-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_13975764-14249355

-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_28238-T1
Valid prediction for GlimmerHMM_glimmerT_28248-T1
Valid prediction for snap_scaffold_11-snap.2945-T1
Valid prediction for snap_scaffold_11-snap.2950-T1
Valid prediction for snap_scaffold_11-snap.2974-T1
Valid prediction for GlimmerHMM_glimmerT_28232-T1
Valid prediction for GlimmerHMM_glimmerT_28229-T1
Valid prediction for snap_scaffold_11-snap.2972-T1
Valid prediction for snap_scaffold_11-snap.2949-T1
Valid prediction for GlimmerHMM_glimmerT_28242-T1
Valid prediction for snap_scaffold_11-snap.2942-T1
Valid prediction for snap_scaffold_11-snap.2962-T1
Valid prediction for snap_scaffold_11-snap.2947-T1
Valid prediction for snap_scaffold_11-snap.2952-T1
Valid prediction for Augustus_model.g18703.t1
Valid prediction for GlimmerHMM_glimmerT_28231-T1
Valid prediction for Augustus_model.g18704.t1
Valid prediction for GlimmerHMM_glimmerT_28241-T1
Valid prediction for GlimmerHMM_glimmerT_28258-T1
Valid prediction for snap_scaffold_11-snap.2946-T1
Valid prediction for snap_scaffold_11-snap.2966-T1
Valid prediction for GlimmerHMM_glimmerT_28237-T1
Valid prediction for snap_scaffold_11-snap.2948-T1
Valid prediction for snap_scaffold_11-snap.2964-T1
Valid prediction for snap_scaffold_11-snap.2959-T1
Valid prediction for snap_scaffold_11-snap.2961-T1
Valid prediction for GlimmerHMM_glimmerT_28240-T1
Valid prediction for GlimmerHMM_glimmerT_28255-T1
Valid prediction for snap_scaffold_11-snap.2956-T1
Valid prediction for GlimmerHMM_glimmerT_28235-T1
Valid prediction for GlimmerHMM_glimmerT_28245-T1
Valid prediction for Augustus_model.g18707.t1
Valid prediction for Augustus_model.g18699.t1
Valid prediction for GlimmerHMM_glimmerT_28247-T1
Valid prediction for snap_scaffold_11-snap.2944-T1
Valid prediction for GlimmerHMM_glimmerT_28246-T1
Valid prediction for snap_scaffold_11-snap.2938-T1
Valid prediction for GlimmerHMM_glimmerT_28243-T1
Valid prediction for Augustus_model.g18700.t1
Valid prediction for snap_scaffold_11-snap.2939-T1
Valid prediction for snap_scaffold_11-snap.2957-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 pasa_asmbl_7155.p1
Valid prediction for HiQ_model.g18702.t1
Couldn't classify 71245, 71363
Sorry, prediction pasa_asmbl_7157.p1 fails validation.
(ACT)	 AC	71245-71363	GT	GGG
(GGC)	 AG	71629-71784	GT	GCG
(CAC)	 AG	72062-72186	GT	TGG
(CCC)	 AG	72340-72467	GT	TGG
(ACT)	 AG	72665-72754	GT	TCG
(AAC)	 AG	72847-72936	GT	AGG
(ATC)	 AG	73132-73276	GT	CGG
(CAA)	 AG	73524-73704	GT	TGG
(GGA)	 AG	73838-74001	GT	CGG
(CTG)	 AG	74116-74192	GT	AGG
(GGT)	 AG	74463-74606	CA	AAC
-recovered pasa_asmbl_7157.p1, terminal, 74463, 74606
-recovered pasa_asmbl_7157.p1, internal, 71629, 71784
-recovered pasa_asmbl_7157.p1, internal, 72062, 72186
-recovered pasa_asmbl_7157.p1, internal, 72340, 72467
-recovered pasa_asmbl_7157.p1, internal, 72665, 72754
-recovered pasa_asmbl_7157.p1, internal, 72847, 72936
-recovered pasa_asmbl_7157.p1, internal, 73132, 73276
-recovered pasa_asmbl_7157.p1, internal, 73524, 73704
-recovered pasa_asmbl_7157.p1, internal, 73838, 74001
-recovered pasa_asmbl_7157.p1, internal, 74116, 74192
Valid prediction for snap_scaffold_11-snap.2970-T1
Valid prediction for CodingQuarry_transcript_8305-T1
Valid prediction for GlimmerHMM_glimmerT_28233-T1
Valid prediction for snap_scaffold_11-snap.2973-T1
Valid prediction for GlimmerHMM_glimmerT_28230-T1
Valid prediction for Augustus_model.g18701.t1
Valid prediction for snap_scaffold_11-snap.2958-T1
Valid prediction for snap_scaffold_11-snap.2940-T1
Valid prediction for snap_scaffold_11-snap.2960-T1
Valid prediction for snap_scaffold_11-snap.2954-T1
Valid prediction for snap_scaffold_11-snap.2965-T1
Valid prediction for GlimmerHMM_glimmerT_28239-T1
Valid prediction for HiQ_model.g18706.t1
Valid prediction for snap_scaffold_11-snap.2943-T1
Valid prediction for GlimmerHMM_glimmerT_28250-T1
Valid prediction for snap_scaffold_11-snap.2955-T1
Valid prediction for snap_scaffold_11-snap.2951-T1
Valid prediction for Augustus_model.g18708.t1
Valid prediction for snap_scaffold_11-snap.2967-T1
Valid prediction for GlimmerHMM_glimmerT_28254-T1
Valid prediction for Augustus_model.g18705.t1
Valid prediction for GlimmerHMM_glimmerT_28244-T1
Valid prediction for snap_scaffold_11-snap.2969-T1
Valid prediction for GlimmerHMM_glimmerT_28253-T1
Valid prediction for GlimmerHMM_glimmerT_28236-T1
Valid prediction for Augustus_model.g18709.t1
Valid prediction for snap_scaffold_11-snap.2968-T1
Valid prediction for GlimmerHMM_glimmerT_28234-T1
Valid prediction for GlimmerHMM_glimmerT_28251-T1
Valid prediction for snap_scaffold_11-snap.2963-T1
Valid prediction for snap_scaffold_11-snap.2971-T1
Valid prediction for GlimmerHMM_glimmerT_28252-T1
Valid prediction for snap_scaffold_11-snap.2941-T1
Valid prediction for GlimmerHMM_glimmerT_28257-T1
Valid prediction for GlimmerHMM_glimmerT_28249-T1
Valid prediction for snap_scaffold_11-snap.2953-T1
Valid prediction for GlimmerHMM_glimmerT_28256-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 28868, rend_intergenic: 26031  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33524, rend_intergenic: 33316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42482, rend_intergenic: 34579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119093, rend_intergenic: 116913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143955, rend_intergenic: 127409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165624, rend_intergenic: 162905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187135, rend_intergenic: 184430  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190977, rend_intergenic: 187399  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 265989, rend_intergenic: 265750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 268574, rend_intergenic: 267585  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 273592
-exon list size: 286


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.1    
2.4    
2.8    
3.1    
3.5    
3.8    
4.2    
4.5    
4.9    
5.2    
5.6    
5.9    
6.2    
6.6    
6.9    
7.3    
7.6    
8.0    
8.3    
8.7    
9.0    
9.4    
9.7    
10.1    
10.4    
10.8    
11.1    
11.5    
11.8    
12.2    
12.5    
12.8    
13.2    
13.5    
13.9    
14.2    
14.6    
14.9    
15.3    
15.6    
16.0    
16.3    
16.7    
17.0    
17.4    
17.7    
18.1    
18.4    
18.8    
19.1    
19.4    
19.8    
20.1    
20.5    
20.8    
21.2    
21.5    
21.9    
22.2    
22.6    
22.9    
23.3    
23.6    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.4    
26.7    
27.1    
27.4    
27.8    
28.1    
28.5    
28.8    
29.2    
29.5    
29.9    
30.2    
30.6    
30.9    
31.2    
31.6    
31.9    
32.3    
32.6    
33.0    
33.3    
33.7    
34.0    
34.4    
34.7    
35.1    
35.4    
35.8    
36.1    
36.5    
36.8    
37.2    
37.5    
37.8    
38.2    
38.5    
38.9    
39.2    
39.6    
39.9    
40.3    
40.6    
41.0    
41.3    
41.7    
42.0    
42.4    
42.7    
43.1    
43.4    
43.8    
44.1    
44.4    
44.8    
45.1    
45.5    
45.8    
46.2    
46.5    
46.9    
47.2    
47.6    
47.9    
48.3    
48.6    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.4    
51.7    
52.1    
52.4    
52.8    
53.1    
53.5    
53.8    
54.2    
54.5    
54.9    
55.2    
55.6    
55.9    
56.2    
56.6    
56.9    
57.3    
57.6    
58.0    
58.3    
58.7    
59.0    
59.4    
59.7    
60.1    
60.4    
60.8    
61.1    
61.5    
61.8    
62.2    
62.5    
62.8    
63.2    
63.5    
63.9    
64.2    
64.6    
64.9    
65.3    
65.6    
66.0    
66.3    
66.7    
67.0    
67.4    
67.7    
68.1    
68.4    
68.8    
69.1    
69.4    
69.8    
70.1    
70.5    
70.8    
71.2    
71.5    
71.9    
72.2    
72.6    
72.9    
73.3    
73.6    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.4    
76.7    
77.1    
77.4    
77.8    
78.1    
78.5    
78.8    
79.2    
79.5    
79.9    
80.2    
80.6    
80.9    
81.2    
81.6    
81.9    
82.3    
82.6    
83.0    
83.3    
83.7    
84.0    
84.4    
84.7    
85.1    
85.4    
85.8    
86.1    
86.5    
86.8    
87.2    
87.5    
87.8    
88.2    
88.5    
88.9    
89.2    
89.6    
89.9    
90.3    
90.6    
91.0    
91.3    
91.7    
92.0    
92.4    
92.7    
93.1    
93.4    
93.8    
94.1    
94.4    
94.8    
95.1    
95.5    
95.8    
96.2    
96.5    
96.9    
97.2    
97.6    
97.9    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 28868, rend_intergenic: 26031  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33524, rend_intergenic: 33316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42482, rend_intergenic: 34579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119093, rend_intergenic: 116913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143955, rend_intergenic: 127409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165624, rend_intergenic: 162905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187135, rend_intergenic: 184430  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190977, rend_intergenic: 187399  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 265989, rend_intergenic: 265750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 268574, rend_intergenic: 267585  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support