-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_19/scaffold_19_2563270-2727785

-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.g29048.t1
Valid prediction for GlimmerHMM_glimmerT_43764-T1
Valid prediction for CodingQuarry_transcript_25604-T1
Valid prediction for snap_scaffold_19-snap.574-T1
Valid prediction for snap_scaffold_19-snap.555-T1
Valid prediction for GlimmerHMM_glimmerT_43755-T1
Valid prediction for GlimmerHMM_glimmerT_43757-T1
Valid prediction for GlimmerHMM_glimmerT_43753-T1
Valid prediction for snap_scaffold_19-snap.591-T1
Valid prediction for GlimmerHMM_glimmerT_43772-T1
Valid prediction for snap_scaffold_19-snap.589-T1
Valid prediction for Augustus_model.g29038.t1
Valid prediction for snap_scaffold_19-snap.558-T1
Valid prediction for snap_scaffold_19-snap.548-T1
Valid prediction for GlimmerHMM_glimmerT_43761-T1
Valid prediction for Augustus_model.g29040.t1
Couldn't classify 126572, 126637
Sorry, prediction pasa_asmbl_21271.p2 fails validation.
(GTG)	 TG	126572-126637	GT	GGG
(GTC)	 AG	129473-129528	GT	AGG
(GAT)	 AG	131046-131077	GT	AGG
(TTC)	 AG	132046-132130	GT	ACG
(TCA)	 AG	132583-132709	AG	GAA
-recovered pasa_asmbl_21271.p2, terminal, 132583, 132709
-recovered pasa_asmbl_21271.p2, internal, 129473, 129528
-recovered pasa_asmbl_21271.p2, internal, 131046, 131077
-recovered pasa_asmbl_21271.p2, internal, 132046, 132130
Valid prediction for GlimmerHMM_glimmerT_43756-T1
Valid prediction for snap_scaffold_19-snap.569-T1
Valid prediction for snap_scaffold_19-snap.562-T1
Valid prediction for snap_scaffold_19-snap.560-T1
Valid prediction for snap_scaffold_19-snap.565-T1
Valid prediction for snap_scaffold_19-snap.586-T1
Couldn't classify 119289, 119648
Sorry, prediction pasa_asmbl_21270.p1 fails validation.
(ATG)	 CT	119289-119648	GG	TCG
Valid prediction for GlimmerHMM_glimmerT_43770-T1
Valid prediction for GlimmerHMM_glimmerT_43767-T1
Valid prediction for snap_scaffold_19-snap.575-T1
Valid prediction for snap_scaffold_19-snap.580-T1
Valid prediction for snap_scaffold_19-snap.579-T1
Valid prediction for GlimmerHMM_glimmerT_43768-T1
Valid prediction for Augustus_model.g29046.t1
Valid prediction for Augustus_model.g29043.t1
Valid prediction for GlimmerHMM_glimmerT_43773-T1
Valid prediction for GlimmerHMM_glimmerT_43766-T1
Valid prediction for HiQ_model.g29044.t1
Valid prediction for GlimmerHMM_glimmerT_43750-T1
Valid prediction for snap_scaffold_19-snap.550-T1
Valid prediction for Augustus_model.g29049.t1
Valid prediction for GlimmerHMM_glimmerT_43758-T1
Valid prediction for pasa_asmbl_21269.p2
Valid prediction for snap_scaffold_19-snap.551-T1
Valid prediction for GlimmerHMM_glimmerT_43771-T1
Valid prediction for snap_scaffold_19-snap.567-T1
Valid prediction for snap_scaffold_19-snap.572-T1
Valid prediction for GlimmerHMM_glimmerT_43763-T1
Valid prediction for GlimmerHMM_glimmerT_43751-T1
Valid prediction for Augustus_model.g29052.t1
Valid prediction for Augustus_model.g29042.t1
Valid prediction for snap_scaffold_19-snap.557-T1
Valid prediction for snap_scaffold_19-snap.588-T1
Valid prediction for Augustus_model.g29041.t1
Valid prediction for Augustus_model.g29047.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_19-snap.583-T1
Valid prediction for snap_scaffold_19-snap.556-T1
Valid prediction for snap_scaffold_19-snap.553-T1
Valid prediction for GlimmerHMM_glimmerT_43759-T1
Valid prediction for GlimmerHMM_glimmerT_43769-T1
Valid prediction for snap_scaffold_19-snap.564-T1
Valid prediction for snap_scaffold_19-snap.563-T1
Valid prediction for snap_scaffold_19-snap.568-T1
Valid prediction for Augustus_model.g29050.t1
Valid prediction for snap_scaffold_19-snap.570-T1
Valid prediction for pasa_asmbl_22059.p1
Couldn't classify 11368, 11478
Couldn't classify 13674, 13759
Sorry, prediction pasa_asmbl_22064.p1 fails validation.
(GAT)	 CA	11368-11478	GT	AGG
(AAT)	 AG	11665-11751	GT	AGG
(GAT)	 AG	12952-13195	GT	AGG
(TTT)	 AG	13674-13759	GT	AGG
-recovered pasa_asmbl_22064.p1, internal, 11665, 11751
-recovered pasa_asmbl_22064.p1, internal, 12952, 13195
-recovered pasa_asmbl_22064.p1, internal, 13674, 13759
Valid prediction for snap_scaffold_19-snap.582-T1
Valid prediction for GlimmerHMM_glimmerT_43752-T1
Valid prediction for snap_scaffold_19-snap.571-T1
Valid prediction for GlimmerHMM_glimmerT_43754-T1
Valid prediction for snap_scaffold_19-snap.549-T1
Valid prediction for snap_scaffold_19-snap.584-T1
Valid prediction for snap_scaffold_19-snap.585-T1
Valid prediction for snap_scaffold_19-snap.577-T1
Valid prediction for snap_scaffold_19-snap.561-T1
Valid prediction for CodingQuarry_transcript_25605-T1
Valid prediction for Augustus_model.g29039.t1
Valid prediction for snap_scaffold_19-snap.581-T1
Valid prediction for GlimmerHMM_glimmerT_43762-T1
Valid prediction for HiQ_model.g29045.t1
Valid prediction for GlimmerHMM_glimmerT_43760-T1
Valid prediction for snap_scaffold_19-snap.566-T1
Valid prediction for snap_scaffold_19-snap.573-T1
Valid prediction for snap_scaffold_19-snap.578-T1
Valid prediction for snap_scaffold_19-snap.587-T1
Valid prediction for snap_scaffold_19-snap.554-T1
Valid prediction for Augustus_model.g29051.t1
Valid prediction for snap_scaffold_19-snap.559-T1
Valid prediction for GlimmerHMM_glimmerT_43765-T1
Valid prediction for snap_scaffold_19-snap.552-T1
Valid prediction for snap_scaffold_19-snap.576-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4804, rend_intergenic: 3957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19562, rend_intergenic: 9044  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23864, rend_intergenic: 21306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27371, rend_intergenic: 23945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44304, rend_intergenic: 42466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51232, rend_intergenic: 48275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62368, rend_intergenic: 53064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63272, rend_intergenic: 62637  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65879, rend_intergenic: 63439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68306, rend_intergenic: 66749  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77986, rend_intergenic: 77607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79774, rend_intergenic: 77990  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118587, rend_intergenic: 104780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137136, rend_intergenic: 122608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140694, rend_intergenic: 140531  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146495, rend_intergenic: 141717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154284, rend_intergenic: 146664  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 164516
-exon list size: 335


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.9    
4.2    
4.5    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.1    
10.4    
10.7    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.4    
13.6    
13.9    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.4    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.6    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.4    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
47.8    
48.1    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.9    
52.2    
52.5    
52.8    
53.1    
53.4    
53.7    
54.0    
54.3    
54.6    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
59.3    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.3    
73.6    
73.9    
74.2    
74.5    
74.8    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.3    
81.6    
81.9    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.1    
86.4    
86.6    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.6    
89.9    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 4804, rend_intergenic: 3957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19562, rend_intergenic: 9044  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23864, rend_intergenic: 21306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27371, rend_intergenic: 23945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44304, rend_intergenic: 42466  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51232, rend_intergenic: 48275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62368, rend_intergenic: 53064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63272, rend_intergenic: 62637  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65879, rend_intergenic: 63439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68306, rend_intergenic: 66749  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77986, rend_intergenic: 77607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79774, rend_intergenic: 77990  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118587, rend_intergenic: 104780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137136, rend_intergenic: 122608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140694, rend_intergenic: 140531  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146495, rend_intergenic: 141717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154284, rend_intergenic: 146664  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