-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_13555557-13816180

-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.g13849.t1
Valid prediction for GlimmerHMM_glimmerT_20758-T1
Valid prediction for snap_scaffold_8-snap.2483-T1
Valid prediction for snap_scaffold_8-snap.2496-T1
Valid prediction for snap_scaffold_8-snap.2462-T1
Valid prediction for snap_scaffold_8-snap.2465-T1
Valid prediction for snap_scaffold_8-snap.2488-T1
Valid prediction for snap_scaffold_8-snap.2485-T1
Valid prediction for GlimmerHMM_glimmerT_20765-T1
Valid prediction for snap_scaffold_8-snap.2471-T1
Valid prediction for snap_scaffold_8-snap.2506-T1
Valid prediction for snap_scaffold_8-snap.2501-T1
Valid prediction for Augustus_model.g13845.t1
Valid prediction for snap_scaffold_8-snap.2468-T1
Valid prediction for GlimmerHMM_glimmerT_20767-T1
Valid prediction for snap_scaffold_8-snap.2497-T1
Valid prediction for snap_scaffold_8-snap.2477-T1
Valid prediction for snap_scaffold_8-snap.2476-T1
Valid prediction for Augustus_model.g13842.t1
Valid prediction for snap_scaffold_8-snap.2498-T1
Valid prediction for GlimmerHMM_glimmerT_20745-T1
Valid prediction for GlimmerHMM_glimmerT_20755-T1
Valid prediction for snap_scaffold_8-snap.2490-T1
Valid prediction for snap_scaffold_8-snap.2489-T1
Valid prediction for GlimmerHMM_glimmerT_20749-T1
Valid prediction for snap_scaffold_8-snap.2493-T1
Valid prediction for GlimmerHMM_glimmerT_20738-T1
Valid prediction for snap_scaffold_8-snap.2499-T1
Valid prediction for GlimmerHMM_glimmerT_20746-T1
Valid prediction for Augustus_model.g13848.t1
Valid prediction for snap_scaffold_8-snap.2475-T1
Valid prediction for GlimmerHMM_glimmerT_20762-T1
Valid prediction for Augustus_model.g13844.t1
Valid prediction for GlimmerHMM_glimmerT_20763-T1
Valid prediction for snap_scaffold_8-snap.2466-T1
Valid prediction for GlimmerHMM_glimmerT_20742-T1
Valid prediction for snap_scaffold_8-snap.2472-T1
Valid prediction for snap_scaffold_8-snap.2457-T1
Valid prediction for Augustus_model.g13847.t1
Valid prediction for GlimmerHMM_glimmerT_20750-T1
Valid prediction for snap_scaffold_8-snap.2505-T1
Valid prediction for snap_scaffold_8-snap.2487-T1
Valid prediction for snap_scaffold_8-snap.2459-T1
Valid prediction for GlimmerHMM_glimmerT_20759-T1
Valid prediction for GlimmerHMM_glimmerT_20756-T1
Valid prediction for Augustus_model.g13846.t1
Valid prediction for snap_scaffold_8-snap.2481-T1
Valid prediction for GlimmerHMM_glimmerT_20754-T1
Valid prediction for snap_scaffold_8-snap.2479-T1
Valid prediction for GlimmerHMM_glimmerT_20747-T1
Valid prediction for snap_scaffold_8-snap.2464-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_20752-T1
Valid prediction for snap_scaffold_8-snap.2507-T1
Valid prediction for Augustus_model.g13840.t1
Valid prediction for Augustus_model.g13839.t1
Valid prediction for GlimmerHMM_glimmerT_20766-T1
Valid prediction for snap_scaffold_8-snap.2458-T1
Valid prediction for snap_scaffold_8-snap.2482-T1
Couldn't classify 240571, 240637
Couldn't classify 241815, 242134
Sorry, prediction pasa_asmbl_52627.p1 fails validation.
(CAG)	 CA	240571-240637	GT	CAG
(GTA)	 AG	241815-242134	GG	AGG
Valid prediction for snap_scaffold_8-snap.2478-T1
Valid prediction for snap_scaffold_8-snap.2456-T1
Valid prediction for GlimmerHMM_glimmerT_20739-T1
Valid prediction for GlimmerHMM_glimmerT_20760-T1
Valid prediction for GlimmerHMM_glimmerT_20751-T1
Valid prediction for snap_scaffold_8-snap.2473-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_20753-T1
Valid prediction for GlimmerHMM_glimmerT_20737-T1
Valid prediction for GlimmerHMM_glimmerT_20761-T1
Valid prediction for snap_scaffold_8-snap.2460-T1
Valid prediction for snap_scaffold_8-snap.2492-T1
Valid prediction for snap_scaffold_8-snap.2502-T1
Valid prediction for GlimmerHMM_glimmerT_20764-T1
Valid prediction for snap_scaffold_8-snap.2504-T1
Valid prediction for snap_scaffold_8-snap.2467-T1
Valid prediction for GlimmerHMM_glimmerT_20744-T1
Valid prediction for snap_scaffold_8-snap.2495-T1
Valid prediction for snap_scaffold_8-snap.2494-T1
Valid prediction for snap_scaffold_8-snap.2463-T1
Valid prediction for Augustus_model.g13841.t1
Valid prediction for snap_scaffold_8-snap.2470-T1
Valid prediction for GlimmerHMM_glimmerT_20740-T1
Valid prediction for Augustus_model.g13843.t1
Valid prediction for snap_scaffold_8-snap.2469-T1
Valid prediction for snap_scaffold_8-snap.2491-T1
Valid prediction for snap_scaffold_8-snap.2474-T1
Valid prediction for snap_scaffold_8-snap.2480-T1
Valid prediction for Augustus_model.g13850.t1
Valid prediction for snap_scaffold_8-snap.2500-T1
Valid prediction for GlimmerHMM_glimmerT_20748-T1
Valid prediction for snap_scaffold_8-snap.2484-T1
Valid prediction for GlimmerHMM_glimmerT_20757-T1
Couldn't classify 243842, 244069
Couldn't classify 245659, 245693
Sorry, prediction pasa_asmbl_52290.p1 fails validation.
(CTA)	 AC	243842-244069	GT	AAG
(AGC)	 AG	245225-245342	GT	GGG
(ATT)	 AG	245659-245693	GT	ACG
-recovered pasa_asmbl_52290.p1, internal, 245225, 245342
-recovered pasa_asmbl_52290.p1, internal, 245659, 245693
Valid prediction for GlimmerHMM_glimmerT_20736-T1
Valid prediction for snap_scaffold_8-snap.2508-T1
Valid prediction for snap_scaffold_8-snap.2503-T1
Valid prediction for GlimmerHMM_glimmerT_20741-T1
Valid prediction for GlimmerHMM_glimmerT_20743-T1
Valid prediction for snap_scaffold_8-snap.2461-T1
Valid prediction for snap_scaffold_8-snap.2486-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18724, rend_intergenic: 11718  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33811, rend_intergenic: 24087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44484, rend_intergenic: 34298  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45942, rend_intergenic: 44765  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51346, rend_intergenic: 46019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54375, rend_intergenic: 51977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57321, rend_intergenic: 55239  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64277, rend_intergenic: 57403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67361, rend_intergenic: 64630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77028, rend_intergenic: 72056  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80343, rend_intergenic: 77479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90895, rend_intergenic: 85622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95739, rend_intergenic: 92051  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110006, rend_intergenic: 106265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125434, rend_intergenic: 118933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134703, rend_intergenic: 128285  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141024, rend_intergenic: 136567  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149271, rend_intergenic: 146602  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159710, rend_intergenic: 155018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163022, rend_intergenic: 159723  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184223, rend_intergenic: 168707  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202916, rend_intergenic: 191231  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 209299, rend_intergenic: 202921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219120, rend_intergenic: 209575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 243898, rend_intergenic: 232081  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251545, rend_intergenic: 250115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 260624
-exon list size: 379


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.6    
1.8    
2.1    
2.4    
2.6    
2.9    
3.1    
3.4    
3.7    
3.9    
4.2    
4.5    
4.7    
5.0    
5.2    
5.5    
5.8    
6.0    
6.3    
6.6    
6.8    
7.1    
7.3    
7.6    
7.9    
8.1    
8.4    
8.7    
8.9    
9.2    
9.4    
9.7    
10.0    
10.2    
10.5    
10.8    
11.0    
11.3    
11.5    
11.8    
12.1    
12.3    
12.6    
12.9    
13.1    
13.4    
13.6    
13.9    
14.2    
14.4    
14.7    
15.0    
15.2    
15.5    
15.7    
16.0    
16.3    
16.5    
16.8    
17.1    
17.3    
17.6    
17.8    
18.1    
18.4    
18.6    
18.9    
19.2    
19.4    
19.7    
19.9    
20.2    
20.5    
20.7    
21.0    
21.3    
21.5    
21.8    
22.0    
22.3    
22.6    
22.8    
23.1    
23.4    
23.6    
23.9    
24.1    
24.4    
24.7    
24.9    
25.2    
25.5    
25.7    
26.0    
26.2    
26.5    
26.8    
27.0    
27.3    
27.6    
27.8    
28.1    
28.3    
28.6    
28.9    
29.1    
29.4    
29.7    
29.9    
30.2    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.0    
32.3    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.1    
34.4    
34.6    
34.9    
35.2    
35.4    
35.7    
36.0    
36.2    
36.5    
36.7    
37.0    
37.3    
37.5    
37.8    
38.1    
38.3    
38.6    
38.8    
39.1    
39.4    
39.6    
39.9    
40.2    
40.4    
40.7    
40.9    
41.2    
41.5    
41.7    
42.0    
42.3    
42.5    
42.8    
43.0    
43.3    
43.6    
43.8    
44.1    
44.4    
44.6    
44.9    
45.1    
45.4    
45.7    
45.9    
46.2    
46.5    
46.7    
47.0    
47.2    
47.5    
47.8    
48.0    
48.3    
48.6    
48.8    
49.1    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
50.9    
51.2    
51.4    
51.7    
52.0    
52.2    
52.5    
52.8    
53.0    
53.3    
53.5    
53.8    
54.1    
54.3    
54.6    
54.9    
55.1    
55.4    
55.6    
55.9    
56.2    
56.4    
56.7    
57.0    
57.2    
57.5    
57.7    
58.0    
58.3    
58.5    
58.8    
59.1    
59.3    
59.6    
59.8    
60.1    
60.4    
60.6    
60.9    
61.2    
61.4    
61.7    
61.9    
62.2    
62.5    
62.7    
63.0    
63.3    
63.5    
63.8    
64.0    
64.3    
64.6    
64.8    
65.1    
65.4    
65.6    
65.9    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.7    
68.0    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.8    
70.1    
70.3    
70.6    
70.9    
71.1    
71.4    
71.7    
71.9    
72.2    
72.4    
72.7    
73.0    
73.2    
73.5    
73.8    
74.0    
74.3    
74.5    
74.8    
75.1    
75.3    
75.6    
75.9    
76.1    
76.4    
76.6    
76.9    
77.2    
77.4    
77.7    
78.0    
78.2    
78.5    
78.7    
79.0    
79.3    
79.5    
79.8    
80.1    
80.3    
80.6    
80.8    
81.1    
81.4    
81.6    
81.9    
82.2    
82.4    
82.7    
82.9    
83.2    
83.5    
83.7    
84.0    
84.3    
84.5    
84.8    
85.0    
85.3    
85.6    
85.8    
86.1    
86.4    
86.6    
86.9    
87.1    
87.4    
87.7    
87.9    
88.2    
88.5    
88.7    
89.0    
89.2    
89.5    
89.8    
90.0    
90.3    
90.6    
90.8    
91.1    
91.3    
91.6    
91.9    
92.1    
92.4    
92.7    
92.9    
93.2    
93.4    
93.7    
94.0    
94.2    
94.5    
94.8    
95.0    
95.3    
95.5    
95.8    
96.1    
96.3    
96.6    
96.9    
97.1    
97.4    
97.6    
97.9    
98.2    
98.4    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 18724, rend_intergenic: 11718  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33811, rend_intergenic: 24087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44484, rend_intergenic: 34298  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45942, rend_intergenic: 44765  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51346, rend_intergenic: 46019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54375, rend_intergenic: 51977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57321, rend_intergenic: 55239  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64277, rend_intergenic: 57403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67361, rend_intergenic: 64630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77028, rend_intergenic: 72056  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80343, rend_intergenic: 77479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90895, rend_intergenic: 85622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95739, rend_intergenic: 92051  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110006, rend_intergenic: 106265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125434, rend_intergenic: 118933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134703, rend_intergenic: 128285  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141024, rend_intergenic: 136567  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149271, rend_intergenic: 146602  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159710, rend_intergenic: 155018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163022, rend_intergenic: 159723  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184223, rend_intergenic: 168707  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202916, rend_intergenic: 191231  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 209299, rend_intergenic: 202921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219120, rend_intergenic: 209575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 243898, rend_intergenic: 232081  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251545, rend_intergenic: 250115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 9 predictions persist after filtering for low support