T1
Valid prediction for snap_scaffold_7-snap.87-T1
Valid prediction for snap_scaffold_7-snap.99-T1
Valid prediction for snap_scaffold_7-snap.107-T1
Valid prediction for snap_scaffold_7-snap.90-T1
Valid prediction for snap_scaffold_7-snap.94-T1
Valid prediction for GlimmerHMM_glimmerT_16747-T1
Valid prediction for snap_scaffold_7-snap.131-T1
Valid prediction for GlimmerHMM_glimmerT_16733-T1
Valid prediction for snap_scaffold_7-snap.120-T1
Valid prediction for snap_scaffold_7-snap.118-T1
Valid prediction for GlimmerHMM_glimmerT_16748-T1
Valid prediction for snap_scaffold_7-snap.123-T1
Valid prediction for snap_scaffold_7-snap.116-T1
Valid prediction for GlimmerHMM_glimmerT_16722-T1
Valid prediction for Augustus_model.g11185.t1
Valid prediction for GlimmerHMM_glimmerT_16744-T1
Valid prediction for snap_scaffold_7-snap.92-T1
Valid prediction for Augustus_model.g11184.t1
Valid prediction for snap_scaffold_7-snap.111-T1
Valid prediction for Augustus_model.g11186.t1
Valid prediction for GlimmerHMM_glimmerT_16746-T1
Valid prediction for snap_scaffold_7-snap.113-T1
Valid prediction for GlimmerHMM_glimmerT_16720-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15747, rend_intergenic: 12310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29431, rend_intergenic: 16649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30246, rend_intergenic: 29674  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31438, rend_intergenic: 30293  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33147, rend_intergenic: 31600  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35963, rend_intergenic: 33339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37209, rend_intergenic: 36089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41697, rend_intergenic: 39303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50114, rend_intergenic: 44036  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58890, rend_intergenic: 55839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63673, rend_intergenic: 59934  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71765, rend_intergenic: 63835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75213, rend_intergenic: 74809  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83627, rend_intergenic: 77773  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95322, rend_intergenic: 85213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106758, rend_intergenic: 98380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118797, rend_intergenic: 115862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127357, rend_intergenic: 123087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129609, rend_intergenic: 128937  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132110, rend_intergenic: 129887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142582, rend_intergenic: 132326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150659, rend_intergenic: 143507  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172068, rend_intergenic: 161980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176172, rend_intergenic: 172824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176847, rend_intergenic: 176532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181606, rend_intergenic: 177737  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191912, rend_intergenic: 188967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203362, rend_intergenic: 192236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 204377
-exon list size: 312


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.2    
2.5    
2.9    
3.2    
3.5    
3.8    
4.1    
4.5    
4.8    
5.1    
5.4    
5.7    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
8.0    
8.3    
8.6    
8.9    
9.2    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.5    
11.8    
12.1    
12.4    
12.7    
13.1    
13.4    
13.7    
14.0    
14.3    
14.6    
15.0    
15.3    
15.6    
15.9    
16.2    
16.6    
16.9    
17.2    
17.5    
17.8    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.0    
21.3    
21.7    
22.0    
22.3    
22.6    
22.9    
23.2    
23.6    
23.9    
24.2    
24.5    
24.8    
25.2    
25.5    
25.8    
26.1    
26.4    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.7    
29.0    
29.3    
29.6    
29.9    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.2    
32.5    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.7    
35.0    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
37.3    
37.6    
37.9    
38.2    
38.5    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.8    
41.1    
41.4    
41.7    
42.0    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.3    
44.6    
44.9    
45.2    
45.5    
45.9    
46.2    
46.5    
46.8    
47.1    
47.5    
47.8    
48.1    
48.4    
48.7    
49.0    
49.4    
49.7    
50.0    
50.3    
50.6    
51.0    
51.3    
51.6    
51.9    
52.2    
52.5    
52.9    
53.2    
53.5    
53.8    
54.1    
54.5    
54.8    
55.1    
55.4    
55.7    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
58.0    
58.3    
58.6    
58.9    
59.2    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.5    
61.8    
62.1    
62.4    
62.7    
63.1    
63.4    
63.7    
64.0    
64.3    
64.6    
65.0    
65.3    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.5    
67.8    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.1    
70.4    
70.7    
71.0    
71.3    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.6    
73.9    
74.2    
74.5    
74.8    
75.2    
75.5    
75.8    
76.1    
76.4    
76.8    
77.1    
77.4    
77.7    
78.0    
78.3    
78.7    
79.0    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.2    
82.5    
82.8    
83.1    
83.4    
83.8    
84.1    
84.4    
84.7    
85.0    
85.4    
85.7    
86.0    
86.3    
86.6    
86.9    
87.3    
87.6    
87.9    
88.2    
88.5    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.8    
91.1    
91.4    
91.7    
92.0    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.3    
94.6    
94.9    
95.2    
95.5    
95.9    
96.2    
96.5    
96.8    
97.1    
97.5    
97.8    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 37 predictions from path traversal
Error with prediction: snap lend_intergenic: 15747, rend_intergenic: 12310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29431, rend_intergenic: 16649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30246, rend_intergenic: 29674  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31438, rend_intergenic: 30293  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33147, rend_intergenic: 31600  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35963, rend_intergenic: 33339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37209, rend_intergenic: 36089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41697, rend_intergenic: 39303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50114, rend_intergenic: 44036  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58890, rend_intergenic: 55839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63673, rend_intergenic: 59934  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71765, rend_intergenic: 63835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75213, rend_intergenic: 74809  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83627, rend_intergenic: 77773  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95322, rend_intergenic: 85213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106758, rend_intergenic: 98380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118797, rend_intergenic: 115862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127357, rend_intergenic: 123087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129609, rend_intergenic: 128937  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132110, rend_intergenic: 129887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142582, rend_intergenic: 132326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150659, rend_intergenic: 143507  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172068, rend_intergenic: 161980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176172, rend_intergenic: 172824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176847, rend_intergenic: 176532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181606, rend_intergenic: 177737  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191912, rend_intergenic: 188967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203362, rend_intergenic: 192236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support