-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_6/scaffold_6_3997938-4174364

-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 snap_scaffold_6-snap.938-T1
Valid prediction for GlimmerHMM_glimmerT_14780-T1
Valid prediction for GlimmerHMM_glimmerT_14784-T1
Valid prediction for GeneMark_model.25042_t
Valid prediction for GlimmerHMM_glimmerT_14765-T1
Valid prediction for snap_scaffold_6-snap.962-T1
Valid prediction for GeneMark_model.25040_t
Valid prediction for GeneMark_model.25025_t
Valid prediction for Augustus_model.g9836.t1
Valid prediction for snap_scaffold_6-snap.948-T1
Valid prediction for GeneMark_model.25027_t
Valid prediction for GeneMark_model.25046_t
Valid prediction for GlimmerHMM_glimmerT_14769-T1
Valid prediction for GlimmerHMM_glimmerT_14779-T1
Valid prediction for snap_scaffold_6-snap.956-T1
Valid prediction for Augustus_model.g9835.t1
Valid prediction for snap_scaffold_6-snap.941-T1
Valid prediction for GeneMark_model.25064_t
Valid prediction for snap_scaffold_6-snap.939-T1
Valid prediction for Augustus_model.g9833.t1
Valid prediction for snap_scaffold_6-snap.946-T1
Valid prediction for GeneMark_model.25045_t
Valid prediction for snap_scaffold_6-snap.949-T1
Valid prediction for GlimmerHMM_glimmerT_14767-T1
Valid prediction for snap_scaffold_6-snap.957-T1
Valid prediction for snap_scaffold_6-snap.937-T1
Valid prediction for GeneMark_model.25043_t
Valid prediction for snap_scaffold_6-snap.953-T1
Valid prediction for snap_scaffold_6-snap.963-T1
Valid prediction for snap_scaffold_6-snap.952-T1
Valid prediction for GeneMark_model.25049_t
Valid prediction for GeneMark_model.25050_t
Valid prediction for snap_scaffold_6-snap.967-T1
Valid prediction for GlimmerHMM_glimmerT_14777-T1
Valid prediction for GeneMark_model.25052_t
Valid prediction for GeneMark_model.25036_t
Valid prediction for snap_scaffold_6-snap.959-T1
Valid prediction for snap_scaffold_6-snap.955-T1
Valid prediction for GeneMark_model.25039_t
Valid prediction for Augustus_model.g9841.t1
Valid prediction for Augustus_model.g9839.t1
Valid prediction for GeneMark_model.25029_t
Valid prediction for GeneMark_model.25034_t
Valid prediction for GeneMark_model.25055_t
Valid prediction for GeneMark_model.25056_t
Valid prediction for GlimmerHMM_glimmerT_14770-T1
Valid prediction for snap_scaffold_6-snap.965-T1
Valid prediction for GlimmerHMM_glimmerT_14775-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 GeneMark_model.25033_t
Valid prediction for GlimmerHMM_glimmerT_14774-T1
Couldn't classify 126167, 126223
Couldn't classify 126422, 126676
Sorry, prediction pasa_asmbl_49375.p1 fails validation.
(AGA)	 AA	126167-126223	GT	AGG
(CAT)	 AG	126422-126676	CT	GGC
Valid prediction for GlimmerHMM_glimmerT_14764-T1
Valid prediction for pasa_asmbl_48230.p1
Valid prediction for pasa_asmbl_48233.p1
Valid prediction for GeneMark_model.25044_t
Valid prediction for GeneMark_model.25041_t
Valid prediction for GeneMark_model.25053_t
Valid prediction for GlimmerHMM_glimmerT_14789-T1
Valid prediction for snap_scaffold_6-snap.968-T1
Valid prediction for snap_scaffold_6-snap.969-T1
Valid prediction for GeneMark_model.25061_t
Valid prediction for GlimmerHMM_glimmerT_14782-T1
Valid prediction for GlimmerHMM_glimmerT_14772-T1
Valid prediction for CodingQuarry_transcript_54863-T1
Valid prediction for snap_scaffold_6-snap.942-T1
Valid prediction for snap_scaffold_6-snap.943-T1
Valid prediction for GlimmerHMM_glimmerT_14787-T1
Valid prediction for snap_scaffold_6-snap.960-T1
Valid prediction for snap_scaffold_6-snap.950-T1
Valid prediction for GeneMark_model.25060_t
Valid prediction for snap_scaffold_6-snap.945-T1
Valid prediction for GeneMark_model.25035_t
Valid prediction for HiQ_model.g9843.t1
Valid prediction for CodingQuarry_transcript_54861-T1
Valid prediction for snap_scaffold_6-snap.940-T1
Valid prediction for GlimmerHMM_glimmerT_14768-T1
Valid prediction for Augustus_model.g9846.t1
Valid prediction for GlimmerHMM_glimmerT_14771-T1
Valid prediction for GeneMark_model.25028_t
Valid prediction for Augustus_model.g9845.t1
Valid prediction for GlimmerHMM_glimmerT_14766-T1
Valid prediction for snap_scaffold_6-snap.973-T1
Valid prediction for snap_scaffold_6-snap.970-T1
Valid prediction for Augustus_model.g9834.t1
Valid prediction for Augustus_model.g9838.t1
Valid prediction for snap_scaffold_6-snap.936-T1
Valid prediction for pasa_asmbl_48234.p1
Valid prediction for GeneMark_model.25057_t
Valid prediction for snap_scaffold_6-snap.954-T1
Valid prediction for GeneMark_model.25047_t
Valid prediction for snap_scaffold_6-snap.964-T1
Valid prediction for CodingQuarry_transcript_54862-T1
Valid prediction for GeneMark_model.25065_t
Valid prediction for Augustus_model.g9830.t1
Valid prediction for GeneMark_model.25030_t
Valid prediction for GlimmerHMM_glimmerT_14778-T1
Valid prediction for pasa_asmbl_49299.p1
Valid prediction for GeneMark_model.25026_t
Valid prediction for GlimmerHMM_glimmerT_14783-T1
Valid prediction for GeneMark_model.25048_t
Valid prediction for snap_scaffold_6-snap.961-T1
Valid prediction for Augustus_model.g9831.t1
Valid prediction for snap_scaffold_6-snap.972-T1
Valid prediction for GeneMark_model.25054_t
Valid prediction for GeneMark_model.25051_t
Valid prediction for snap_scaffold_6-snap.971-T1
Valid prediction for Augustus_model.g9840.t1
Valid prediction for snap_scaffold_6-snap.976-T1
Valid prediction for snap_scaffold_6-snap.951-T1
Valid prediction for GlimmerHMM_glimmerT_14781-T1
Valid prediction for GlimmerHMM_glimmerT_14785-T1
Valid prediction for GlimmerHMM_glimmerT_14786-T1
Valid prediction for snap_scaffold_6-snap.947-T1
Valid prediction for Augustus_model.g9842.t1
Valid prediction for GeneMark_model.25031_t
Valid prediction for GeneMark_model.25058_t
Valid prediction for GeneMark_model.25038_t
Valid prediction for GeneMark_model.25063_t
Valid prediction for snap_scaffold_6-snap.958-T1
Valid prediction for snap_scaffold_6-snap.974-T1
Valid prediction for GlimmerHMM_glimmerT_14788-T1
Valid prediction for snap_scaffold_6-snap.944-T1
Valid prediction for GeneMark_model.25037_t
Valid prediction for snap_scaffold_6-snap.966-T1
Valid prediction for Augustus_model.g9832.t1
Valid prediction for GeneMark_model.25032_t
Valid prediction for GlimmerHMM_glimmerT_14773-T1
Valid prediction for GlimmerHMM_glimmerT_14776-T1
Valid prediction for HiQ_model.g9844.t1
Valid prediction for snap_scaffold_6-snap.975-T1
Valid prediction for Augustus_model.g9837.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17149, rend_intergenic: 6719  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20497, rend_intergenic: 17380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41646, rend_intergenic: 38263  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54058, rend_intergenic: 49762  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63947, rend_intergenic: 62376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68284, rend_intergenic: 66903  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72026, rend_intergenic: 71456  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99514, rend_intergenic: 92440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108752, rend_intergenic: 101816  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112200, rend_intergenic: 110331  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134382, rend_intergenic: 132750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 176427
-exon list size: 578


building trellis

0.2    
0.3    
0.5    
0.7    
0.9    
1.0    
1.2    
1.4    
1.6    
1.7    
1.9    
2.1    
2.2    
2.4    
2.6    
2.8    
2.9    
3.1    
3.3    
3.4    
3.6    
3.8    
4.0    
4.1    
4.3    
4.5    
4.7    
4.8    
5.0    
5.2    
5.3    
5.5    
5.7    
5.9    
6.0    
6.2    
6.4    
6.6    
6.7    
6.9    
7.1    
7.2    
7.4    
7.6    
7.8    
7.9    
8.1    
8.3    
8.4    
8.6    
8.8    
9.0    
9.1    
9.3    
9.5    
9.7    
9.8    
10.0    
10.2    
10.3    
10.5    
10.7    
10.9    
11.0    
11.2    
11.4    
11.6    
11.7    
11.9    
12.1    
12.2    
12.4    
12.6    
12.8    
12.9    
13.1    
13.3    
13.4    
13.6    
13.8    
14.0    
14.1    
14.3    
14.5    
14.7    
14.8    
15.0    
15.2    
15.3    
15.5    
15.7    
15.9    
16.0    
16.2    
16.4    
16.6    
16.7    
16.9    
17.1    
17.2    
17.4    
17.6    
17.8    
17.9    
18.1    
18.3    
18.4    
18.6    
18.8    
19.0    
19.1    
19.3    
19.5    
19.7    
19.8    
20.0    
20.2    
20.3    
20.5    
20.7    
20.9    
21.0    
21.2    
21.4    
21.6    
21.7    
21.9    
22.1    
22.2    
22.4    
22.6    
22.8    
22.9    
23.1    
23.3    
23.4    
23.6    
23.8    
24.0    
24.1    
24.3    
24.5    
24.7    
24.8    
25.0    
25.2    
25.3    
25.5    
25.7    
25.9    
26.0    
26.2    
26.4    
26.6    
26.7    
26.9    
27.1    
27.2    
27.4    
27.6    
27.8    
27.9    
28.1    
28.3    
28.4    
28.6    
28.8    
29.0    
29.1    
29.3    
29.5    
29.7    
29.8    
30.0    
30.2    
30.3    
30.5    
30.7    
30.9    
31.0    
31.2    
31.4    
31.6    
31.7    
31.9    
32.1    
32.2    
32.4    
32.6    
32.8    
32.9    
33.1    
33.3    
33.4    
33.6    
33.8    
34.0    
34.1    
34.3    
34.5    
34.7    
34.8    
35.0    
35.2    
35.3    
35.5    
35.7    
35.9    
36.0    
36.2    
36.4    
36.6    
36.7    
36.9    
37.1    
37.2    
37.4    
37.6    
37.8    
37.9    
38.1    
38.3    
38.4    
38.6    
38.8    
39.0    
39.1    
39.3    
39.5    
39.7    
39.8    
40.0    
40.2    
40.3    
40.5    
40.7    
40.9    
41.0    
41.2    
41.4    
41.6    
41.7    
41.9    
42.1    
42.2    
42.4    
42.6    
42.8    
42.9    
43.1    
43.3    
43.4    
43.6    
43.8    
44.0    
44.1    
44.3    
44.5    
44.7    
44.8    
45.0    
45.2    
45.3    
45.5    
45.7    
45.9    
46.0    
46.2    
46.4    
46.6    
46.7    
46.9    
47.1    
47.2    
47.4    
47.6    
47.8    
47.9    
48.1    
48.3    
48.4    
48.6    
48.8    
49.0    
49.1    
49.3    
49.5    
49.7    
49.8    
50.0    
50.2    
50.3    
50.5    
50.7    
50.9    
51.0    
51.2    
51.4    
51.6    
51.7    
51.9    
52.1    
52.2    
52.4    
52.6    
52.8    
52.9    
53.1    
53.3    
53.4    
53.6    
53.8    
54.0    
54.1    
54.3    
54.5    
54.7    
54.8    
55.0    
55.2    
55.3    
55.5    
55.7    
55.9    
56.0    
56.2    
56.4    
56.6    
56.7    
56.9    
57.1    
57.2    
57.4    
57.6    
57.8    
57.9    
58.1    
58.3    
58.4    
58.6    
58.8    
59.0    
59.1    
59.3    
59.5    
59.7    
59.8    
60.0    
60.2    
60.3    
60.5    
60.7    
60.9    
61.0    
61.2    
61.4    
61.6    
61.7    
61.9    
62.1    
62.2    
62.4    
62.6    
62.8    
62.9    
63.1    
63.3    
63.4    
63.6    
63.8    
64.0    
64.1    
64.3    
64.5    
64.7    
64.8    
65.0    
65.2    
65.3    
65.5    
65.7    
65.9    
66.0    
66.2    
66.4    
66.6    
66.7    
66.9    
67.1    
67.2    
67.4    
67.6    
67.8    
67.9    
68.1    
68.3    
68.4    
68.6    
68.8    
69.0    
69.1    
69.3    
69.5    
69.7    
69.8    
70.0    
70.2    
70.3    
70.5    
70.7    
70.9    
71.0    
71.2    
71.4    
71.6    
71.7    
71.9    
72.1    
72.2    
72.4    
72.6    
72.8    
72.9    
73.1    
73.3    
73.4    
73.6    
73.8    
74.0    
74.1    
74.3    
74.5    
74.7    
74.8    
75.0    
75.2    
75.3    
75.5    
75.7    
75.9    
76.0    
76.2    
76.4    
76.6    
76.7    
76.9    
77.1    
77.2    
77.4    
77.6    
77.8    
77.9    
78.1    
78.3    
78.4    
78.6    
78.8    
79.0    
79.1    
79.3    
79.5    
79.7    
79.8    
80.0    
80.2    
80.3    
80.5    
80.7    
80.9    
81.0    
81.2    
81.4    
81.6    
81.7    
81.9    
82.1    
82.2    
82.4    
82.6    
82.8    
82.9    
83.1    
83.3    
83.4    
83.6    
83.8    
84.0    
84.1    
84.3    
84.5    
84.7    
84.8    
85.0    
85.2    
85.3    
85.5    
85.7    
85.9    
86.0    
86.2    
86.4    
86.6    
86.7    
86.9    
87.1    
87.2    
87.4    
87.6    
87.8    
87.9    
88.1    
88.3    
88.4    
88.6    
88.8    
89.0    
89.1    
89.3    
89.5    
89.7    
89.8    
90.0    
90.2    
90.3    
90.5    
90.7    
90.9    
91.0    
91.2    
91.4    
91.6    
91.7    
91.9    
92.1    
92.2    
92.4    
92.6    
92.8    
92.9    
93.1    
93.3    
93.4    
93.6    
93.8    
94.0    
94.1    
94.3    
94.5    
94.7    
94.8    
95.0    
95.2    
95.3    
95.5    
95.7    
95.9    
96.0    
96.2    
96.4    
96.6    
96.7    
96.9    
97.1    
97.2    
97.4    
97.6    
97.8    
97.9    
98.1    
98.3    
98.4    
98.6    
98.8    
99.0    
99.1    
99.3    
99.5    
99.7    
99.8    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 17149, rend_intergenic: 6719  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20497, rend_intergenic: 17380  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41646, rend_intergenic: 38263  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54058, rend_intergenic: 49762  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63947, rend_intergenic: 62376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68284, rend_intergenic: 66903  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72026, rend_intergenic: 71456  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99514, rend_intergenic: 92440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108752, rend_intergenic: 101816  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112200, rend_intergenic: 110331  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134382, rend_intergenic: 132750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support