-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_17/scaffold_17_8420764-8556114

-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_41652-T1
Valid prediction for snap_scaffold_17-snap.1707-T1
Valid prediction for GeneMark_model.71687_t
Valid prediction for GeneMark_model.71677_t
Valid prediction for GeneMark_model.71684_t
Valid prediction for GeneMark_model.71703_t
Valid prediction for GeneMark_model.71706_t
Valid prediction for HiQ_model.g27907.t1
Valid prediction for GlimmerHMM_glimmerT_41648-T1
Valid prediction for GeneMark_model.71689_t
Valid prediction for HiQ_model.g27905.t1
Valid prediction for GeneMark_model.71676_t
Valid prediction for snap_scaffold_17-snap.1698-T1
Valid prediction for GeneMark_model.71697_t
Valid prediction for GeneMark_model.71690_t
Valid prediction for GeneMark_model.71701_t
Valid prediction for GlimmerHMM_glimmerT_41635-T1
Valid prediction for CodingQuarry_transcript_22022-T1
Valid prediction for Augustus_model.g27900.t1
Valid prediction for CodingQuarry_transcript_22023-T1
Valid prediction for snap_scaffold_17-snap.1686-T1
Valid prediction for Augustus_model.g27898.t1
Valid prediction for CodingQuarry_transcript_22025-T1
Valid prediction for GeneMark_model.71686_t
Valid prediction for snap_scaffold_17-snap.1681-T1
Valid prediction for GeneMark_model.71692_t
Valid prediction for GeneMark_model.71674_t
Valid prediction for snap_scaffold_17-snap.1696-T1
Valid prediction for GlimmerHMM_glimmerT_41650-T1
Valid prediction for Augustus_model.g27906.t1
Valid prediction for pasa_asmbl_18125.p2
Valid prediction for snap_scaffold_17-snap.1708-T1
Valid prediction for snap_scaffold_17-snap.1684-T1
Valid prediction for GlimmerHMM_glimmerT_41653-T1
Valid prediction for GeneMark_model.71707_t
Valid prediction for GlimmerHMM_glimmerT_41642-T1
Valid prediction for GlimmerHMM_glimmerT_41641-T1
Valid prediction for snap_scaffold_17-snap.1688-T1
Valid prediction for pasa_asmbl_18122.p1
Valid prediction for GlimmerHMM_glimmerT_41638-T1
Valid prediction for GeneMark_model.71696_t
Valid prediction for GeneMark_model.71682_t
Valid prediction for GlimmerHMM_glimmerT_41637-T1
Valid prediction for GeneMark_model.71679_t
Valid prediction for snap_scaffold_17-snap.1710-T1
Valid prediction for snap_scaffold_17-snap.1699-T1
Valid prediction for GlimmerHMM_glimmerT_41643-T1
Valid prediction for CodingQuarry_transcript_22024-T1
Valid prediction for snap_scaffold_17-snap.1695-T1
Valid prediction for snap_scaffold_17-snap.1709-T1
Valid prediction for GlimmerHMM_glimmerT_41646-T1
Valid prediction for snap_scaffold_17-snap.1691-T1
Valid prediction for snap_scaffold_17-snap.1682-T1
Valid prediction for snap_scaffold_17-snap.1704-T1
Valid prediction for GeneMark_model.71699_t

-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_41651-T1
Valid prediction for snap_scaffold_17-snap.1683-T1
Valid prediction for GeneMark_model.71680_t
Valid prediction for GeneMark_model.71704_t
Valid prediction for GeneMark_model.71693_t
Valid prediction for GeneMark_model.71700_t
Valid prediction for GeneMark_model.71702_t
Valid prediction for GeneMark_model.71675_t
Valid prediction for Augustus_model.g27903.t1
Valid prediction for snap_scaffold_17-snap.1700-T1
Valid prediction for snap_scaffold_17-snap.1705-T1
Valid prediction for GeneMark_model.71678_t
Valid prediction for snap_scaffold_17-snap.1703-T1
Valid prediction for snap_scaffold_17-snap.1697-T1
Valid prediction for snap_scaffold_17-snap.1685-T1
Valid prediction for GeneMark_model.71694_t
Valid prediction for GeneMark_model.71683_t
Valid prediction for snap_scaffold_17-snap.1680-T1
Valid prediction for GeneMark_model.71695_t
Valid prediction for GeneMark_model.71688_t
Couldn't classify 125716, 126001
Sorry, prediction pasa_asmbl_19144.p1 fails validation.
(GAC)	 GG	125716-126001	GT	CTG
(CCA)	 AG	126455-126520	GT	CGG
(GCT)	 AG	126652-126774	GT	AGG
(ATG)	 AG	126874-126998	GA	AAG
-recovered pasa_asmbl_19144.p1, terminal, 126874, 126998
-recovered pasa_asmbl_19144.p1, internal, 126455, 126520
-recovered pasa_asmbl_19144.p1, internal, 126652, 126774
Valid prediction for GlimmerHMM_glimmerT_41640-T1
Valid prediction for GlimmerHMM_glimmerT_41639-T1
Valid prediction for GlimmerHMM_glimmerT_41644-T1
Valid prediction for snap_scaffold_17-snap.1690-T1
Valid prediction for GeneMark_model.71685_t
Valid prediction for GlimmerHMM_glimmerT_41649-T1
Valid prediction for snap_scaffold_17-snap.1689-T1
Valid prediction for HiQ_model.g27904.t1
Valid prediction for snap_scaffold_17-snap.1702-T1
Valid prediction for snap_scaffold_17-snap.1694-T1
Valid prediction for Augustus_model.g27902.t1
Valid prediction for GeneMark_model.71698_t
Valid prediction for GeneMark_model.71691_t
Valid prediction for GlimmerHMM_glimmerT_41636-T1
Valid prediction for snap_scaffold_17-snap.1701-T1
Valid prediction for Augustus_model.g27899.t1
Valid prediction for GeneMark_model.71681_t
Valid prediction for GeneMark_model.71705_t
Valid prediction for snap_scaffold_17-snap.1687-T1
Valid prediction for snap_scaffold_17-snap.1692-T1
Valid prediction for snap_scaffold_17-snap.1706-T1
Valid prediction for snap_scaffold_17-snap.1693-T1
Valid prediction for GlimmerHMM_glimmerT_41645-T1
Valid prediction for Augustus_model.g27901.t1
Valid prediction for GlimmerHMM_glimmerT_41647-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11414, rend_intergenic: 10227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32374, rend_intergenic: 27748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34251, rend_intergenic: 34232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49826, rend_intergenic: 47124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57328, rend_intergenic: 50254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62116, rend_intergenic: 57559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76118, rend_intergenic: 73959  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105162, rend_intergenic: 104377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109757, rend_intergenic: 106229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 135351
-exon list size: 418


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.4    
1.7    
1.9    
2.1    
2.4    
2.6    
2.9    
3.1    
3.3    
3.6    
3.8    
4.0    
4.3    
4.5    
4.8    
5.0    
5.2    
5.5    
5.7    
6.0    
6.2    
6.4    
6.7    
6.9    
7.1    
7.4    
7.6    
7.9    
8.1    
8.3    
8.6    
8.8    
9.0    
9.3    
9.5    
9.8    
10.0    
10.2    
10.5    
10.7    
11.0    
11.2    
11.4    
11.7    
11.9    
12.1    
12.4    
12.6    
12.9    
13.1    
13.3    
13.6    
13.8    
14.0    
14.3    
14.5    
14.8    
15.0    
15.2    
15.5    
15.7    
16.0    
16.2    
16.4    
16.7    
16.9    
17.1    
17.4    
17.6    
17.9    
18.1    
18.3    
18.6    
18.8    
19.0    
19.3    
19.5    
19.8    
20.0    
20.2    
20.5    
20.7    
21.0    
21.2    
21.4    
21.7    
21.9    
22.1    
22.4    
22.6    
22.9    
23.1    
23.3    
23.6    
23.8    
24.0    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
26.0    
26.2    
26.4    
26.7    
26.9    
27.1    
27.4    
27.6    
27.9    
28.1    
28.3    
28.6    
28.8    
29.0    
29.3    
29.5    
29.8    
30.0    
30.2    
30.5    
30.7    
31.0    
31.2    
31.4    
31.7    
31.9    
32.1    
32.4    
32.6    
32.9    
33.1    
33.3    
33.6    
33.8    
34.0    
34.3    
34.5    
34.8    
35.0    
35.2    
35.5    
35.7    
36.0    
36.2    
36.4    
36.7    
36.9    
37.1    
37.4    
37.6    
37.9    
38.1    
38.3    
38.6    
38.8    
39.0    
39.3    
39.5    
39.8    
40.0    
40.2    
40.5    
40.7    
41.0    
41.2    
41.4    
41.7    
41.9    
42.1    
42.4    
42.6    
42.9    
43.1    
43.3    
43.6    
43.8    
44.0    
44.3    
44.5    
44.8    
45.0    
45.2    
45.5    
45.7    
46.0    
46.2    
46.4    
46.7    
46.9    
47.1    
47.4    
47.6    
47.9    
48.1    
48.3    
48.6    
48.8    
49.0    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
51.0    
51.2    
51.4    
51.7    
51.9    
52.1    
52.4    
52.6    
52.9    
53.1    
53.3    
53.6    
53.8    
54.0    
54.3    
54.5    
54.8    
55.0    
55.2    
55.5    
55.7    
56.0    
56.2    
56.4    
56.7    
56.9    
57.1    
57.4    
57.6    
57.9    
58.1    
58.3    
58.6    
58.8    
59.0    
59.3    
59.5    
59.8    
60.0    
60.2    
60.5    
60.7    
61.0    
61.2    
61.4    
61.7    
61.9    
62.1    
62.4    
62.6    
62.9    
63.1    
63.3    
63.6    
63.8    
64.0    
64.3    
64.5    
64.8    
65.0    
65.2    
65.5    
65.7    
66.0    
66.2    
66.4    
66.7    
66.9    
67.1    
67.4    
67.6    
67.9    
68.1    
68.3    
68.6    
68.8    
69.0    
69.3    
69.5    
69.8    
70.0    
70.2    
70.5    
70.7    
71.0    
71.2    
71.4    
71.7    
71.9    
72.1    
72.4    
72.6    
72.9    
73.1    
73.3    
73.6    
73.8    
74.0    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
76.0    
76.2    
76.4    
76.7    
76.9    
77.1    
77.4    
77.6    
77.9    
78.1    
78.3    
78.6    
78.8    
79.0    
79.3    
79.5    
79.8    
80.0    
80.2    
80.5    
80.7    
81.0    
81.2    
81.4    
81.7    
81.9    
82.1    
82.4    
82.6    
82.9    
83.1    
83.3    
83.6    
83.8    
84.0    
84.3    
84.5    
84.8    
85.0    
85.2    
85.5    
85.7    
86.0    
86.2    
86.4    
86.7    
86.9    
87.1    
87.4    
87.6    
87.9    
88.1    
88.3    
88.6    
88.8    
89.0    
89.3    
89.5    
89.8    
90.0    
90.2    
90.5    
90.7    
91.0    
91.2    
91.4    
91.7    
91.9    
92.1    
92.4    
92.6    
92.9    
93.1    
93.3    
93.6    
93.8    
94.0    
94.3    
94.5    
94.8    
95.0    
95.2    
95.5    
95.7    
96.0    
96.2    
96.4    
96.7    
96.9    
97.1    
97.4    
97.6    
97.9    
98.1    
98.3    
98.6    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 11414, rend_intergenic: 10227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32374, rend_intergenic: 27748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34251, rend_intergenic: 34232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49826, rend_intergenic: 47124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57328, rend_intergenic: 50254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62116, rend_intergenic: 57559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76118, rend_intergenic: 73959  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105162, rend_intergenic: 104377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109757, rend_intergenic: 106229  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