-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_898102-1140040

-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.259-T1
Valid prediction for GlimmerHMM_glimmerT_16827-T1
Valid prediction for snap_scaffold_7-snap.239-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_7-snap.228-T1
Valid prediction for GlimmerHMM_glimmerT_16817-T1
Valid prediction for GlimmerHMM_glimmerT_16823-T1
Valid prediction for GlimmerHMM_glimmerT_16841-T1
Valid prediction for Augustus_model.g11227.t1
Valid prediction for GlimmerHMM_glimmerT_16821-T1
Valid prediction for GlimmerHMM_glimmerT_16824-T1
Valid prediction for Augustus_model.g11233.t1
Valid prediction for snap_scaffold_7-snap.218-T1
Valid prediction for GlimmerHMM_glimmerT_16835-T1
Valid prediction for snap_scaffold_7-snap.220-T1
Valid prediction for snap_scaffold_7-snap.258-T1
Valid prediction for Augustus_model.g11242.t1
Valid prediction for snap_scaffold_7-snap.252-T1
Valid prediction for Augustus_model.g11240.t1
Valid prediction for snap_scaffold_7-snap.255-T1
Valid prediction for GlimmerHMM_glimmerT_16842-T1
Valid prediction for snap_scaffold_7-snap.230-T1
Valid prediction for GlimmerHMM_glimmerT_16820-T1
Valid prediction for GlimmerHMM_glimmerT_16832-T1
Valid prediction for snap_scaffold_7-snap.263-T1
Valid prediction for snap_scaffold_7-snap.225-T1
Valid prediction for snap_scaffold_7-snap.223-T1
Valid prediction for GlimmerHMM_glimmerT_16819-T1
Valid prediction for GlimmerHMM_glimmerT_16846-T1
Valid prediction for snap_scaffold_7-snap.249-T1
Valid prediction for GlimmerHMM_glimmerT_16815-T1
Valid prediction for GlimmerHMM_glimmerT_16814-T1
Valid prediction for Augustus_model.g11241.t1
Valid prediction for snap_scaffold_7-snap.217-T1
Valid prediction for GlimmerHMM_glimmerT_16830-T1
Valid prediction for snap_scaffold_7-snap.242-T1
Valid prediction for snap_scaffold_7-snap.226-T1
Valid prediction for snap_scaffold_7-snap.221-T1
Valid prediction for Augustus_model.g11230.t1
Valid prediction for Augustus_model.g11231.t1
Valid prediction for GlimmerHMM_glimmerT_16825-T1
Valid prediction for Augustus_model.g11234.t1
Valid prediction for Augustus_model.g11229.t1
Valid prediction for Augustus_model.g11232.t1
Valid prediction for snap_scaffold_7-snap.232-T1
Valid prediction for snap_scaffold_7-snap.260-T1
Couldn't classify 2161, 2235
Couldn't classify 4417, 4473
Sorry, prediction pasa_asmbl_49571.p1 fails validation.
(ATC)	 AC	2161-2235	GT	AGG
(GAG)	 AG	3683-3728	GT	AGG
(AGA)	 AG	3840-3930	GT	AGG
(GTT)	 AG	4143-4284	GT	AGG
(AGG)	 AG	4417-4473	GA	GCG
-recovered pasa_asmbl_49571.p1, internal, 3683, 3728
-recovered pasa_asmbl_49571.p1, internal, 3840, 3930
-recovered pasa_asmbl_49571.p1, internal, 4143, 4284
Valid prediction for snap_scaffold_7-snap.247-T1
Valid prediction for snap_scaffold_7-snap.251-T1
Valid prediction for Augustus_model.g11243.t1
Valid prediction for snap_scaffold_7-snap.253-T1
Valid prediction for snap_scaffold_7-snap.246-T1
Valid prediction for snap_scaffold_7-snap.238-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_16843-T1
Valid prediction for snap_scaffold_7-snap.248-T1
Valid prediction for snap_scaffold_7-snap.234-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_16838-T1
Valid prediction for snap_scaffold_7-snap.262-T1
Valid prediction for Augustus_model.g11244.t1
Valid prediction for snap_scaffold_7-snap.243-T1
Valid prediction for GlimmerHMM_glimmerT_16836-T1
Valid prediction for snap_scaffold_7-snap.257-T1
Valid prediction for GlimmerHMM_glimmerT_16847-T1
Valid prediction for GlimmerHMM_glimmerT_16844-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.g11238.t1
Valid prediction for snap_scaffold_7-snap.233-T1
Valid prediction for snap_scaffold_7-snap.224-T1
Valid prediction for snap_scaffold_7-snap.240-T1
Valid prediction for GlimmerHMM_glimmerT_16840-T1
Valid prediction for snap_scaffold_7-snap.229-T1
Valid prediction for GlimmerHMM_glimmerT_16845-T1
Valid prediction for Augustus_model.g11237.t1
Valid prediction for GlimmerHMM_glimmerT_16837-T1
Valid prediction for snap_scaffold_7-snap.256-T1
Valid prediction for GlimmerHMM_glimmerT_16818-T1
Valid prediction for snap_scaffold_7-snap.237-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g11228.t1
Valid prediction for GlimmerHMM_glimmerT_16829-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_7-snap.219-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_7-snap.216-T1
Valid prediction for Augustus_model.g11235.t1
Valid prediction for snap_scaffold_7-snap.231-T1
Valid prediction for GlimmerHMM_glimmerT_16833-T1
Valid prediction for snap_scaffold_7-snap.244-T1
Valid prediction for GlimmerHMM_glimmerT_16826-T1
Valid prediction for GlimmerHMM_glimmerT_16828-T1
Valid prediction for snap_scaffold_7-snap.236-T1
Valid prediction for snap_scaffold_7-snap.235-T1
Valid prediction for snap_scaffold_7-snap.227-T1
Valid prediction for GlimmerHMM_glimmerT_16816-T1
Valid prediction for GlimmerHMM_glimmerT_16831-T1
Valid prediction for GlimmerHMM_glimmerT_16839-T1
Valid prediction for Augustus_model.g11236.t1
Valid prediction for Augustus_model.g11239.t1
Valid prediction for snap_scaffold_7-snap.261-T1
Valid prediction for GlimmerHMM_glimmerT_16822-T1
Valid prediction for snap_scaffold_7-snap.245-T1
Valid prediction for snap_scaffold_7-snap.222-T1
Valid prediction for snap_scaffold_7-snap.254-T1
Valid prediction for GlimmerHMM_glimmerT_16834-T1
Valid prediction for snap_scaffold_7-snap.241-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_7-snap.250-T1
Sorry, intron length (8) is less than minimum required (10)

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 35031, rend_intergenic: 22052  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41202, rend_intergenic: 36180  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47103, rend_intergenic: 43074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50481, rend_intergenic: 47465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53202, rend_intergenic: 50551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56794, rend_intergenic: 54297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57472, rend_intergenic: 56828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58639, rend_intergenic: 57680  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61079, rend_intergenic: 61028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65534, rend_intergenic: 63360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85123, rend_intergenic: 65895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93508, rend_intergenic: 86245  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97723, rend_intergenic: 94845  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107391, rend_intergenic: 99709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112417, rend_intergenic: 109315  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139825, rend_intergenic: 112439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164271, rend_intergenic: 143576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183741, rend_intergenic: 181559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195853, rend_intergenic: 184109  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214453, rend_intergenic: 196437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215821, rend_intergenic: 215462  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 239798, rend_intergenic: 217285  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 241939
-exon list size: 425


building trellis

0.2    
0.5    
0.7    
0.9    
1.2    
1.4    
1.6    
1.9    
2.1    
2.3    
2.6    
2.8    
3.0    
3.3    
3.5    
3.7    
4.0    
4.2    
4.4    
4.7    
4.9    
5.2    
5.4    
5.6    
5.9    
6.1    
6.3    
6.6    
6.8    
7.0    
7.3    
7.5    
7.7    
8.0    
8.2    
8.4    
8.7    
8.9    
9.1    
9.4    
9.6    
9.8    
10.1    
10.3    
10.5    
10.8    
11.0    
11.2    
11.5    
11.7    
11.9    
12.2    
12.4    
12.6    
12.9    
13.1    
13.3    
13.6    
13.8    
14.1    
14.3    
14.5    
14.8    
15.0    
15.2    
15.5    
15.7    
15.9    
16.2    
16.4    
16.6    
16.9    
17.1    
17.3    
17.6    
17.8    
18.0    
18.3    
18.5    
18.7    
19.0    
19.2    
19.4    
19.7    
19.9    
20.1    
20.4    
20.6    
20.8    
21.1    
21.3    
21.5    
21.8    
22.0    
22.2    
22.5    
22.7    
23.0    
23.2    
23.4    
23.7    
23.9    
24.1    
24.4    
24.6    
24.8    
25.1    
25.3    
25.5    
25.8    
26.0    
26.2    
26.5    
26.7    
26.9    
27.2    
27.4    
27.6    
27.9    
28.1    
28.3    
28.6    
28.8    
29.0    
29.3    
29.5    
29.7    
30.0    
30.2    
30.4    
30.7    
30.9    
31.1    
31.4    
31.6    
31.9    
32.1    
32.3    
32.6    
32.8    
33.0    
33.3    
33.5    
33.7    
34.0    
34.2    
34.4    
34.7    
34.9    
35.1    
35.4    
35.6    
35.8    
36.1    
36.3    
36.5    
36.8    
37.0    
37.2    
37.5    
37.7    
37.9    
38.2    
38.4    
38.6    
38.9    
39.1    
39.3    
39.6    
39.8    
40.0    
40.3    
40.5    
40.7    
41.0    
41.2    
41.5    
41.7    
41.9    
42.2    
42.4    
42.6    
42.9    
43.1    
43.3    
43.6    
43.8    
44.0    
44.3    
44.5    
44.7    
45.0    
45.2    
45.4    
45.7    
45.9    
46.1    
46.4    
46.6    
46.8    
47.1    
47.3    
47.5    
47.8    
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    
52.2    
52.5    
52.7    
52.9    
53.2    
53.4    
53.6    
53.9    
54.1    
54.3    
54.6    
54.8    
55.0    
55.3    
55.5    
55.7    
56.0    
56.2    
56.4    
56.7    
56.9    
57.1    
57.4    
57.6    
57.8    
58.1    
58.3    
58.5    
58.8    
59.0    
59.3    
59.5    
59.7    
60.0    
60.2    
60.4    
60.7    
60.9    
61.1    
61.4    
61.6    
61.8    
62.1    
62.3    
62.5    
62.8    
63.0    
63.2    
63.5    
63.7    
63.9    
64.2    
64.4    
64.6    
64.9    
65.1    
65.3    
65.6    
65.8    
66.0    
66.3    
66.5    
66.7    
67.0    
67.2    
67.4    
67.7    
67.9    
68.1    
68.4    
68.6    
68.9    
69.1    
69.3    
69.6    
69.8    
70.0    
70.3    
70.5    
70.7    
71.0    
71.2    
71.4    
71.7    
71.9    
72.1    
72.4    
72.6    
72.8    
73.1    
73.3    
73.5    
73.8    
74.0    
74.2    
74.5    
74.7    
74.9    
75.2    
75.4    
75.6    
75.9    
76.1    
76.3    
76.6    
76.8    
77.0    
77.3    
77.5    
77.8    
78.0    
78.2    
78.5    
78.7    
78.9    
79.2    
79.4    
79.6    
79.9    
80.1    
80.3    
80.6    
80.8    
81.0    
81.3    
81.5    
81.7    
82.0    
82.2    
82.4    
82.7    
82.9    
83.1    
83.4    
83.6    
83.8    
84.1    
84.3    
84.5    
84.8    
85.0    
85.2    
85.5    
85.7    
85.9    
86.2    
86.4    
86.7    
86.9    
87.1    
87.4    
87.6    
87.8    
88.1    
88.3    
88.5    
88.8    
89.0    
89.2    
89.5    
89.7    
89.9    
90.2    
90.4    
90.6    
90.9    
91.1    
91.3    
91.6    
91.8    
92.0    
92.3    
92.5    
92.7    
93.0    
93.2    
93.4    
93.7    
93.9    
94.1    
94.4    
94.6    
94.8    
95.1    
95.3    
95.6    
95.8    
96.0    
96.3    
96.5    
96.7    
97.0    
97.2    
97.4    
97.7    
97.9    
98.1    
98.4    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 40 predictions from path traversal
Error with prediction: snap lend_intergenic: 35031, rend_intergenic: 22052  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41202, rend_intergenic: 36180  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47103, rend_intergenic: 43074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50481, rend_intergenic: 47465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53202, rend_intergenic: 50551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56794, rend_intergenic: 54297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57472, rend_intergenic: 56828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58639, rend_intergenic: 57680  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61079, rend_intergenic: 61028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65534, rend_intergenic: 63360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85123, rend_intergenic: 65895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93508, rend_intergenic: 86245  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97723, rend_intergenic: 94845  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107391, rend_intergenic: 99709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112417, rend_intergenic: 109315  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139825, rend_intergenic: 112439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164271, rend_intergenic: 143576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183741, rend_intergenic: 181559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195853, rend_intergenic: 184109  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214453, rend_intergenic: 196437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215821, rend_intergenic: 215462  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 239798, rend_intergenic: 217285  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support