-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_20/scaffold_20_3981360-4120493

-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_20-snap.846-T1
Valid prediction for Augustus_model.g30428.t1
Valid prediction for GlimmerHMM_glimmerT_45806-T1
Valid prediction for snap_scaffold_20-snap.856-T1
Valid prediction for GlimmerHMM_glimmerT_45818-T1
Valid prediction for snap_scaffold_20-snap.839-T1
Valid prediction for snap_scaffold_20-snap.838-T1
Valid prediction for Augustus_model.g30427.t1
Valid prediction for GlimmerHMM_glimmerT_45825-T1
Valid prediction for snap_scaffold_20-snap.858-T1
Valid prediction for GlimmerHMM_glimmerT_45816-T1
Valid prediction for HiQ_model.g30422.t1
Valid prediction for snap_scaffold_20-snap.845-T1
Valid prediction for GlimmerHMM_glimmerT_45811-T1
Valid prediction for snap_scaffold_20-snap.848-T1
Valid prediction for snap_scaffold_20-snap.844-T1
Valid prediction for GlimmerHMM_glimmerT_45813-T1
Valid prediction for Augustus_model.g30419.t1
Valid prediction for snap_scaffold_20-snap.842-T1
Valid prediction for snap_scaffold_20-snap.860-T1
Couldn't classify 10042, 10058
Couldn't classify 10201, 10573
Sorry, prediction pasa_asmbl_26557.p2 fails validation.
(AGT)	 CC	10042-10058	GT	AGG
(GTC)	 AG	10201-10573	GT	CGG
-recovered pasa_asmbl_26557.p2, internal, 10201, 10573
Valid prediction for snap_scaffold_20-snap.854-T1
Valid prediction for snap_scaffold_20-snap.836-T1
Valid prediction for snap_scaffold_20-snap.863-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.852-T1
Valid prediction for snap_scaffold_20-snap.843-T1
Valid prediction for snap_scaffold_20-snap.830-T1
Valid prediction for snap_scaffold_20-snap.841-T1
Valid prediction for GlimmerHMM_glimmerT_45824-T1
Valid prediction for GlimmerHMM_glimmerT_45808-T1
Valid prediction for CodingQuarry_transcript_30488-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_45814-T1
Valid prediction for snap_scaffold_20-snap.853-T1
Valid prediction for Augustus_model.g30426.t1
Valid prediction for GlimmerHMM_glimmerT_45817-T1
Valid prediction for GlimmerHMM_glimmerT_45821-T1
Couldn't classify 12285, 12400
Sorry, prediction pasa_asmbl_25729.p1 fails validation.
(GTG)	 CA	12285-12400	GT	AGG
(GTA)	 AG	12992-13110	GT	GGG
(GTG)	 AG	14020-14100	GT	TAG
(GGA)	 AG	14350-14441	AT	AAA
-recovered pasa_asmbl_25729.p1, terminal, 14350, 14441
-recovered pasa_asmbl_25729.p1, internal, 12992, 13110
-recovered pasa_asmbl_25729.p1, internal, 14020, 14100
Valid prediction for snap_scaffold_20-snap.834-T1
Valid prediction for snap_scaffold_20-snap.831-T1
Valid prediction for snap_scaffold_20-snap.837-T1
Valid prediction for CodingQuarry_transcript_30489-T1
Valid prediction for snap_scaffold_20-snap.855-T1
Valid prediction for GlimmerHMM_glimmerT_45807-T1
Valid prediction for snap_scaffold_20-snap.833-T1
Valid prediction for GlimmerHMM_glimmerT_45826-T1
Valid prediction for Augustus_model.g30423.t1
Valid prediction for GlimmerHMM_glimmerT_45819-T1
Valid prediction for snap_scaffold_20-snap.835-T1
Valid prediction for snap_scaffold_20-snap.864-T1
Valid prediction for pasa_asmbl_25727.p1
Valid prediction for snap_scaffold_20-snap.851-T1
Valid prediction for snap_scaffold_20-snap.859-T1
Valid prediction for snap_scaffold_20-snap.857-T1
Valid prediction for pasa_asmbl_25719.p1
Valid prediction for snap_scaffold_20-snap.840-T1
Valid prediction for Augustus_model.g30420.t1
Valid prediction for Augustus_model.g30425.t1
Valid prediction for snap_scaffold_20-snap.832-T1
Valid prediction for HiQ_model.g30424.t1
Valid prediction for snap_scaffold_20-snap.862-T1
Valid prediction for snap_scaffold_20-snap.847-T1
Valid prediction for GlimmerHMM_glimmerT_45828-T1
Valid prediction for GlimmerHMM_glimmerT_45815-T1
Valid prediction for GlimmerHMM_glimmerT_45810-T1
Valid prediction for snap_scaffold_20-snap.861-T1
Valid prediction for snap_scaffold_20-snap.849-T1
Valid prediction for GlimmerHMM_glimmerT_45812-T1
Valid prediction for pasa_asmbl_25721.p1
Valid prediction for snap_scaffold_20-snap.850-T1
Valid prediction for GlimmerHMM_glimmerT_45820-T1
Valid prediction for CodingQuarry_transcript_30487-T1
Valid prediction for GlimmerHMM_glimmerT_45823-T1
Valid prediction for GlimmerHMM_glimmerT_45827-T1
Valid prediction for Augustus_model.g30430.t1
Valid prediction for Augustus_model.g30429.t1
Couldn't classify 125893, 126014
Sorry, prediction pasa_asmbl_25714.p2 fails validation.
(ATG)	 TA	123291-123342	GT	AGG
(GAC)	 AG	123558-123627	GT	GAG
(TTC)	 AG	124761-124894	GT	AGG
(CGT)	 AG	125893-126014	AG	AGA
-recovered pasa_asmbl_25714.p2, initial, 123291, 123342
-recovered pasa_asmbl_25714.p2, internal, 123558, 123627
-recovered pasa_asmbl_25714.p2, internal, 124761, 124894
Valid prediction for HiQ_model.g30421.t1
Valid prediction for GlimmerHMM_glimmerT_45822-T1
Valid prediction for GlimmerHMM_glimmerT_45829-T1
Valid prediction for GlimmerHMM_glimmerT_45809-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10582, rend_intergenic: 4220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41146, rend_intergenic: 38712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54946, rend_intergenic: 41403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75676, rend_intergenic: 58612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78371, rend_intergenic: 76375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82258, rend_intergenic: 79555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93019, rend_intergenic: 89371  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104991, rend_intergenic: 102303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105363, rend_intergenic: 105020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108416, rend_intergenic: 106174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117008, rend_intergenic: 114988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132801, rend_intergenic: 128308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 139134
-exon list size: 297


building trellis

0.3    
0.7    
1.0    
1.3    
1.7    
2.0    
2.3    
2.7    
3.0    
3.3    
3.7    
4.0    
4.3    
4.7    
5.0    
5.4    
5.7    
6.0    
6.4    
6.7    
7.0    
7.4    
7.7    
8.0    
8.4    
8.7    
9.0    
9.4    
9.7    
10.0    
10.4    
10.7    
11.0    
11.4    
11.7    
12.0    
12.4    
12.7    
13.0    
13.4    
13.7    
14.0    
14.4    
14.7    
15.1    
15.4    
15.7    
16.1    
16.4    
16.7    
17.1    
17.4    
17.7    
18.1    
18.4    
18.7    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.1    
21.4    
21.7    
22.1    
22.4    
22.7    
23.1    
23.4    
23.7    
24.1    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.4    
26.8    
27.1    
27.4    
27.8    
28.1    
28.4    
28.8    
29.1    
29.4    
29.8    
30.1    
30.4    
30.8    
31.1    
31.4    
31.8    
32.1    
32.4    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.8    
35.1    
35.5    
35.8    
36.1    
36.5    
36.8    
37.1    
37.5    
37.8    
38.1    
38.5    
38.8    
39.1    
39.5    
39.8    
40.1    
40.5    
40.8    
41.1    
41.5    
41.8    
42.1    
42.5    
42.8    
43.1    
43.5    
43.8    
44.1    
44.5    
44.8    
45.2    
45.5    
45.8    
46.2    
46.5    
46.8    
47.2    
47.5    
47.8    
48.2    
48.5    
48.8    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.2    
51.5    
51.8    
52.2    
52.5    
52.8    
53.2    
53.5    
53.8    
54.2    
54.5    
54.8    
55.2    
55.5    
55.9    
56.2    
56.5    
56.9    
57.2    
57.5    
57.9    
58.2    
58.5    
58.9    
59.2    
59.5    
59.9    
60.2    
60.5    
60.9    
61.2    
61.5    
61.9    
62.2    
62.5    
62.9    
63.2    
63.5    
63.9    
64.2    
64.5    
64.9    
65.2    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.6    
67.9    
68.2    
68.6    
68.9    
69.2    
69.6    
69.9    
70.2    
70.6    
70.9    
71.2    
71.6    
71.9    
72.2    
72.6    
72.9    
73.2    
73.6    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
75.9    
76.3    
76.6    
76.9    
77.3    
77.6    
77.9    
78.3    
78.6    
78.9    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.3    
81.6    
81.9    
82.3    
82.6    
82.9    
83.3    
83.6    
83.9    
84.3    
84.6    
84.9    
85.3    
85.6    
86.0    
86.3    
86.6    
87.0    
87.3    
87.6    
88.0    
88.3    
88.6    
89.0    
89.3    
89.6    
90.0    
90.3    
90.6    
91.0    
91.3    
91.6    
92.0    
92.3    
92.6    
93.0    
93.3    
93.6    
94.0    
94.3    
94.6    
95.0    
95.3    
95.7    
96.0    
96.3    
96.7    
97.0    
97.3    
97.7    
98.0    
98.3    
98.7    
99.0    
99.3    
99.7    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 10582, rend_intergenic: 4220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41146, rend_intergenic: 38712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54946, rend_intergenic: 41403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75676, rend_intergenic: 58612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78371, rend_intergenic: 76375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82258, rend_intergenic: 79555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93019, rend_intergenic: 89371  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104991, rend_intergenic: 102303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105363, rend_intergenic: 105020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108416, rend_intergenic: 106174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117008, rend_intergenic: 114988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132801, rend_intergenic: 128308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support