-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_3215129-3340623

-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 snap_scaffold_22-snap.548-T1
Valid prediction for Augustus_model.g32794.t1
Valid prediction for GlimmerHMM_glimmerT_49134-T1
Valid prediction for GlimmerHMM_glimmerT_49146-T1
Valid prediction for snap_scaffold_22-snap.546-T1
Valid prediction for snap_scaffold_22-snap.555-T1
Valid prediction for snap_scaffold_22-snap.565-T1
Valid prediction for snap_scaffold_22-snap.556-T1
Valid prediction for snap_scaffold_22-snap.563-T1
Valid prediction for Augustus_model.g32802.t1
Valid prediction for GlimmerHMM_glimmerT_49137-T1
Valid prediction for snap_scaffold_22-snap.562-T1
Valid prediction for GlimmerHMM_glimmerT_49133-T1
Valid prediction for snap_scaffold_22-snap.542-T1
Valid prediction for Augustus_model.g32795.t1
Valid prediction for Augustus_model.g32797.t1
Valid prediction for snap_scaffold_22-snap.539-T1
Valid prediction for GlimmerHMM_glimmerT_49129-T1
Valid prediction for GlimmerHMM_glimmerT_49127-T1
Valid prediction for GlimmerHMM_glimmerT_49143-T1
Valid prediction for Augustus_model.g32804.t1
Valid prediction for snap_scaffold_22-snap.549-T1
Valid prediction for snap_scaffold_22-snap.569-T1
Valid prediction for Augustus_model.g32798.t1
Valid prediction for GlimmerHMM_glimmerT_49147-T1
Valid prediction for GlimmerHMM_glimmerT_49141-T1
Valid prediction for GlimmerHMM_glimmerT_49140-T1
Valid prediction for snap_scaffold_22-snap.543-T1
Valid prediction for GlimmerHMM_glimmerT_49130-T1
Valid prediction for GlimmerHMM_glimmerT_49148-T1
Valid prediction for GlimmerHMM_glimmerT_49131-T1
Valid prediction for GlimmerHMM_glimmerT_49138-T1
Valid prediction for snap_scaffold_22-snap.551-T1
Valid prediction for GlimmerHMM_glimmerT_49125-T1
Valid prediction for Augustus_model.g32793.t1
Valid prediction for GlimmerHMM_glimmerT_49126-T1
Valid prediction for snap_scaffold_22-snap.552-T1
Valid prediction for snap_scaffold_22-snap.568-T1
Valid prediction for GlimmerHMM_glimmerT_49124-T1
Valid prediction for GlimmerHMM_glimmerT_49144-T1
Valid prediction for Augustus_model.g32796.t1
Valid prediction for snap_scaffold_22-snap.545-T1
Valid prediction for snap_scaffold_22-snap.557-T1
Valid prediction for snap_scaffold_22-snap.570-T1
Valid prediction for snap_scaffold_22-snap.566-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_22-snap.561-T1
Valid prediction for snap_scaffold_22-snap.567-T1
Valid prediction for GlimmerHMM_glimmerT_49135-T1
Valid prediction for snap_scaffold_22-snap.572-T1
Valid prediction for snap_scaffold_22-snap.554-T1
Valid prediction for GlimmerHMM_glimmerT_49132-T1
Valid prediction for snap_scaffold_22-snap.547-T1
Valid prediction for Augustus_model.g32799.t1
Couldn't classify 57013, 57666
Sorry, prediction pasa_asmbl_29170.p1 fails validation.
(AAG)	 CC	57013-57666	CA	AGC
Valid prediction for GlimmerHMM_glimmerT_49136-T1
Valid prediction for Augustus_model.g32803.t1
Valid prediction for GlimmerHMM_glimmerT_49145-T1
Couldn't classify 57967, 58121
Sorry, prediction pasa_asmbl_29169.p1 fails validation.
(CCG)	 CC	57967-58121	GT	TGG
(GTC)	 AG	59497-59595	GT	AGG
(GTA)	 AG	60421-60541	GT	TAG
(GAG)	 AG	62267-62388	GT	GGG
(GGA)	 AG	62759-62910	GT	GGG
(ACT)	 AG	65379-65482	CG	AAC
-recovered pasa_asmbl_29169.p1, terminal, 65379, 65482
-recovered pasa_asmbl_29169.p1, internal, 59497, 59595
-recovered pasa_asmbl_29169.p1, internal, 60421, 60541
-recovered pasa_asmbl_29169.p1, internal, 62267, 62388
-recovered pasa_asmbl_29169.p1, internal, 62759, 62910
Valid prediction for Augustus_model.g32801.t1
Valid prediction for snap_scaffold_22-snap.564-T1
Valid prediction for GlimmerHMM_glimmerT_49139-T1
Valid prediction for GlimmerHMM_glimmerT_49142-T1
Valid prediction for Augustus_model.g32800.t1
Valid prediction for snap_scaffold_22-snap.544-T1
Valid prediction for snap_scaffold_22-snap.540-T1
Valid prediction for snap_scaffold_22-snap.550-T1
Valid prediction for snap_scaffold_22-snap.559-T1
Valid prediction for snap_scaffold_22-snap.553-T1
Valid prediction for snap_scaffold_22-snap.541-T1
Valid prediction for snap_scaffold_22-snap.571-T1
Valid prediction for snap_scaffold_22-snap.560-T1
Valid prediction for snap_scaffold_22-snap.558-T1
Valid prediction for GlimmerHMM_glimmerT_49128-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7109, rend_intergenic: 5844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12832, rend_intergenic: 11509  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17451, rend_intergenic: 14021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22506, rend_intergenic: 20637  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27770, rend_intergenic: 24755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31308, rend_intergenic: 28416  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67928, rend_intergenic: 61666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94245, rend_intergenic: 81967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105388, rend_intergenic: 102778  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107614, rend_intergenic: 107545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118070, rend_intergenic: 115546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 125495
-exon list size: 230


building trellis

0.4    
0.9    
1.3    
1.7    
2.2    
2.6    
3.0    
3.4    
3.9    
4.3    
4.7    
5.2    
5.6    
6.0    
6.5    
6.9    
7.3    
7.8    
8.2    
8.6    
9.1    
9.5    
9.9    
10.3    
10.8    
11.2    
11.6    
12.1    
12.5    
12.9    
13.4    
13.8    
14.2    
14.7    
15.1    
15.5    
15.9    
16.4    
16.8    
17.2    
17.7    
18.1    
18.5    
19.0    
19.4    
19.8    
20.3    
20.7    
21.1    
21.6    
22.0    
22.4    
22.8    
23.3    
23.7    
24.1    
24.6    
25.0    
25.4    
25.9    
26.3    
26.7    
27.2    
27.6    
28.0    
28.4    
28.9    
29.3    
29.7    
30.2    
30.6    
31.0    
31.5    
31.9    
32.3    
32.8    
33.2    
33.6    
34.1    
34.5    
34.9    
35.3    
35.8    
36.2    
36.6    
37.1    
37.5    
37.9    
38.4    
38.8    
39.2    
39.7    
40.1    
40.5    
40.9    
41.4    
41.8    
42.2    
42.7    
43.1    
43.5    
44.0    
44.4    
44.8    
45.3    
45.7    
46.1    
46.6    
47.0    
47.4    
47.8    
48.3    
48.7    
49.1    
49.6    
50.0    
50.4    
50.9    
51.3    
51.7    
52.2    
52.6    
53.0    
53.4    
53.9    
54.3    
54.7    
55.2    
55.6    
56.0    
56.5    
56.9    
57.3    
57.8    
58.2    
58.6    
59.1    
59.5    
59.9    
60.3    
60.8    
61.2    
61.6    
62.1    
62.5    
62.9    
63.4    
63.8    
64.2    
64.7    
65.1    
65.5    
65.9    
66.4    
66.8    
67.2    
67.7    
68.1    
68.5    
69.0    
69.4    
69.8    
70.3    
70.7    
71.1    
71.6    
72.0    
72.4    
72.8    
73.3    
73.7    
74.1    
74.6    
75.0    
75.4    
75.9    
76.3    
76.7    
77.2    
77.6    
78.0    
78.4    
78.9    
79.3    
79.7    
80.2    
80.6    
81.0    
81.5    
81.9    
82.3    
82.8    
83.2    
83.6    
84.1    
84.5    
84.9    
85.3    
85.8    
86.2    
86.6    
87.1    
87.5    
87.9    
88.4    
88.8    
89.2    
89.7    
90.1    
90.5    
90.9    
91.4    
91.8    
92.2    
92.7    
93.1    
93.5    
94.0    
94.4    
94.8    
95.3    
95.7    
96.1    
96.6    
97.0    
97.4    
97.8    
98.3    
98.7    
99.1    
99.6    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 7109, rend_intergenic: 5844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12832, rend_intergenic: 11509  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17451, rend_intergenic: 14021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22506, rend_intergenic: 20637  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27770, rend_intergenic: 24755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31308, rend_intergenic: 28416  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67928, rend_intergenic: 61666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94245, rend_intergenic: 81967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105388, rend_intergenic: 102778  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107614, rend_intergenic: 107545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118070, rend_intergenic: 115546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support