-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_1305740-1513723

-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_26517-T1
Valid prediction for snap_scaffold_11-snap.345-T1
Valid prediction for GlimmerHMM_glimmerT_26498-T1
Valid prediction for GlimmerHMM_glimmerT_26503-T1
Valid prediction for snap_scaffold_11-snap.358-T1
Valid prediction for GlimmerHMM_glimmerT_26509-T1
Valid prediction for snap_scaffold_11-snap.321-T1
Valid prediction for snap_scaffold_11-snap.329-T1
Valid prediction for snap_scaffold_11-snap.313-T1
Valid prediction for snap_scaffold_11-snap.316-T1
Valid prediction for snap_scaffold_11-snap.356-T1
Valid prediction for snap_scaffold_11-snap.351-T1
Valid prediction for snap_scaffold_11-snap.340-T1
Valid prediction for GlimmerHMM_glimmerT_26508-T1
Valid prediction for snap_scaffold_11-snap.333-T1
Valid prediction for snap_scaffold_11-snap.312-T1
Valid prediction for Augustus_model.g17561.t1
Valid prediction for Augustus_model.g17562.t1
Valid prediction for GlimmerHMM_glimmerT_26505-T1
Valid prediction for snap_scaffold_11-snap.357-T1
Valid prediction for snap_scaffold_11-snap.318-T1
Valid prediction for GlimmerHMM_glimmerT_26522-T1
Valid prediction for snap_scaffold_11-snap.344-T1
Valid prediction for snap_scaffold_11-snap.331-T1
Valid prediction for GlimmerHMM_glimmerT_26507-T1
Valid prediction for snap_scaffold_11-snap.354-T1
Valid prediction for snap_scaffold_11-snap.355-T1
Valid prediction for GlimmerHMM_glimmerT_26519-T1
Valid prediction for GlimmerHMM_glimmerT_26520-T1
Valid prediction for snap_scaffold_11-snap.348-T1
Valid prediction for snap_scaffold_11-snap.327-T1
Valid prediction for snap_scaffold_11-snap.320-T1
Valid prediction for GlimmerHMM_glimmerT_26515-T1
Valid prediction for GlimmerHMM_glimmerT_26494-T1
Valid prediction for snap_scaffold_11-snap.325-T1
Valid prediction for GlimmerHMM_glimmerT_26502-T1
Valid prediction for snap_scaffold_11-snap.335-T1
Valid prediction for snap_scaffold_11-snap.311-T1
Valid prediction for snap_scaffold_11-snap.338-T1
Valid prediction for GlimmerHMM_glimmerT_26523-T1
Valid prediction for Augustus_model.g17560.t1
Valid prediction for snap_scaffold_11-snap.315-T1
Valid prediction for snap_scaffold_11-snap.342-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_11-snap.347-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_26513-T1
Valid prediction for GlimmerHMM_glimmerT_26497-T1
Valid prediction for Augustus_model.g17568.t1
Valid prediction for HiQ_model.g17564.t1
Valid prediction for GlimmerHMM_glimmerT_26512-T1
Valid prediction for snap_scaffold_11-snap.322-T1
Valid prediction for snap_scaffold_11-snap.310-T1
Valid prediction for snap_scaffold_11-snap.307-T1
Valid prediction for GlimmerHMM_glimmerT_26518-T1
Valid prediction for snap_scaffold_11-snap.341-T1
Valid prediction for snap_scaffold_11-snap.343-T1
Valid prediction for Augustus_model.g17566.t1
Valid prediction for GlimmerHMM_glimmerT_26516-T1
Valid prediction for pasa_asmbl_6429.p1
Valid prediction for Augustus_model.g17570.t1
Valid prediction for snap_scaffold_11-snap.308-T1
Valid prediction for snap_scaffold_11-snap.317-T1
Valid prediction for snap_scaffold_11-snap.353-T1
Valid prediction for snap_scaffold_11-snap.324-T1
Valid prediction for snap_scaffold_11-snap.336-T1
Valid prediction for snap_scaffold_11-snap.350-T1
Valid prediction for snap_scaffold_11-snap.326-T1
Valid prediction for Augustus_model.g17559.t1
Valid prediction for GlimmerHMM_glimmerT_26496-T1
Valid prediction for GlimmerHMM_glimmerT_26504-T1
Valid prediction for GlimmerHMM_glimmerT_26506-T1
Valid prediction for Augustus_model.g17563.t1
Valid prediction for GlimmerHMM_glimmerT_26510-T1
Valid prediction for snap_scaffold_11-snap.330-T1
Valid prediction for CodingQuarry_transcript_7971-T1
Valid prediction for Augustus_model.g17569.t1
Valid prediction for snap_scaffold_11-snap.332-T1
Valid prediction for HiQ_model.g17557.t1
Valid prediction for CodingQuarry_transcript_7972-T1
Valid prediction for GlimmerHMM_glimmerT_26521-T1
Valid prediction for Augustus_model.g17558.t1
Valid prediction for GlimmerHMM_glimmerT_26499-T1
Valid prediction for snap_scaffold_11-snap.339-T1
Valid prediction for GlimmerHMM_glimmerT_26514-T1
Valid prediction for snap_scaffold_11-snap.323-T1
Valid prediction for HiQ_model.g17565.t1
Valid prediction for snap_scaffold_11-snap.349-T1
Valid prediction for snap_scaffold_11-snap.328-T1
Valid prediction for Augustus_model.g17567.t1
Valid prediction for snap_scaffold_11-snap.309-T1
Valid prediction for snap_scaffold_11-snap.334-T1
Valid prediction for GlimmerHMM_glimmerT_26500-T1
Valid prediction for snap_scaffold_11-snap.306-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_11-snap.346-T1
Valid prediction for snap_scaffold_11-snap.304-T1
Valid prediction for GlimmerHMM_glimmerT_26493-T1
Valid prediction for GlimmerHMM_glimmerT_26511-T1
Valid prediction for snap_scaffold_11-snap.314-T1
Valid prediction for snap_scaffold_11-snap.352-T1
Valid prediction for pasa_asmbl_6431.p1
Valid prediction for snap_scaffold_11-snap.305-T1
Valid prediction for GlimmerHMM_glimmerT_26495-T1
Valid prediction for snap_scaffold_11-snap.337-T1
Valid prediction for snap_scaffold_11-snap.319-T1
Valid prediction for GlimmerHMM_glimmerT_26501-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 32372, rend_intergenic: 27541  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38174, rend_intergenic: 35516  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43276, rend_intergenic: 39800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52102, rend_intergenic: 49209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82827, rend_intergenic: 79272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83659, rend_intergenic: 83621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87042, rend_intergenic: 84034  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110538, rend_intergenic: 106068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111718, rend_intergenic: 110592  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114993, rend_intergenic: 111872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123496, rend_intergenic: 118669  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131380, rend_intergenic: 129481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131703, rend_intergenic: 131591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146068, rend_intergenic: 137671  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152992, rend_intergenic: 149875  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153329, rend_intergenic: 153050  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168602, rend_intergenic: 154420  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169935, rend_intergenic: 168651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176887, rend_intergenic: 173248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178197, rend_intergenic: 177873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184210, rend_intergenic: 180316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185647, rend_intergenic: 184296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203789, rend_intergenic: 187861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 207984
-exon list size: 402


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.5    
1.7    
2.0    
2.2    
2.5    
2.7    
3.0    
3.2    
3.5    
3.7    
4.0    
4.2    
4.5    
4.7    
5.0    
5.2    
5.4    
5.7    
5.9    
6.2    
6.4    
6.7    
6.9    
7.2    
7.4    
7.7    
7.9    
8.2    
8.4    
8.7    
8.9    
9.2    
9.4    
9.7    
9.9    
10.1    
10.4    
10.6    
10.9    
11.1    
11.4    
11.6    
11.9    
12.1    
12.4    
12.6    
12.9    
13.1    
13.4    
13.6    
13.9    
14.1    
14.4    
14.6    
14.9    
15.1    
15.3    
15.6    
15.8    
16.1    
16.3    
16.6    
16.8    
17.1    
17.3    
17.6    
17.8    
18.1    
18.3    
18.6    
18.8    
19.1    
19.3    
19.6    
19.8    
20.0    
20.3    
20.5    
20.8    
21.0    
21.3    
21.5    
21.8    
22.0    
22.3    
22.5    
22.8    
23.0    
23.3    
23.5    
23.8    
24.0    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
26.0    
26.2    
26.5    
26.7    
27.0    
27.2    
27.5    
27.7    
28.0    
28.2    
28.5    
28.7    
29.0    
29.2    
29.5    
29.7    
30.0    
30.2    
30.4    
30.7    
30.9    
31.2    
31.4    
31.7    
31.9    
32.2    
32.4    
32.7    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.4    
34.7    
34.9    
35.1    
35.4    
35.6    
35.9    
36.1    
36.4    
36.6    
36.9    
37.1    
37.4    
37.6    
37.9    
38.1    
38.4    
38.6    
38.9    
39.1    
39.4    
39.6    
39.9    
40.1    
40.3    
40.6    
40.8    
41.1    
41.3    
41.6    
41.8    
42.1    
42.3    
42.6    
42.8    
43.1    
43.3    
43.6    
43.8    
44.1    
44.3    
44.6    
44.8    
45.0    
45.3    
45.5    
45.8    
46.0    
46.3    
46.5    
46.8    
47.0    
47.3    
47.5    
47.8    
48.0    
48.3    
48.5    
48.8    
49.0    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
51.0    
51.2    
51.5    
51.7    
52.0    
52.2    
52.5    
52.7    
53.0    
53.2    
53.5    
53.7    
54.0    
54.2    
54.5    
54.7    
55.0    
55.2    
55.4    
55.7    
55.9    
56.2    
56.4    
56.7    
56.9    
57.2    
57.4    
57.7    
57.9    
58.2    
58.4    
58.7    
58.9    
59.2    
59.4    
59.7    
59.9    
60.1    
60.4    
60.6    
60.9    
61.1    
61.4    
61.6    
61.9    
62.1    
62.4    
62.6    
62.9    
63.1    
63.4    
63.6    
63.9    
64.1    
64.4    
64.6    
64.9    
65.1    
65.3    
65.6    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.3    
67.6    
67.8    
68.1    
68.3    
68.6    
68.8    
69.1    
69.3    
69.6    
69.8    
70.0    
70.3    
70.5    
70.8    
71.0    
71.3    
71.5    
71.8    
72.0    
72.3    
72.5    
72.8    
73.0    
73.3    
73.5    
73.8    
74.0    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
76.0    
76.2    
76.5    
76.7    
77.0    
77.2    
77.5    
77.7    
78.0    
78.2    
78.5    
78.7    
79.0    
79.2    
79.5    
79.7    
80.0    
80.2    
80.4    
80.7    
80.9    
81.2    
81.4    
81.7    
81.9    
82.2    
82.4    
82.7    
82.9    
83.2    
83.4    
83.7    
83.9    
84.2    
84.4    
84.7    
84.9    
85.1    
85.4    
85.6    
85.9    
86.1    
86.4    
86.6    
86.9    
87.1    
87.4    
87.6    
87.9    
88.1    
88.4    
88.6    
88.9    
89.1    
89.4    
89.6    
89.9    
90.1    
90.3    
90.6    
90.8    
91.1    
91.3    
91.6    
91.8    
92.1    
92.3    
92.6    
92.8    
93.1    
93.3    
93.6    
93.8    
94.1    
94.3    
94.6    
94.8    
95.0    
95.3    
95.5    
95.8    
96.0    
96.3    
96.5    
96.8    
97.0    
97.3    
97.5    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 32372, rend_intergenic: 27541  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38174, rend_intergenic: 35516  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43276, rend_intergenic: 39800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52102, rend_intergenic: 49209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82827, rend_intergenic: 79272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83659, rend_intergenic: 83621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87042, rend_intergenic: 84034  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110538, rend_intergenic: 106068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111718, rend_intergenic: 110592  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114993, rend_intergenic: 111872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123496, rend_intergenic: 118669  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131380, rend_intergenic: 129481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131703, rend_intergenic: 131591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146068, rend_intergenic: 137671  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152992, rend_intergenic: 149875  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153329, rend_intergenic: 153050  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168602, rend_intergenic: 154420  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169935, rend_intergenic: 168651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176887, rend_intergenic: 173248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178197, rend_intergenic: 177873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184210, rend_intergenic: 180316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185647, rend_intergenic: 184296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203789, rend_intergenic: 187861  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