-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_6383367-6556136

-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: +)Couldn't classify 120699, 120796
Sorry, prediction pasa_asmbl_47004.p1 fails validation.
(CTA)	 TA	120699-120796	GT	TGG
(CAT)	 AG	121034-121253	CT	GAC
-recovered pasa_asmbl_47004.p1, terminal, 121034, 121253
Valid prediction for GlimmerHMM_glimmerT_14815-T1
Valid prediction for GlimmerHMM_glimmerT_14804-T1
Valid prediction for snap_scaffold_6-snap.1461-T1
Valid prediction for snap_scaffold_6-snap.1462-T1
Valid prediction for GlimmerHMM_glimmerT_14831-T1
Valid prediction for Augustus_model.g9800.t1
Valid prediction for snap_scaffold_6-snap.1463-T1
Valid prediction for snap_scaffold_6-snap.1455-T1
Valid prediction for GlimmerHMM_glimmerT_14829-T1
Valid prediction for snap_scaffold_6-snap.1458-T1
Valid prediction for GlimmerHMM_glimmerT_14803-T1
Valid prediction for GlimmerHMM_glimmerT_14827-T1
Valid prediction for snap_scaffold_6-snap.1448-T1
Valid prediction for snap_scaffold_6-snap.1451-T1
Valid prediction for GlimmerHMM_glimmerT_14814-T1
Valid prediction for GlimmerHMM_glimmerT_14826-T1
Valid prediction for snap_scaffold_6-snap.1469-T1
Valid prediction for GlimmerHMM_glimmerT_14820-T1
Valid prediction for snap_scaffold_6-snap.1477-T1
Valid prediction for snap_scaffold_6-snap.1456-T1
Valid prediction for GlimmerHMM_glimmerT_14812-T1
Valid prediction for snap_scaffold_6-snap.1468-T1
Valid prediction for GlimmerHMM_glimmerT_14818-T1
Valid prediction for Augustus_model.g9798.t1
Valid prediction for snap_scaffold_6-snap.1473-T1
Valid prediction for HiQ_model.g9803.t1
Valid prediction for snap_scaffold_6-snap.1457-T1
Valid prediction for GlimmerHMM_glimmerT_14808-T1
Valid prediction for snap_scaffold_6-snap.1453-T1
Valid prediction for snap_scaffold_6-snap.1478-T1
Valid prediction for GlimmerHMM_glimmerT_14809-T1
Valid prediction for Augustus_model.g9807.t1
Valid prediction for snap_scaffold_6-snap.1452-T1
Valid prediction for GlimmerHMM_glimmerT_14817-T1
Valid prediction for snap_scaffold_6-snap.1465-T1
Valid prediction for GlimmerHMM_glimmerT_14821-T1
Valid prediction for Augustus_model.g9799.t1
Valid prediction for snap_scaffold_6-snap.1450-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 snap_scaffold_6-snap.1464-T1
Valid prediction for GlimmerHMM_glimmerT_14832-T1
Valid prediction for GlimmerHMM_glimmerT_14810-T1
Valid prediction for GlimmerHMM_glimmerT_14819-T1
Valid prediction for snap_scaffold_6-snap.1467-T1
Valid prediction for snap_scaffold_6-snap.1476-T1
Valid prediction for snap_scaffold_6-snap.1475-T1
Valid prediction for Augustus_model.g9802.t1
Valid prediction for pasa_asmbl_48457.p1
Valid prediction for pasa_asmbl_48459.p1
Valid prediction for Augustus_model.g9797.t1
Valid prediction for Augustus_model.g9806.t1
Valid prediction for snap_scaffold_6-snap.1471-T1
Valid prediction for GlimmerHMM_glimmerT_14830-T1
Valid prediction for snap_scaffold_6-snap.1470-T1
Valid prediction for GlimmerHMM_glimmerT_14806-T1
Valid prediction for snap_scaffold_6-snap.1474-T1
Valid prediction for snap_scaffold_6-snap.1479-T1
Valid prediction for GlimmerHMM_glimmerT_14828-T1
Valid prediction for snap_scaffold_6-snap.1447-T1
Valid prediction for snap_scaffold_6-snap.1449-T1
Valid prediction for GlimmerHMM_glimmerT_14816-T1
Valid prediction for GlimmerHMM_glimmerT_14822-T1
Valid prediction for snap_scaffold_6-snap.1466-T1
Valid prediction for CodingQuarry_transcript_55072-T1
Valid prediction for GlimmerHMM_glimmerT_14825-T1
Valid prediction for snap_scaffold_6-snap.1472-T1
Valid prediction for GlimmerHMM_glimmerT_14807-T1
Valid prediction for HiQ_model.g9808.t1
Valid prediction for GlimmerHMM_glimmerT_14811-T1
Valid prediction for GlimmerHMM_glimmerT_14805-T1
Valid prediction for Augustus_model.g9796.t1
Valid prediction for snap_scaffold_6-snap.1459-T1
Valid prediction for Augustus_model.g9805.t1
Valid prediction for HiQ_model.g9804.t1
Valid prediction for GlimmerHMM_glimmerT_14823-T1
Valid prediction for Augustus_model.g9801.t1
Valid prediction for GlimmerHMM_glimmerT_14813-T1
Valid prediction for snap_scaffold_6-snap.1460-T1
Valid prediction for GlimmerHMM_glimmerT_14824-T1
Valid prediction for snap_scaffold_6-snap.1454-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 61798, rend_intergenic: 61795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 167746, rend_intergenic: 167743  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 4094, rend_intergenic: 2674  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12655, rend_intergenic: 12043  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33389, rend_intergenic: 15912  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41626, rend_intergenic: 38620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83530, rend_intergenic: 82820  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93559, rend_intergenic: 87877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100149, rend_intergenic: 93619  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143449, rend_intergenic: 137359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159030, rend_intergenic: 154864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 172770
-exon list size: 282


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.1    
2.5    
2.8    
3.2    
3.5    
3.9    
4.2    
4.6    
4.9    
5.3    
5.6    
6.0    
6.3    
6.7    
7.0    
7.4    
7.7    
8.1    
8.5    
8.8    
9.2    
9.5    
9.9    
10.2    
10.6    
10.9    
11.3    
11.6    
12.0    
12.3    
12.7    
13.0    
13.4    
13.7    
14.1    
14.4    
14.8    
15.1    
15.5    
15.8    
16.2    
16.5    
16.9    
17.3    
17.6    
18.0    
18.3    
18.7    
19.0    
19.4    
19.7    
20.1    
20.4    
20.8    
21.1    
21.5    
21.8    
22.2    
22.5    
22.9    
23.2    
23.6    
23.9    
24.3    
24.6    
25.0    
25.4    
25.7    
26.1    
26.4    
26.8    
27.1    
27.5    
27.8    
28.2    
28.5    
28.9    
29.2    
29.6    
29.9    
30.3    
30.6    
31.0    
31.3    
31.7    
32.0    
32.4    
32.7    
33.1    
33.5    
33.8    
34.2    
34.5    
34.9    
35.2    
35.6    
35.9    
36.3    
36.6    
37.0    
37.3    
37.7    
38.0    
38.4    
38.7    
39.1    
39.4    
39.8    
40.1    
40.5    
40.8    
41.2    
41.5    
41.9    
42.3    
42.6    
43.0    
43.3    
43.7    
44.0    
44.4    
44.7    
45.1    
45.4    
45.8    
46.1    
46.5    
46.8    
47.2    
47.5    
47.9    
48.2    
48.6    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.4    
51.8    
52.1    
52.5    
52.8    
53.2    
53.5    
53.9    
54.2    
54.6    
54.9    
55.3    
55.6    
56.0    
56.3    
56.7    
57.0    
57.4    
57.7    
58.1    
58.5    
58.8    
59.2    
59.5    
59.9    
60.2    
60.6    
60.9    
61.3    
61.6    
62.0    
62.3    
62.7    
63.0    
63.4    
63.7    
64.1    
64.4    
64.8    
65.1    
65.5    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.3    
68.7    
69.0    
69.4    
69.7    
70.1    
70.4    
70.8    
71.1    
71.5    
71.8    
72.2    
72.5    
72.9    
73.2    
73.6    
73.9    
74.3    
74.6    
75.0    
75.4    
75.7    
76.1    
76.4    
76.8    
77.1    
77.5    
77.8    
78.2    
78.5    
78.9    
79.2    
79.6    
79.9    
80.3    
80.6    
81.0    
81.3    
81.7    
82.0    
82.4    
82.7    
83.1    
83.5    
83.8    
84.2    
84.5    
84.9    
85.2    
85.6    
85.9    
86.3    
86.6    
87.0    
87.3    
87.7    
88.0    
88.4    
88.7    
89.1    
89.4    
89.8    
90.1    
90.5    
90.8    
91.2    
91.5    
91.9    
92.3    
92.6    
93.0    
93.3    
93.7    
94.0    
94.4    
94.7    
95.1    
95.4    
95.8    
96.1    
96.5    
96.8    
97.2    
97.5    
97.9    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 30 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 61798, rend_intergenic: 61795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 167746, rend_intergenic: 167743  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 4094, rend_intergenic: 2674  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12655, rend_intergenic: 12043  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33389, rend_intergenic: 15912  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41626, rend_intergenic: 38620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83530, rend_intergenic: 82820  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93559, rend_intergenic: 87877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100149, rend_intergenic: 93619  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143449, rend_intergenic: 137359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159030, rend_intergenic: 154864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support