-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_10/scaffold_10_13986362-14126044

-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 GeneMark_model.45142_t
Valid prediction for GeneMark_model.45150_t
Valid prediction for GeneMark_model.45131_t
Valid prediction for GlimmerHMM_glimmerT_26328-T1
Couldn't classify 10753, 10827
Sorry, prediction pasa_asmbl_4909.p1 fails validation.
(ATG)	 AC	2154-2178	GT	AGG
(AGT)	 AG	2619-2669	GT	TGG
(GTA)	 AG	2925-3008	GT	GGG
(AGG)	 AG	3705-3801	GT	AGG
(GAA)	 AG	4095-4296	GT	ACG
(AAT)	 AG	5542-5601	GT	TAG
(GTG)	 AG	5876-6009	GT	TGG
(CCA)	 AG	8397-8550	GT	AGG
(GGT)	 AG	10753-10827	GG	ACG
-recovered pasa_asmbl_4909.p1, initial, 2154, 2178
-recovered pasa_asmbl_4909.p1, internal, 2619, 2669
-recovered pasa_asmbl_4909.p1, internal, 2925, 3008
-recovered pasa_asmbl_4909.p1, internal, 3705, 3801
-recovered pasa_asmbl_4909.p1, internal, 4095, 4296
-recovered pasa_asmbl_4909.p1, internal, 5542, 5601
-recovered pasa_asmbl_4909.p1, internal, 5876, 6009
-recovered pasa_asmbl_4909.p1, internal, 8397, 8550
Valid prediction for GeneMark_model.45144_t
Valid prediction for GlimmerHMM_glimmerT_26321-T1
Valid prediction for GeneMark_model.45130_t
Valid prediction for GeneMark_model.45132_t
Valid prediction for GlimmerHMM_glimmerT_26335-T1
Valid prediction for GlimmerHMM_glimmerT_26330-T1
Valid prediction for GlimmerHMM_glimmerT_26327-T1
Valid prediction for snap_scaffold_10-snap.2809-T1
Valid prediction for GeneMark_model.45119_t
Valid prediction for GlimmerHMM_glimmerT_26332-T1
Valid prediction for GeneMark_model.45124_t
Valid prediction for GeneMark_model.45147_t
Valid prediction for GeneMark_model.45157_t
Valid prediction for GeneMark_model.45140_t
Valid prediction for snap_scaffold_10-snap.2799-T1
Valid prediction for GlimmerHMM_glimmerT_26334-T1
Valid prediction for GeneMark_model.45155_t
Valid prediction for snap_scaffold_10-snap.2792-T1
Valid prediction for GlimmerHMM_glimmerT_26336-T1
Valid prediction for snap_scaffold_10-snap.2784-T1
Valid prediction for GeneMark_model.45129_t
Valid prediction for Augustus_model.g17680.t1
Valid prediction for snap_scaffold_10-snap.2805-T1
Valid prediction for Augustus_model.g17678.t1
Valid prediction for Augustus_model.g17671.t1
Valid prediction for snap_scaffold_10-snap.2819-T1
Valid prediction for snap_scaffold_10-snap.2810-T1
Valid prediction for GeneMark_model.45134_t
Valid prediction for GeneMark_model.45161_t
Valid prediction for GeneMark_model.45146_t
Valid prediction for GeneMark_model.45139_t
Valid prediction for snap_scaffold_10-snap.2817-T1
Valid prediction for Augustus_model.g17673.t1
Valid prediction for snap_scaffold_10-snap.2797-T1
Valid prediction for GeneMark_model.45154_t
Valid prediction for snap_scaffold_10-snap.2796-T1
Valid prediction for snap_scaffold_10-snap.2807-T1
Valid prediction for GlimmerHMM_glimmerT_26326-T1
Valid prediction for GeneMark_model.45121_t
Valid prediction for GeneMark_model.45127_t
Valid prediction for GeneMark_model.45159_t
Valid prediction for GlimmerHMM_glimmerT_26324-T1
Valid prediction for snap_scaffold_10-snap.2801-T1
Valid prediction for GeneMark_model.45152_t
Valid prediction for GeneMark_model.45149_t
Valid prediction for Augustus_model.g17674.t1
Valid prediction for Augustus_model.g17675.t1
Valid prediction for GeneMark_model.45137_t
Couldn't classify 30633, 30732
Couldn't classify 31900, 32038
Sorry, prediction pasa_asmbl_5146.p1 fails validation.
(GTC)	 AG	30633-30732	GT	AGG
(GTG)	 AG	31545-31629	GT	ATG
(GAC)	 AG	31900-32038	GT	CGG
-recovered pasa_asmbl_5146.p1, internal, 30633, 30732
-recovered pasa_asmbl_5146.p1, internal, 31545, 31629
-recovered pasa_asmbl_5146.p1, internal, 31900, 32038
Valid prediction for snap_scaffold_10-snap.2816-T1
Valid prediction for GeneMark_model.45156_t
Valid prediction for Augustus_model.g17681.t1
Valid prediction for snap_scaffold_10-snap.2788-T1
Valid prediction for GeneMark_model.45125_t

-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 Augustus_model.g17677.t1
Valid prediction for GlimmerHMM_glimmerT_26338-T1
Valid prediction for GeneMark_model.45143_t
Valid prediction for snap_scaffold_10-snap.2804-T1
Valid prediction for snap_scaffold_10-snap.2820-T1
Valid prediction for GeneMark_model.45122_t
Valid prediction for GlimmerHMM_glimmerT_26331-T1
Valid prediction for GeneMark_model.45118_t
Valid prediction for snap_scaffold_10-snap.2791-T1
Valid prediction for GeneMark_model.45151_t
Valid prediction for GeneMark_model.45153_t
Valid prediction for snap_scaffold_10-snap.2787-T1
Valid prediction for Augustus_model.g17672.t1
Valid prediction for GeneMark_model.45133_t
Valid prediction for snap_scaffold_10-snap.2811-T1
Valid prediction for Augustus_model.g17679.t1
Valid prediction for snap_scaffold_10-snap.2818-T1
Valid prediction for snap_scaffold_10-snap.2789-T1
Valid prediction for snap_scaffold_10-snap.2808-T1
Valid prediction for GlimmerHMM_glimmerT_26322-T1
Valid prediction for snap_scaffold_10-snap.2812-T1
Valid prediction for GeneMark_model.45160_t
Valid prediction for GlimmerHMM_glimmerT_26325-T1
Valid prediction for GeneMark_model.45141_t
Valid prediction for snap_scaffold_10-snap.2795-T1
Valid prediction for GeneMark_model.45128_t
Valid prediction for snap_scaffold_10-snap.2813-T1
Valid prediction for snap_scaffold_10-snap.2793-T1
Valid prediction for snap_scaffold_10-snap.2815-T1
Valid prediction for snap_scaffold_10-snap.2798-T1
Valid prediction for GeneMark_model.45164_t
Valid prediction for snap_scaffold_10-snap.2814-T1
Valid prediction for GeneMark_model.45158_t
Valid prediction for snap_scaffold_10-snap.2794-T1
Valid prediction for snap_scaffold_10-snap.2800-T1
Valid prediction for snap_scaffold_10-snap.2803-T1
Valid prediction for GeneMark_model.45123_t
Valid prediction for snap_scaffold_10-snap.2802-T1
Valid prediction for snap_scaffold_10-snap.2790-T1
Valid prediction for Augustus_model.g17682.t1
Valid prediction for GeneMark_model.45162_t
Valid prediction for GeneMark_model.45145_t
Valid prediction for Augustus_model.g17676.t1
Valid prediction for GlimmerHMM_glimmerT_26323-T1
Valid prediction for GlimmerHMM_glimmerT_26329-T1
Valid prediction for snap_scaffold_10-snap.2806-T1
Valid prediction for GeneMark_model.45126_t
Valid prediction for GeneMark_model.45163_t
Valid prediction for GeneMark_model.45135_t
Valid prediction for GeneMark_model.45138_t
Valid prediction for GeneMark_model.45120_t
Valid prediction for GeneMark_model.45148_t
Valid prediction for GlimmerHMM_glimmerT_26333-T1
Valid prediction for snap_scaffold_10-snap.2785-T1
Valid prediction for GeneMark_model.45136_t
Valid prediction for GlimmerHMM_glimmerT_26337-T1
Valid prediction for snap_scaffold_10-snap.2786-T1
Couldn't classify 85897, 86054
Sorry, prediction pasa_asmbl_3847.p1 fails validation.
(ATG)	 AG	83719-83908	GT	ATG
(ATG)	 AG	85897-86054	GG	ACG
-recovered pasa_asmbl_3847.p1, initial, 83719, 83908
-recovered pasa_asmbl_3847.p1, internal, 83719, 83908

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 21330, rend_intergenic: 2615  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36180, rend_intergenic: 24791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39750, rend_intergenic: 37386  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46690, rend_intergenic: 39814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67506, rend_intergenic: 67266  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71262, rend_intergenic: 68495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74218, rend_intergenic: 71856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83208, rend_intergenic: 75794  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89545, rend_intergenic: 83662  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98362, rend_intergenic: 92687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104420, rend_intergenic: 101886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120087, rend_intergenic: 108461  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125804, rend_intergenic: 123360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129902, rend_intergenic: 129358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133234, rend_intergenic: 130042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135228, rend_intergenic: 134379  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 139683
-exon list size: 613


building trellis

0.2    
0.3    
0.5    
0.7    
0.8    
1.0    
1.1    
1.3    
1.5    
1.6    
1.8    
2.0    
2.1    
2.3    
2.4    
2.6    
2.8    
2.9    
3.1    
3.3    
3.4    
3.6    
3.7    
3.9    
4.1    
4.2    
4.4    
4.6    
4.7    
4.9    
5.0    
5.2    
5.4    
5.5    
5.7    
5.9    
6.0    
6.2    
6.3    
6.5    
6.7    
6.8    
7.0    
7.2    
7.3    
7.5    
7.6    
7.8    
8.0    
8.1    
8.3    
8.5    
8.6    
8.8    
8.9    
9.1    
9.3    
9.4    
9.6    
9.8    
9.9    
10.1    
10.2    
10.4    
10.6    
10.7    
10.9    
11.1    
11.2    
11.4    
11.5    
11.7    
11.9    
12.0    
12.2    
12.4    
12.5    
12.7    
12.8    
13.0    
13.2    
13.3    
13.5    
13.7    
13.8    
14.0    
14.1    
14.3    
14.5    
14.6    
14.8    
15.0    
15.1    
15.3    
15.4    
15.6    
15.8    
15.9    
16.1    
16.3    
16.4    
16.6    
16.7    
16.9    
17.1    
17.2    
17.4    
17.6    
17.7    
17.9    
18.0    
18.2    
18.4    
18.5    
18.7    
18.9    
19.0    
19.2    
19.3    
19.5    
19.7    
19.8    
20.0    
20.2    
20.3    
20.5    
20.7    
20.8    
21.0    
21.1    
21.3    
21.5    
21.6    
21.8    
22.0    
22.1    
22.3    
22.4    
22.6    
22.8    
22.9    
23.1    
23.3    
23.4    
23.6    
23.7    
23.9    
24.1    
24.2    
24.4    
24.6    
24.7    
24.9    
25.0    
25.2    
25.4    
25.5    
25.7    
25.9    
26.0    
26.2    
26.3    
26.5    
26.7    
26.8    
27.0    
27.2    
27.3    
27.5    
27.6    
27.8    
28.0    
28.1    
28.3    
28.5    
28.6    
28.8    
28.9    
29.1    
29.3    
29.4    
29.6    
29.8    
29.9    
30.1    
30.2    
30.4    
30.6    
30.7    
30.9    
31.1    
31.2    
31.4    
31.5    
31.7    
31.9    
32.0    
32.2    
32.4    
32.5    
32.7    
32.8    
33.0    
33.2    
33.3    
33.5    
33.7    
33.8    
34.0    
34.1    
34.3    
34.5    
34.6    
34.8    
35.0    
35.1    
35.3    
35.4    
35.6    
35.8    
35.9    
36.1    
36.3    
36.4    
36.6    
36.7    
36.9    
37.1    
37.2    
37.4    
37.6    
37.7    
37.9    
38.0    
38.2    
38.4    
38.5    
38.7    
38.9    
39.0    
39.2    
39.3    
39.5    
39.7    
39.8    
40.0    
40.2    
40.3    
40.5    
40.7    
40.8    
41.0    
41.1    
41.3    
41.5    
41.6    
41.8    
42.0    
42.1    
42.3    
42.4    
42.6    
42.8    
42.9    
43.1    
43.3    
43.4    
43.6    
43.7    
43.9    
44.1    
44.2    
44.4    
44.6    
44.7    
44.9    
45.0    
45.2    
45.4    
45.5    
45.7    
45.9    
46.0    
46.2    
46.3    
46.5    
46.7    
46.8    
47.0    
47.2    
47.3    
47.5    
47.6    
47.8    
48.0    
48.1    
48.3    
48.5    
48.6    
48.8    
48.9    
49.1    
49.3    
49.4    
49.6    
49.8    
49.9    
50.1    
50.2    
50.4    
50.6    
50.7    
50.9    
51.1    
51.2    
51.4    
51.5    
51.7    
51.9    
52.0    
52.2    
52.4    
52.5    
52.7    
52.8    
53.0    
53.2    
53.3    
53.5    
53.7    
53.8    
54.0    
54.1    
54.3    
54.5    
54.6    
54.8    
55.0    
55.1    
55.3    
55.4    
55.6    
55.8    
55.9    
56.1    
56.3    
56.4    
56.6    
56.7    
56.9    
57.1    
57.2    
57.4    
57.6    
57.7    
57.9    
58.0    
58.2    
58.4    
58.5    
58.7    
58.9    
59.0    
59.2    
59.3    
59.5    
59.7    
59.8    
60.0    
60.2    
60.3    
60.5    
60.7    
60.8    
61.0    
61.1    
61.3    
61.5    
61.6    
61.8    
62.0    
62.1    
62.3    
62.4    
62.6    
62.8    
62.9    
63.1    
63.3    
63.4    
63.6    
63.7    
63.9    
64.1    
64.2    
64.4    
64.6    
64.7    
64.9    
65.0    
65.2    
65.4    
65.5    
65.7    
65.9    
66.0    
66.2    
66.3    
66.5    
66.7    
66.8    
67.0    
67.2    
67.3    
67.5    
67.6    
67.8    
68.0    
68.1    
68.3    
68.5    
68.6    
68.8    
68.9    
69.1    
69.3    
69.4    
69.6    
69.8    
69.9    
70.1    
70.2    
70.4    
70.6    
70.7    
70.9    
71.1    
71.2    
71.4    
71.5    
71.7    
71.9    
72.0    
72.2    
72.4    
72.5    
72.7    
72.8    
73.0    
73.2    
73.3    
73.5    
73.7    
73.8    
74.0    
74.1    
74.3    
74.5    
74.6    
74.8    
75.0    
75.1    
75.3    
75.4    
75.6    
75.8    
75.9    
76.1    
76.3    
76.4    
76.6    
76.7    
76.9    
77.1    
77.2    
77.4    
77.6    
77.7    
77.9    
78.0    
78.2    
78.4    
78.5    
78.7    
78.9    
79.0    
79.2    
79.3    
79.5    
79.7    
79.8    
80.0    
80.2    
80.3    
80.5    
80.7    
80.8    
81.0    
81.1    
81.3    
81.5    
81.6    
81.8    
82.0    
82.1    
82.3    
82.4    
82.6    
82.8    
82.9    
83.1    
83.3    
83.4    
83.6    
83.7    
83.9    
84.1    
84.2    
84.4    
84.6    
84.7    
84.9    
85.0    
85.2    
85.4    
85.5    
85.7    
85.9    
86.0    
86.2    
86.3    
86.5    
86.7    
86.8    
87.0    
87.2    
87.3    
87.5    
87.6    
87.8    
88.0    
88.1    
88.3    
88.5    
88.6    
88.8    
88.9    
89.1    
89.3    
89.4    
89.6    
89.8    
89.9    
90.1    
90.2    
90.4    
90.6    
90.7    
90.9    
91.1    
91.2    
91.4    
91.5    
91.7    
91.9    
92.0    
92.2    
92.4    
92.5    
92.7    
92.8    
93.0    
93.2    
93.3    
93.5    
93.7    
93.8    
94.0    
94.1    
94.3    
94.5    
94.6    
94.8    
95.0    
95.1    
95.3    
95.4    
95.6    
95.8    
95.9    
96.1    
96.3    
96.4    
96.6    
96.7    
96.9    
97.1    
97.2    
97.4    
97.6    
97.7    
97.9    
98.0    
98.2    
98.4    
98.5    
98.7    
98.9    
99.0    
99.2    
99.3    
99.5    
99.7    
99.8    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 21330, rend_intergenic: 2615  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36180, rend_intergenic: 24791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39750, rend_intergenic: 37386  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46690, rend_intergenic: 39814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67506, rend_intergenic: 67266  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71262, rend_intergenic: 68495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74218, rend_intergenic: 71856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83208, rend_intergenic: 75794  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89545, rend_intergenic: 83662  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98362, rend_intergenic: 92687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104420, rend_intergenic: 101886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120087, rend_intergenic: 108461  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125804, rend_intergenic: 123360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129902, rend_intergenic: 129358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133234, rend_intergenic: 130042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135228, rend_intergenic: 134379  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support