-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_2271989-2414036

-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_26671-T1
Valid prediction for GlimmerHMM_glimmerT_26666-T1
Valid prediction for GlimmerHMM_glimmerT_26673-T1
Valid prediction for snap_scaffold_11-snap.578-T1
Valid prediction for GlimmerHMM_glimmerT_26659-T1
Valid prediction for CodingQuarry_transcript_7995-T1
Valid prediction for HiQ_model.g17649.t1
Valid prediction for GlimmerHMM_glimmerT_26656-T1
Valid prediction for snap_scaffold_11-snap.594-T1
Valid prediction for GlimmerHMM_glimmerT_26668-T1
Valid prediction for snap_scaffold_11-snap.596-T1
Valid prediction for snap_scaffold_11-snap.580-T1
Valid prediction for snap_scaffold_11-snap.590-T1
Valid prediction for snap_scaffold_11-snap.597-T1
Valid prediction for Augustus_model.g17654.t1
Valid prediction for GlimmerHMM_glimmerT_26667-T1
Valid prediction for snap_scaffold_11-snap.592-T1
Valid prediction for snap_scaffold_11-snap.574-T1
Valid prediction for snap_scaffold_11-snap.601-T1
Valid prediction for GlimmerHMM_glimmerT_26662-T1
Valid prediction for GlimmerHMM_glimmerT_26661-T1
Valid prediction for snap_scaffold_11-snap.605-T1
Valid prediction for Augustus_model.g17656.t1
Valid prediction for snap_scaffold_11-snap.602-T1
Valid prediction for GlimmerHMM_glimmerT_26672-T1
Valid prediction for Augustus_model.g17647.t1
Valid prediction for snap_scaffold_11-snap.595-T1
Valid prediction for snap_scaffold_11-snap.569-T1
Valid prediction for snap_scaffold_11-snap.606-T1
Valid prediction for snap_scaffold_11-snap.571-T1
Valid prediction for GlimmerHMM_glimmerT_26675-T1
Valid prediction for snap_scaffold_11-snap.579-T1
Valid prediction for snap_scaffold_11-snap.588-T1
Valid prediction for GlimmerHMM_glimmerT_26677-T1
Valid prediction for HiQ_model.g17655.t1
Valid prediction for GlimmerHMM_glimmerT_26652-T1
Valid prediction for snap_scaffold_11-snap.586-T1
Valid prediction for snap_scaffold_11-snap.584-T1
Valid prediction for GlimmerHMM_glimmerT_26654-T1
Valid prediction for GlimmerHMM_glimmerT_26669-T1
Valid prediction for snap_scaffold_11-snap.572-T1
Valid prediction for snap_scaffold_11-snap.575-T1
Valid prediction for snap_scaffold_11-snap.577-T1
Valid prediction for pasa_asmbl_5367.p1
Valid prediction for snap_scaffold_11-snap.598-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 Augustus_model.g17659.t1
Valid prediction for Augustus_model.g17650.t1
Valid prediction for snap_scaffold_11-snap.600-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_11-snap.607-T1
Valid prediction for GlimmerHMM_glimmerT_26664-T1
Valid prediction for Augustus_model.g17653.t1
Valid prediction for snap_scaffold_11-snap.589-T1
Valid prediction for snap_scaffold_11-snap.573-T1
Valid prediction for snap_scaffold_11-snap.585-T1
Valid prediction for snap_scaffold_11-snap.593-T1
Valid prediction for GlimmerHMM_glimmerT_26665-T1
Couldn't classify 128669, 129202
Sorry, prediction pasa_asmbl_6490.p1 fails validation.
(CCT)	 AG	128669-129202	GT	AGG
(TGT)	 AG	129832-130059	GT	AGG
(GTT)	 AG	130351-130490	GT	AGG
(GGA)	 AG	130697-130782	GT	CGG
(GAC)	 AG	130899-131011	GT	AAG
(CTG)	 AG	131131-131227	GT	ATG
(CTC)	 AG	132281-132363	GA	AGG
-recovered pasa_asmbl_6490.p1, terminal, 132281, 132363
-recovered pasa_asmbl_6490.p1, internal, 128669, 129202
-recovered pasa_asmbl_6490.p1, internal, 129832, 130059
-recovered pasa_asmbl_6490.p1, internal, 130351, 130490
-recovered pasa_asmbl_6490.p1, internal, 130697, 130782
-recovered pasa_asmbl_6490.p1, internal, 130899, 131011
-recovered pasa_asmbl_6490.p1, internal, 131131, 131227
Valid prediction for snap_scaffold_11-snap.583-T1
Valid prediction for GlimmerHMM_glimmerT_26678-T1
Valid prediction for snap_scaffold_11-snap.587-T1
Valid prediction for snap_scaffold_11-snap.576-T1
Valid prediction for CodingQuarry_transcript_7996-T1
Valid prediction for snap_scaffold_11-snap.599-T1
Valid prediction for Augustus_model.g17651.t1
Valid prediction for snap_scaffold_11-snap.570-T1
Valid prediction for GlimmerHMM_glimmerT_26657-T1
Valid prediction for Augustus_model.g17657.t1
Valid prediction for snap_scaffold_11-snap.603-T1
Valid prediction for snap_scaffold_11-snap.581-T1
Valid prediction for GlimmerHMM_glimmerT_26663-T1
Valid prediction for snap_scaffold_11-snap.582-T1
Valid prediction for GlimmerHMM_glimmerT_26653-T1
Valid prediction for GlimmerHMM_glimmerT_26670-T1
Valid prediction for GlimmerHMM_glimmerT_26674-T1
Valid prediction for GlimmerHMM_glimmerT_26679-T1
Valid prediction for Augustus_model.g17648.t1
Valid prediction for snap_scaffold_11-snap.591-T1
Valid prediction for Augustus_model.g17652.t1
Valid prediction for GlimmerHMM_glimmerT_26676-T1
Valid prediction for GlimmerHMM_glimmerT_26660-T1
Valid prediction for snap_scaffold_11-snap.604-T1
Valid prediction for GlimmerHMM_glimmerT_26658-T1
Valid prediction for GlimmerHMM_glimmerT_26655-T1
Valid prediction for Augustus_model.g17658.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3877, rend_intergenic: 3549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7840, rend_intergenic: 4358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13036, rend_intergenic: 8206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21630, rend_intergenic: 17581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49228, rend_intergenic: 33815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59151, rend_intergenic: 57072  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61546, rend_intergenic: 59460  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63645, rend_intergenic: 62764  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71753, rend_intergenic: 64287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76825, rend_intergenic: 74187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114665, rend_intergenic: 94161  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120655, rend_intergenic: 115597  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124421, rend_intergenic: 120665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129968, rend_intergenic: 125075  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138005, rend_intergenic: 130673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 142048
-exon list size: 332


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.9    
4.2    
4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
29.0    
29.3    
29.6    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.4    
70.7    
71.0    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 3877, rend_intergenic: 3549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7840, rend_intergenic: 4358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13036, rend_intergenic: 8206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21630, rend_intergenic: 17581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49228, rend_intergenic: 33815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59151, rend_intergenic: 57072  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61546, rend_intergenic: 59460  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63645, rend_intergenic: 62764  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71753, rend_intergenic: 64287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76825, rend_intergenic: 74187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114665, rend_intergenic: 94161  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120655, rend_intergenic: 115597  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124421, rend_intergenic: 120665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129968, rend_intergenic: 125075  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138005, rend_intergenic: 130673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support