-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_11880067-12073823

-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 Augustus_model.g28779.t1
Valid prediction for GlimmerHMM_glimmerT_43187-T1
Valid prediction for snap_scaffold_18-snap.2537-T1
Valid prediction for Augustus_model.g28777.t1
Valid prediction for snap_scaffold_18-snap.2532-T1
Valid prediction for Augustus_model.g28774.t1
Valid prediction for snap_scaffold_18-snap.2550-T1
Valid prediction for snap_scaffold_18-snap.2547-T1
Valid prediction for Augustus_model.g28778.t1
Valid prediction for GlimmerHMM_glimmerT_43193-T1
Valid prediction for GlimmerHMM_glimmerT_43191-T1
Valid prediction for snap_scaffold_18-snap.2533-T1
Valid prediction for snap_scaffold_18-snap.2548-T1
Couldn't classify 29844, 29948
Couldn't classify 38650, 38733
Sorry, prediction pasa_asmbl_20956.p1 fails validation.
(GTC)	 TT	29844-29948	GT	ACG
(TTC)	 AG	32080-32238	GT	CGG
(ATG)	 AG	33910-34011	GT	AGG
(GTG)	 AG	34183-34261	GT	AGG
(GGT)	 AG	34714-34763	GT	AGG
(GAG)	 AG	34920-35009	GT	TGG
(GAA)	 AG	36361-36441	GT	AGG
(AGG)	 AG	38650-38733	GT	CTG
-recovered pasa_asmbl_20956.p1, initial, 33910, 34011
-recovered pasa_asmbl_20956.p1, internal, 32080, 32238
-recovered pasa_asmbl_20956.p1, internal, 33910, 34011
-recovered pasa_asmbl_20956.p1, internal, 34183, 34261
-recovered pasa_asmbl_20956.p1, internal, 34714, 34763
-recovered pasa_asmbl_20956.p1, internal, 34920, 35009
-recovered pasa_asmbl_20956.p1, internal, 36361, 36441
-recovered pasa_asmbl_20956.p1, internal, 38650, 38733
Valid prediction for snap_scaffold_18-snap.2555-T1
Valid prediction for snap_scaffold_18-snap.2541-T1
Valid prediction for Augustus_model.g28781.t1
Valid prediction for snap_scaffold_18-snap.2539-T1
Valid prediction for snap_scaffold_18-snap.2557-T1
Valid prediction for snap_scaffold_18-snap.2554-T1
Valid prediction for Augustus_model.g28775.t1
Valid prediction for snap_scaffold_18-snap.2545-T1
Valid prediction for Augustus_model.g28773.t1
Valid prediction for snap_scaffold_18-snap.2564-T1
Valid prediction for Augustus_model.g28772.t1
Valid prediction for snap_scaffold_18-snap.2556-T1
Valid prediction for snap_scaffold_18-snap.2531-T1
Valid prediction for GlimmerHMM_glimmerT_43196-T1
Valid prediction for snap_scaffold_18-snap.2536-T1
Valid prediction for GlimmerHMM_glimmerT_43195-T1
Valid prediction for snap_scaffold_18-snap.2567-T1
Valid prediction for snap_scaffold_18-snap.2563-T1
Valid prediction for snap_scaffold_18-snap.2551-T1
Valid prediction for Augustus_model.g28771.t1
Valid prediction for snap_scaffold_18-snap.2561-T1
Valid prediction for snap_scaffold_18-snap.2530-T1
Valid prediction for GlimmerHMM_glimmerT_43189-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 GlimmerHMM_glimmerT_43198-T1
Valid prediction for snap_scaffold_18-snap.2546-T1
Valid prediction for snap_scaffold_18-snap.2553-T1
Valid prediction for GlimmerHMM_glimmerT_43197-T1
Valid prediction for snap_scaffold_18-snap.2543-T1
Valid prediction for snap_scaffold_18-snap.2560-T1
Valid prediction for GlimmerHMM_glimmerT_43186-T1
Valid prediction for GlimmerHMM_glimmerT_43188-T1
Valid prediction for snap_scaffold_18-snap.2566-T1
Valid prediction for snap_scaffold_18-snap.2562-T1
Valid prediction for snap_scaffold_18-snap.2568-T1
Valid prediction for GlimmerHMM_glimmerT_43192-T1
Valid prediction for snap_scaffold_18-snap.2559-T1
Valid prediction for snap_scaffold_18-snap.2549-T1
Valid prediction for GlimmerHMM_glimmerT_43194-T1
Valid prediction for snap_scaffold_18-snap.2535-T1
Valid prediction for snap_scaffold_18-snap.2542-T1
Valid prediction for GlimmerHMM_glimmerT_43199-T1
Valid prediction for GlimmerHMM_glimmerT_43190-T1
Valid prediction for snap_scaffold_18-snap.2529-T1
Valid prediction for snap_scaffold_18-snap.2558-T1
Valid prediction for Augustus_model.g28776.t1
Valid prediction for snap_scaffold_18-snap.2565-T1
Valid prediction for snap_scaffold_18-snap.2540-T1
Valid prediction for snap_scaffold_18-snap.2552-T1
Valid prediction for Augustus_model.g28780.t1
Valid prediction for GlimmerHMM_glimmerT_43201-T1
Valid prediction for GlimmerHMM_glimmerT_43200-T1
Valid prediction for GlimmerHMM_glimmerT_43202-T1
Valid prediction for snap_scaffold_18-snap.2538-T1
Valid prediction for snap_scaffold_18-snap.2544-T1
Valid prediction for GlimmerHMM_glimmerT_43185-T1
Valid prediction for snap_scaffold_18-snap.2534-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 35099, rend_intergenic: 24045  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51767, rend_intergenic: 50695  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56685, rend_intergenic: 52963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69224, rend_intergenic: 57439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90980, rend_intergenic: 84940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100882, rend_intergenic: 95403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109472, rend_intergenic: 106398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139225, rend_intergenic: 123408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156040, rend_intergenic: 140167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164371, rend_intergenic: 161037  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165164, rend_intergenic: 164477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168996, rend_intergenic: 165347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179984, rend_intergenic: 169001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190585, rend_intergenic: 186915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 193757
-exon list size: 298


building trellis

0.3    
0.7    
1.0    
1.3    
1.7    
2.0    
2.3    
2.7    
3.0    
3.3    
3.7    
4.0    
4.3    
4.7    
5.0    
5.3    
5.7    
6.0    
6.3    
6.7    
7.0    
7.3    
7.7    
8.0    
8.3    
8.7    
9.0    
9.3    
9.7    
10.0    
10.3    
10.7    
11.0    
11.3    
11.7    
12.0    
12.3    
12.7    
13.0    
13.3    
13.7    
14.0    
14.3    
14.7    
15.0    
15.3    
15.7    
16.0    
16.3    
16.7    
17.0    
17.3    
17.7    
18.0    
18.3    
18.7    
19.0    
19.3    
19.7    
20.0    
20.3    
20.7    
21.0    
21.3    
21.7    
22.0    
22.3    
22.7    
23.0    
23.3    
23.7    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.3    
26.7    
27.0    
27.3    
27.7    
28.0    
28.3    
28.7    
29.0    
29.3    
29.7    
30.0    
30.3    
30.7    
31.0    
31.3    
31.7    
32.0    
32.3    
32.7    
33.0    
33.3    
33.7    
34.0    
34.3    
34.7    
35.0    
35.3    
35.7    
36.0    
36.3    
36.7    
37.0    
37.3    
37.7    
38.0    
38.3    
38.7    
39.0    
39.3    
39.7    
40.0    
40.3    
40.7    
41.0    
41.3    
41.7    
42.0    
42.3    
42.7    
43.0    
43.3    
43.7    
44.0    
44.3    
44.7    
45.0    
45.3    
45.7    
46.0    
46.3    
46.7    
47.0    
47.3    
47.7    
48.0    
48.3    
48.7    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.3    
51.7    
52.0    
52.3    
52.7    
53.0    
53.3    
53.7    
54.0    
54.3    
54.7    
55.0    
55.3    
55.7    
56.0    
56.3    
56.7    
57.0    
57.3    
57.7    
58.0    
58.3    
58.7    
59.0    
59.3    
59.7    
60.0    
60.3    
60.7    
61.0    
61.3    
61.7    
62.0    
62.3    
62.7    
63.0    
63.3    
63.7    
64.0    
64.3    
64.7    
65.0    
65.3    
65.7    
66.0    
66.3    
66.7    
67.0    
67.3    
67.7    
68.0    
68.3    
68.7    
69.0    
69.3    
69.7    
70.0    
70.3    
70.7    
71.0    
71.3    
71.7    
72.0    
72.3    
72.7    
73.0    
73.3    
73.7    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.3    
76.7    
77.0    
77.3    
77.7    
78.0    
78.3    
78.7    
79.0    
79.3    
79.7    
80.0    
80.3    
80.7    
81.0    
81.3    
81.7    
82.0    
82.3    
82.7    
83.0    
83.3    
83.7    
84.0    
84.3    
84.7    
85.0    
85.3    
85.7    
86.0    
86.3    
86.7    
87.0    
87.3    
87.7    
88.0    
88.3    
88.7    
89.0    
89.3    
89.7    
90.0    
90.3    
90.7    
91.0    
91.3    
91.7    
92.0    
92.3    
92.7    
93.0    
93.3    
93.7    
94.0    
94.3    
94.7    
95.0    
95.3    
95.7    
96.0    
96.3    
96.7    
97.0    
97.3    
97.7    
98.0    
98.3    
98.7    
99.0    
99.3    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 35099, rend_intergenic: 24045  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51767, rend_intergenic: 50695  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56685, rend_intergenic: 52963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69224, rend_intergenic: 57439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90980, rend_intergenic: 84940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100882, rend_intergenic: 95403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109472, rend_intergenic: 106398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139225, rend_intergenic: 123408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156040, rend_intergenic: 140167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164371, rend_intergenic: 161037  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165164, rend_intergenic: 164477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168996, rend_intergenic: 165347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179984, rend_intergenic: 169001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190585, rend_intergenic: 186915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support