-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_3137983-3319973

-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 GlimmerHMM_glimmerT_29068-T1
Valid prediction for snap_scaffold_12-snap.666-T1
Valid prediction for Augustus_model.g19174.t1
Valid prediction for snap_scaffold_12-snap.640-T1
Valid prediction for Augustus_model.g19166.t1
Valid prediction for snap_scaffold_12-snap.633-T1
Valid prediction for GlimmerHMM_glimmerT_29047-T1
Valid prediction for GlimmerHMM_glimmerT_29061-T1
Valid prediction for snap_scaffold_12-snap.658-T1
Valid prediction for snap_scaffold_12-snap.627-T1
Valid prediction for snap_scaffold_12-snap.652-T1
Valid prediction for GlimmerHMM_glimmerT_29050-T1
Valid prediction for snap_scaffold_12-snap.664-T1
Valid prediction for Augustus_model.g19177.t1
Valid prediction for snap_scaffold_12-snap.634-T1
Valid prediction for snap_scaffold_12-snap.648-T1
Valid prediction for snap_scaffold_12-snap.656-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.628-T1
Valid prediction for GlimmerHMM_glimmerT_29064-T1
Valid prediction for Augustus_model.g19165.t1
Valid prediction for Augustus_model.g19175.t1
Valid prediction for GlimmerHMM_glimmerT_29055-T1
Valid prediction for GlimmerHMM_glimmerT_29057-T1
Valid prediction for snap_scaffold_12-snap.643-T1
Valid prediction for snap_scaffold_12-snap.654-T1
Valid prediction for snap_scaffold_12-snap.639-T1
Valid prediction for snap_scaffold_12-snap.660-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for Augustus_model.g19167.t1
Valid prediction for snap_scaffold_12-snap.629-T1
Valid prediction for GlimmerHMM_glimmerT_29059-T1
Valid prediction for GlimmerHMM_glimmerT_29066-T1
Valid prediction for snap_scaffold_12-snap.661-T1
Valid prediction for GlimmerHMM_glimmerT_29048-T1
Valid prediction for Augustus_model.g19173.t1
Valid prediction for snap_scaffold_12-snap.631-T1
Valid prediction for GlimmerHMM_glimmerT_29060-T1
Valid prediction for Augustus_model.g19171.t1
Valid prediction for Augustus_model.g19176.t1
Valid prediction for snap_scaffold_12-snap.636-T1
Valid prediction for GlimmerHMM_glimmerT_29071-T1
Valid prediction for snap_scaffold_12-snap.642-T1
Valid prediction for GlimmerHMM_glimmerT_29063-T1
Valid prediction for snap_scaffold_12-snap.635-T1
Valid prediction for GlimmerHMM_glimmerT_29052-T1
Valid prediction for snap_scaffold_12-snap.647-T1
Valid prediction for Augustus_model.g19164.t1
Valid prediction for GlimmerHMM_glimmerT_29053-T1
Valid prediction for snap_scaffold_12-snap.650-T1
Valid prediction for snap_scaffold_12-snap.644-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 snap_scaffold_12-snap.638-T1
Valid prediction for snap_scaffold_12-snap.641-T1
Valid prediction for GlimmerHMM_glimmerT_29070-T1
Valid prediction for GlimmerHMM_glimmerT_29072-T1
Valid prediction for GlimmerHMM_glimmerT_29062-T1
Valid prediction for GlimmerHMM_glimmerT_29058-T1
Valid prediction for GlimmerHMM_glimmerT_29069-T1
Valid prediction for snap_scaffold_12-snap.653-T1
Valid prediction for Augustus_model.g19170.t1
Valid prediction for Augustus_model.g19178.t1
Valid prediction for snap_scaffold_12-snap.637-T1
Valid prediction for Augustus_model.g19172.t1
Valid prediction for Augustus_model.g19163.t1
Valid prediction for snap_scaffold_12-snap.646-T1
Valid prediction for GlimmerHMM_glimmerT_29056-T1
Couldn't classify 101796, 101946
Sorry, prediction pasa_asmbl_8350.p2 fails validation.
(CGC)	 CA	101796-101946	GT	AAG
(TCA)	 AG	103465-103686	GT	GGG
(CCA)	 AG	104149-104180	AG	GAA
-recovered pasa_asmbl_8350.p2, terminal, 104149, 104180
-recovered pasa_asmbl_8350.p2, internal, 103465, 103686
Valid prediction for snap_scaffold_12-snap.651-T1
Valid prediction for snap_scaffold_12-snap.655-T1
Valid prediction for snap_scaffold_12-snap.645-T1
Valid prediction for GlimmerHMM_glimmerT_29049-T1
Valid prediction for Augustus_model.g19168.t1
Valid prediction for snap_scaffold_12-snap.665-T1
Valid prediction for GlimmerHMM_glimmerT_29054-T1
Valid prediction for snap_scaffold_12-snap.663-T1
Valid prediction for GlimmerHMM_glimmerT_29067-T1
Valid prediction for Augustus_model.g19169.t1
Valid prediction for snap_scaffold_12-snap.630-T1
Valid prediction for snap_scaffold_12-snap.632-T1
Valid prediction for GlimmerHMM_glimmerT_29065-T1
Valid prediction for snap_scaffold_12-snap.662-T1
Valid prediction for snap_scaffold_12-snap.649-T1
Valid prediction for GlimmerHMM_glimmerT_29051-T1
Valid prediction for snap_scaffold_12-snap.659-T1
Valid prediction for snap_scaffold_12-snap.657-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15656, rend_intergenic: 13581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21040, rend_intergenic: 19069  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45404, rend_intergenic: 43265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88438, rend_intergenic: 81517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92954, rend_intergenic: 89004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94892, rend_intergenic: 94152  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106575, rend_intergenic: 101485  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113139, rend_intergenic: 112853  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118251, rend_intergenic: 115045  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136750, rend_intergenic: 129810  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166656, rend_intergenic: 146398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170059, rend_intergenic: 168982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176297, rend_intergenic: 173503  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 181991
-exon list size: 273


building trellis

0.4    
0.7    
1.1    
1.5    
1.8    
2.2    
2.5    
2.9    
3.3    
3.6    
4.0    
4.4    
4.7    
5.1    
5.5    
5.8    
6.2    
6.5    
6.9    
7.3    
7.6    
8.0    
8.4    
8.7    
9.1    
9.5    
9.8    
10.2    
10.5    
10.9    
11.3    
11.6    
12.0    
12.4    
12.7    
13.1    
13.5    
13.8    
14.2    
14.5    
14.9    
15.3    
15.6    
16.0    
16.4    
16.7    
17.1    
17.5    
17.8    
18.2    
18.5    
18.9    
19.3    
19.6    
20.0    
20.4    
20.7    
21.1    
21.5    
21.8    
22.2    
22.5    
22.9    
23.3    
23.6    
24.0    
24.4    
24.7    
25.1    
25.5    
25.8    
26.2    
26.5    
26.9    
27.3    
27.6    
28.0    
28.4    
28.7    
29.1    
29.5    
29.8    
30.2    
30.5    
30.9    
31.3    
31.6    
32.0    
32.4    
32.7    
33.1    
33.5    
33.8    
34.2    
34.5    
34.9    
35.3    
35.6    
36.0    
36.4    
36.7    
37.1    
37.5    
37.8    
38.2    
38.5    
38.9    
39.3    
39.6    
40.0    
40.4    
40.7    
41.1    
41.5    
41.8    
42.2    
42.5    
42.9    
43.3    
43.6    
44.0    
44.4    
44.7    
45.1    
45.5    
45.8    
46.2    
46.5    
46.9    
47.3    
47.6    
48.0    
48.4    
48.7    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.3    
51.6    
52.0    
52.4    
52.7    
53.1    
53.5    
53.8    
54.2    
54.5    
54.9    
55.3    
55.6    
56.0    
56.4    
56.7    
57.1    
57.5    
57.8    
58.2    
58.5    
58.9    
59.3    
59.6    
60.0    
60.4    
60.7    
61.1    
61.5    
61.8    
62.2    
62.5    
62.9    
63.3    
63.6    
64.0    
64.4    
64.7    
65.1    
65.5    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.4    
68.7    
69.1    
69.5    
69.8    
70.2    
70.5    
70.9    
71.3    
71.6    
72.0    
72.4    
72.7    
73.1    
73.5    
73.8    
74.2    
74.5    
74.9    
75.3    
75.6    
76.0    
76.4    
76.7    
77.1    
77.5    
77.8    
78.2    
78.5    
78.9    
79.3    
79.6    
80.0    
80.4    
80.7    
81.1    
81.5    
81.8    
82.2    
82.5    
82.9    
83.3    
83.6    
84.0    
84.4    
84.7    
85.1    
85.5    
85.8    
86.2    
86.5    
86.9    
87.3    
87.6    
88.0    
88.4    
88.7    
89.1    
89.5    
89.8    
90.2    
90.5    
90.9    
91.3    
91.6    
92.0    
92.4    
92.7    
93.1    
93.5    
93.8    
94.2    
94.5    
94.9    
95.3    
95.6    
96.0    
96.4    
96.7    
97.1    
97.5    
97.8    
98.2    
98.5    
98.9    
99.3    
99.6    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 15656, rend_intergenic: 13581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21040, rend_intergenic: 19069  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45404, rend_intergenic: 43265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88438, rend_intergenic: 81517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92954, rend_intergenic: 89004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94892, rend_intergenic: 94152  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106575, rend_intergenic: 101485  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113139, rend_intergenic: 112853  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118251, rend_intergenic: 115045  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136750, rend_intergenic: 129810  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166656, rend_intergenic: 146398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170059, rend_intergenic: 168982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176297, rend_intergenic: 173503  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support