-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_9/scaffold_9_14277367-14474496

-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.g15537.t1
Valid prediction for snap_scaffold_9-snap.2864-T1
Valid prediction for snap_scaffold_9-snap.2882-T1
Valid prediction for Augustus_model.g15539.t1
Valid prediction for GlimmerHMM_glimmerT_23318-T1
Valid prediction for snap_scaffold_9-snap.2891-T1
Valid prediction for snap_scaffold_9-snap.2887-T1
Valid prediction for GlimmerHMM_glimmerT_23332-T1
Valid prediction for GlimmerHMM_glimmerT_23313-T1
Valid prediction for pasa_asmbl_54531.p1
Valid prediction for GlimmerHMM_glimmerT_23322-T1
Valid prediction for Augustus_model.g15531.t1
Valid prediction for snap_scaffold_9-snap.2902-T1
Valid prediction for snap_scaffold_9-snap.2899-T1
Valid prediction for Augustus_model.g15538.t1
Valid prediction for Augustus_model.g15535.t1
Valid prediction for GlimmerHMM_glimmerT_23319-T1
Valid prediction for snap_scaffold_9-snap.2888-T1
Valid prediction for snap_scaffold_9-snap.2905-T1
Valid prediction for GlimmerHMM_glimmerT_23306-T1
Valid prediction for Augustus_model.g15529.t1
Valid prediction for snap_scaffold_9-snap.2897-T1
Valid prediction for GlimmerHMM_glimmerT_23310-T1
Valid prediction for snap_scaffold_9-snap.2870-T1
Valid prediction for snap_scaffold_9-snap.2895-T1
Valid prediction for GlimmerHMM_glimmerT_23303-T1
Valid prediction for HiQ_model.g15523.t1
Valid prediction for snap_scaffold_9-snap.2893-T1
Valid prediction for Augustus_model.g15542.t1
Valid prediction for snap_scaffold_9-snap.2878-T1
Valid prediction for snap_scaffold_9-snap.2890-T1
Valid prediction for GlimmerHMM_glimmerT_23335-T1
Valid prediction for GlimmerHMM_glimmerT_23333-T1
Valid prediction for GlimmerHMM_glimmerT_23326-T1
Valid prediction for CodingQuarry_transcript_62400-T1
Valid prediction for GlimmerHMM_glimmerT_23323-T1
Valid prediction for Augustus_model.g15540.t1
Valid prediction for snap_scaffold_9-snap.2884-T1
Valid prediction for Augustus_model.g15543.t1
Valid prediction for snap_scaffold_9-snap.2912-T1
Valid prediction for GlimmerHMM_glimmerT_23320-T1
Valid prediction for snap_scaffold_9-snap.2909-T1
Valid prediction for GlimmerHMM_glimmerT_23321-T1
Valid prediction for snap_scaffold_9-snap.2874-T1
Valid prediction for snap_scaffold_9-snap.2880-T1
Valid prediction for snap_scaffold_9-snap.2862-T1
Valid prediction for GlimmerHMM_glimmerT_23330-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_23302-T1
Valid prediction for GlimmerHMM_glimmerT_23309-T1
Valid prediction for snap_scaffold_9-snap.2872-T1
Valid prediction for snap_scaffold_9-snap.2901-T1
Valid prediction for snap_scaffold_9-snap.2896-T1
Valid prediction for snap_scaffold_9-snap.2865-T1
Valid prediction for GlimmerHMM_glimmerT_23304-T1
Valid prediction for snap_scaffold_9-snap.2873-T1
Valid prediction for GlimmerHMM_glimmerT_23305-T1
Valid prediction for snap_scaffold_9-snap.2908-T1
Valid prediction for Augustus_model.g15527.t1
Valid prediction for snap_scaffold_9-snap.2913-T1
Valid prediction for snap_scaffold_9-snap.2889-T1
Valid prediction for snap_scaffold_9-snap.2898-T1
Valid prediction for pasa_asmbl_55478.p1
Valid prediction for snap_scaffold_9-snap.2881-T1
Valid prediction for Augustus_model.g15524.t1
Valid prediction for snap_scaffold_9-snap.2868-T1
Valid prediction for snap_scaffold_9-snap.2863-T1
Valid prediction for GlimmerHMM_glimmerT_23324-T1
Valid prediction for Augustus_model.g15532.t1
Valid prediction for snap_scaffold_9-snap.2885-T1
Valid prediction for GlimmerHMM_glimmerT_23307-T1
Valid prediction for snap_scaffold_9-snap.2877-T1
Valid prediction for snap_scaffold_9-snap.2886-T1
Valid prediction for Augustus_model.g15526.t1
Valid prediction for snap_scaffold_9-snap.2892-T1
Valid prediction for snap_scaffold_9-snap.2907-T1
Valid prediction for snap_scaffold_9-snap.2879-T1
Valid prediction for snap_scaffold_9-snap.2906-T1
Valid prediction for Augustus_model.g15534.t1
Valid prediction for GlimmerHMM_glimmerT_23329-T1
Valid prediction for snap_scaffold_9-snap.2875-T1
Valid prediction for snap_scaffold_9-snap.2910-T1
Valid prediction for GlimmerHMM_glimmerT_23316-T1
Valid prediction for snap_scaffold_9-snap.2867-T1
Valid prediction for Augustus_model.g15536.t1
Valid prediction for Augustus_model.g15525.t1
Valid prediction for GlimmerHMM_glimmerT_23317-T1
Valid prediction for snap_scaffold_9-snap.2876-T1
Valid prediction for Augustus_model.g15533.t1
Valid prediction for Augustus_model.g15530.t1
Valid prediction for Augustus_model.g15528.t1
Valid prediction for CodingQuarry_transcript_62401-T1
Valid prediction for snap_scaffold_9-snap.2904-T1
Valid prediction for CodingQuarry_transcript_62402-T1
Valid prediction for snap_scaffold_9-snap.2869-T1
Valid prediction for snap_scaffold_9-snap.2883-T1
Valid prediction for GlimmerHMM_glimmerT_23308-T1
Valid prediction for GlimmerHMM_glimmerT_23331-T1
Valid prediction for GlimmerHMM_glimmerT_23314-T1
Valid prediction for snap_scaffold_9-snap.2900-T1
Valid prediction for GlimmerHMM_glimmerT_23311-T1
Valid prediction for GlimmerHMM_glimmerT_23301-T1
Valid prediction for snap_scaffold_9-snap.2903-T1
Valid prediction for snap_scaffold_9-snap.2894-T1
Valid prediction for Augustus_model.g15541.t1
Valid prediction for GlimmerHMM_glimmerT_23334-T1
Valid prediction for snap_scaffold_9-snap.2911-T1
Valid prediction for GlimmerHMM_glimmerT_23315-T1
Valid prediction for GlimmerHMM_glimmerT_23325-T1
Valid prediction for GlimmerHMM_glimmerT_23328-T1
Valid prediction for snap_scaffold_9-snap.2866-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_23327-T1
Valid prediction for GlimmerHMM_glimmerT_23312-T1
Valid prediction for snap_scaffold_9-snap.2871-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7058, rend_intergenic: 4277  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21426, rend_intergenic: 7705  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32915, rend_intergenic: 27542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35345, rend_intergenic: 33512  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55842, rend_intergenic: 52689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65470, rend_intergenic: 63132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71731, rend_intergenic: 65672  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74607, rend_intergenic: 72702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80000, rend_intergenic: 76806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81408, rend_intergenic: 80449  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110826, rend_intergenic: 98334  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144966, rend_intergenic: 133874  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152105, rend_intergenic: 146126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153899, rend_intergenic: 153128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159702, rend_intergenic: 153931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170388, rend_intergenic: 164454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172695, rend_intergenic: 171946  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179505, rend_intergenic: 173313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184705, rend_intergenic: 183320  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188251, rend_intergenic: 185711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189285, rend_intergenic: 188603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191386, rend_intergenic: 189570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 197130
-exon list size: 334


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    
4.8    
5.1    
5.4    
5.7    
6.0    
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    
13.7    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.8    
16.1    
16.4    
16.7    
17.0    
17.3    
17.6    
17.9    
18.2    
18.5    
18.8    
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    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
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    
81.2    
81.5    
81.8    
82.1    
82.4    
82.7    
83.0    
83.3    
83.6    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.3    
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    
94.0    
94.3    
94.6    
94.9    
95.2    
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 42 predictions from path traversal
Error with prediction: snap lend_intergenic: 7058, rend_intergenic: 4277  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21426, rend_intergenic: 7705  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32915, rend_intergenic: 27542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35345, rend_intergenic: 33512  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55842, rend_intergenic: 52689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65470, rend_intergenic: 63132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71731, rend_intergenic: 65672  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74607, rend_intergenic: 72702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80000, rend_intergenic: 76806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81408, rend_intergenic: 80449  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110826, rend_intergenic: 98334  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144966, rend_intergenic: 133874  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152105, rend_intergenic: 146126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153899, rend_intergenic: 153128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159702, rend_intergenic: 153931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170388, rend_intergenic: 164454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172695, rend_intergenic: 171946  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179505, rend_intergenic: 173313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184705, rend_intergenic: 183320  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188251, rend_intergenic: 185711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189285, rend_intergenic: 188603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191386, rend_intergenic: 189570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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