-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_11/scaffold_11_2681734-2799653

-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.47058_t
Valid prediction for GeneMark_model.47070_t
Valid prediction for snap_scaffold_11-snap.682-T1
Valid prediction for GeneMark_model.47067_t
Valid prediction for GeneMark_model.47045_t
Valid prediction for GlimmerHMM_glimmerT_27254-T1
Valid prediction for snap_scaffold_11-snap.702-T1
Valid prediction for Augustus_model.g18191.t1
Valid prediction for GeneMark_model.47056_t
Valid prediction for snap_scaffold_11-snap.687-T1
Valid prediction for GlimmerHMM_glimmerT_27259-T1
Valid prediction for snap_scaffold_11-snap.693-T1
Valid prediction for Augustus_model.g18189.t1
Valid prediction for GeneMark_model.47078_t
Valid prediction for GeneMark_model.47048_t
Valid prediction for snap_scaffold_11-snap.678-T1
Valid prediction for Augustus_model.g18193.t1
Valid prediction for GeneMark_model.47080_t
Valid prediction for GeneMark_model.47077_t
Valid prediction for Augustus_model.g18194.t1
Valid prediction for snap_scaffold_11-snap.701-T1
Valid prediction for GeneMark_model.47052_t
Valid prediction for snap_scaffold_11-snap.683-T1
Valid prediction for snap_scaffold_11-snap.692-T1
Valid prediction for GeneMark_model.47074_t
Valid prediction for snap_scaffold_11-snap.708-T1
Valid prediction for GlimmerHMM_glimmerT_27248-T1
Valid prediction for GlimmerHMM_glimmerT_27249-T1
Valid prediction for snap_scaffold_11-snap.690-T1
Valid prediction for GlimmerHMM_glimmerT_27256-T1
Valid prediction for snap_scaffold_11-snap.706-T1
Valid prediction for GeneMark_model.47069_t
Valid prediction for GeneMark_model.47053_t
Valid prediction for Augustus_model.g18192.t1
Couldn't classify 93905, 94078
Sorry, prediction pasa_asmbl_5336.p1 fails validation.
(GAC)	 TA	93905-94078	GT	AGG
(CCC)	 AG	94609-94735	GT	CGG
(CAT)	 AG	96775-96980	CG	GAC
-recovered pasa_asmbl_5336.p1, terminal, 96775, 96980
-recovered pasa_asmbl_5336.p1, internal, 94609, 94735
Valid prediction for snap_scaffold_11-snap.709-T1
Valid prediction for snap_scaffold_11-snap.699-T1
Valid prediction for GlimmerHMM_glimmerT_27253-T1
Valid prediction for GeneMark_model.47065_t
Valid prediction for GeneMark_model.47054_t
Valid prediction for GlimmerHMM_glimmerT_27257-T1
Valid prediction for GeneMark_model.47061_t
Valid prediction for snap_scaffold_11-snap.684-T1
Valid prediction for snap_scaffold_11-snap.680-T1
Valid prediction for GeneMark_model.47073_t
Valid prediction for GeneMark_model.47071_t
Valid prediction for GeneMark_model.47050_t
Valid prediction for GeneMark_model.47063_t
Valid prediction for snap_scaffold_11-snap.710-T1
Valid prediction for snap_scaffold_11-snap.698-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.47051_t
Valid prediction for snap_scaffold_11-snap.691-T1
Valid prediction for Augustus_model.g18190.t1
Valid prediction for snap_scaffold_11-snap.696-T1
Valid prediction for GeneMark_model.47068_t
Valid prediction for snap_scaffold_11-snap.689-T1
Valid prediction for GlimmerHMM_glimmerT_27258-T1
Valid prediction for GlimmerHMM_glimmerT_27250-T1
Valid prediction for snap_scaffold_11-snap.695-T1
Valid prediction for GeneMark_model.47047_t
Valid prediction for Augustus_model.g18196.t1
Valid prediction for snap_scaffold_11-snap.681-T1
Valid prediction for GeneMark_model.47079_t
Valid prediction for GeneMark_model.47062_t
Valid prediction for GeneMark_model.47072_t
Valid prediction for GeneMark_model.47064_t
Valid prediction for GeneMark_model.47044_t
Valid prediction for GeneMark_model.47049_t
Valid prediction for snap_scaffold_11-snap.703-T1
Valid prediction for snap_scaffold_11-snap.679-T1
Valid prediction for GeneMark_model.47055_t
Valid prediction for snap_scaffold_11-snap.694-T1
Valid prediction for GeneMark_model.47075_t
Valid prediction for GeneMark_model.47059_t
Valid prediction for GlimmerHMM_glimmerT_27252-T1
Valid prediction for GeneMark_model.47076_t
Valid prediction for Augustus_model.g18195.t1
Valid prediction for snap_scaffold_11-snap.688-T1
Valid prediction for GeneMark_model.47057_t
Valid prediction for snap_scaffold_11-snap.677-T1
Valid prediction for Augustus_model.g18188.t1
Valid prediction for GlimmerHMM_glimmerT_27251-T1
Valid prediction for snap_scaffold_11-snap.686-T1
Valid prediction for GeneMark_model.47066_t
Valid prediction for snap_scaffold_11-snap.707-T1
Valid prediction for snap_scaffold_11-snap.711-T1
Valid prediction for GlimmerHMM_glimmerT_27255-T1
Valid prediction for snap_scaffold_11-snap.704-T1
Valid prediction for GlimmerHMM_glimmerT_27260-T1
Valid prediction for snap_scaffold_11-snap.697-T1
Valid prediction for GeneMark_model.47060_t
Valid prediction for snap_scaffold_11-snap.685-T1
Valid prediction for GlimmerHMM_glimmerT_27247-T1
Valid prediction for snap_scaffold_11-snap.700-T1
Valid prediction for GeneMark_model.47081_t
Valid prediction for snap_scaffold_11-snap.705-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10306, rend_intergenic: 7449  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18233, rend_intergenic: 17801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23575, rend_intergenic: 19313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29618, rend_intergenic: 27676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33127, rend_intergenic: 30201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37478, rend_intergenic: 33269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38455, rend_intergenic: 38212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47899, rend_intergenic: 38704  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67464, rend_intergenic: 48987  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74597, rend_intergenic: 74152  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81473, rend_intergenic: 79584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88685, rend_intergenic: 87073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100542, rend_intergenic: 99666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103510, rend_intergenic: 100905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109545, rend_intergenic: 105736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 117920
-exon list size: 478


building trellis

0.2    
0.4    
0.6    
0.8    
1.0    
1.2    
1.5    
1.7    
1.9    
2.1    
2.3    
2.5    
2.7    
2.9    
3.1    
3.3    
3.5    
3.8    
4.0    
4.2    
4.4    
4.6    
4.8    
5.0    
5.2    
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5.6    
5.8    
6.0    
6.2    
6.5    
6.7    
6.9    
7.1    
7.3    
7.5    
7.7    
7.9    
8.1    
8.3    
8.5    
8.8    
9.0    
9.2    
9.4    
9.6    
9.8    
10.0    
10.2    
10.4    
10.6    
10.8    
11.0    
11.2    
11.5    
11.7    
11.9    
12.1    
12.3    
12.5    
12.7    
12.9    
13.1    
13.3    
13.5    
13.8    
14.0    
14.2    
14.4    
14.6    
14.8    
15.0    
15.2    
15.4    
15.6    
15.8    
16.0    
16.2    
16.5    
16.7    
16.9    
17.1    
17.3    
17.5    
17.7    
17.9    
18.1    
18.3    
18.5    
18.8    
19.0    
19.2    
19.4    
19.6    
19.8    
20.0    
20.2    
20.4    
20.6    
20.8    
21.0    
21.2    
21.5    
21.7    
21.9    
22.1    
22.3    
22.5    
22.7    
22.9    
23.1    
23.3    
23.5    
23.8    
24.0    
24.2    
24.4    
24.6    
24.8    
25.0    
25.2    
25.4    
25.6    
25.8    
26.0    
26.2    
26.5    
26.7    
26.9    
27.1    
27.3    
27.5    
27.7    
27.9    
28.1    
28.3    
28.5    
28.7    
29.0    
29.2    
29.4    
29.6    
29.8    
30.0    
30.2    
30.4    
30.6    
30.8    
31.0    
31.2    
31.5    
31.7    
31.9    
32.1    
32.3    
32.5    
32.7    
32.9    
33.1    
33.3    
33.5    
33.8    
34.0    
34.2    
34.4    
34.6    
34.8    
35.0    
35.2    
35.4    
35.6    
35.8    
36.0    
36.2    
36.5    
36.7    
36.9    
37.1    
37.3    
37.5    
37.7    
37.9    
38.1    
38.3    
38.5    
38.8    
39.0    
39.2    
39.4    
39.6    
39.8    
40.0    
40.2    
40.4    
40.6    
40.8    
41.0    
41.2    
41.5    
41.7    
41.9    
42.1    
42.3    
42.5    
42.7    
42.9    
43.1    
43.3    
43.5    
43.8    
44.0    
44.2    
44.4    
44.6    
44.8    
45.0    
45.2    
45.4    
45.6    
45.8    
46.0    
46.2    
46.5    
46.7    
46.9    
47.1    
47.3    
47.5    
47.7    
47.9    
48.1    
48.3    
48.5    
48.8    
49.0    
49.2    
49.4    
49.6    
49.8    
50.0    
50.2    
50.4    
50.6    
50.8    
51.0    
51.2    
51.5    
51.7    
51.9    
52.1    
52.3    
52.5    
52.7    
52.9    
53.1    
53.3    
53.5    
53.8    
54.0    
54.2    
54.4    
54.6    
54.8    
55.0    
55.2    
55.4    
55.6    
55.8    
56.0    
56.2    
56.5    
56.7    
56.9    
57.1    
57.3    
57.5    
57.7    
57.9    
58.1    
58.3    
58.5    
58.8    
59.0    
59.2    
59.4    
59.6    
59.8    
60.0    
60.2    
60.4    
60.6    
60.8    
61.0    
61.3    
61.5    
61.7    
61.9    
62.1    
62.3    
62.5    
62.7    
62.9    
63.1    
63.3    
63.5    
63.7    
64.0    
64.2    
64.4    
64.6    
64.8    
65.0    
65.2    
65.4    
65.6    
65.8    
66.0    
66.2    
66.5    
66.7    
66.9    
67.1    
67.3    
67.5    
67.7    
67.9    
68.1    
68.3    
68.5    
68.8    
69.0    
69.2    
69.4    
69.6    
69.8    
70.0    
70.2    
70.4    
70.6    
70.8    
71.0    
71.2    
71.5    
71.7    
71.9    
72.1    
72.3    
72.5    
72.7    
72.9    
73.1    
73.3    
73.5    
73.8    
74.0    
74.2    
74.4    
74.6    
74.8    
75.0    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.5    
76.7    
76.9    
77.1    
77.3    
77.5    
77.7    
77.9    
78.1    
78.3    
78.5    
78.8    
79.0    
79.2    
79.4    
79.6    
79.8    
80.0    
80.2    
80.4    
80.6    
80.8    
81.0    
81.2    
81.5    
81.7    
81.9    
82.1    
82.3    
82.5    
82.7    
82.9    
83.1    
83.3    
83.5    
83.8    
84.0    
84.2    
84.4    
84.6    
84.8    
85.0    
85.2    
85.4    
85.6    
85.8    
86.0    
86.2    
86.5    
86.7    
86.9    
87.1    
87.3    
87.5    
87.7    
87.9    
88.1    
88.3    
88.5    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.5    
91.7    
91.9    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.3    
93.5    
93.8    
94.0    
94.2    
94.4    
94.6    
94.8    
95.0    
95.2    
95.4    
95.6    
95.8    
96.0    
96.2    
96.5    
96.7    
96.9    
97.1    
97.3    
97.5    
97.7    
97.9    
98.1    
98.3    
98.5    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 10306, rend_intergenic: 7449  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18233, rend_intergenic: 17801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23575, rend_intergenic: 19313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29618, rend_intergenic: 27676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33127, rend_intergenic: 30201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37478, rend_intergenic: 33269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38455, rend_intergenic: 38212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47899, rend_intergenic: 38704  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67464, rend_intergenic: 48987  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74597, rend_intergenic: 74152  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81473, rend_intergenic: 79584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88685, rend_intergenic: 87073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100542, rend_intergenic: 99666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103510, rend_intergenic: 100905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109545, rend_intergenic: 105736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support