-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_10215031-10505108

-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_20425-T1
Valid prediction for snap_scaffold_8-snap.2033-T1
Valid prediction for snap_scaffold_8-snap.2016-T1
Valid prediction for GlimmerHMM_glimmerT_20417-T1
Valid prediction for snap_scaffold_8-snap.2010-T1
Valid prediction for snap_scaffold_8-snap.2013-T1
Valid prediction for snap_scaffold_8-snap.2020-T1
Valid prediction for GlimmerHMM_glimmerT_20413-T1
Valid prediction for Augustus_model.g13593.t1
Valid prediction for snap_scaffold_8-snap.2014-T1
Valid prediction for CodingQuarry_transcript_59792-T1
Valid prediction for pasa_asmbl_53172.p1
Valid prediction for Augustus_model.g13595.t1
Valid prediction for GlimmerHMM_glimmerT_20429-T1
Valid prediction for GlimmerHMM_glimmerT_20428-T1
Valid prediction for CodingQuarry_transcript_59794-T1
Valid prediction for CodingQuarry_transcript_59791-T1
Valid prediction for GlimmerHMM_glimmerT_20408-T1
Valid prediction for pasa_asmbl_53170.p1
Valid prediction for snap_scaffold_8-snap.2002-T1
Valid prediction for HiQ_model.g13591.t1
Valid prediction for HiQ_model.g13592.t1
Valid prediction for GlimmerHMM_glimmerT_20419-T1
Valid prediction for GlimmerHMM_glimmerT_20422-T1
Valid prediction for snap_scaffold_8-snap.2008-T1
Valid prediction for snap_scaffold_8-snap.2031-T1
Valid prediction for snap_scaffold_8-snap.2003-T1
Valid prediction for GlimmerHMM_glimmerT_20415-T1
Valid prediction for snap_scaffold_8-snap.2001-T1
Valid prediction for Augustus_model.g13596.t1
Valid prediction for pasa_asmbl_53166.p1
Valid prediction for snap_scaffold_8-snap.2017-T1
Valid prediction for CodingQuarry_transcript_59795-T1
Valid prediction for GlimmerHMM_glimmerT_20409-T1
Valid prediction for HiQ_model.g13600.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_20424-T1
Valid prediction for snap_scaffold_8-snap.2006-T1
Valid prediction for snap_scaffold_8-snap.2004-T1
Couldn't classify 12554, 12673
Sorry, prediction pasa_asmbl_52104.p1 fails validation.
(CAG)	 TT	12554-12673	GT	CTG
(GTG)	 AG	13055-13204	GT	AGG
(ATC)	 AG	13581-13745	GT	AGG
(CAT)	 AG	14130-14246	GT	AGG
(GAG)	 AG	14628-14732	GT	AGG
(GGG)	 AG	15022-15118	GT	TGG
(GAG)	 AG	15419-15531	GT	GGG
(TCG)	 AG	16051-16141	GT	AGG
(ACC)	 AG	16362-16501	GT	AGG
(CTC)	 AG	16803-16937	CC	GAC
-recovered pasa_asmbl_52104.p1, terminal, 16803, 16937
-recovered pasa_asmbl_52104.p1, internal, 13055, 13204
-recovered pasa_asmbl_52104.p1, internal, 13581, 13745
-recovered pasa_asmbl_52104.p1, internal, 14130, 14246
-recovered pasa_asmbl_52104.p1, internal, 14628, 14732
-recovered pasa_asmbl_52104.p1, internal, 15022, 15118
-recovered pasa_asmbl_52104.p1, internal, 15419, 15531
-recovered pasa_asmbl_52104.p1, internal, 16051, 16141
-recovered pasa_asmbl_52104.p1, internal, 16362, 16501
Valid prediction for snap_scaffold_8-snap.2009-T1
Valid prediction for HiQ_model.g13601.t1
Valid prediction for snap_scaffold_8-snap.2023-T1
Valid prediction for snap_scaffold_8-snap.2019-T1
Valid prediction for Augustus_model.g13598.t1
Valid prediction for snap_scaffold_8-snap.2029-T1
Valid prediction for snap_scaffold_8-snap.2018-T1
Valid prediction for snap_scaffold_8-snap.2015-T1
Valid prediction for snap_scaffold_8-snap.2034-T1
Valid prediction for snap_scaffold_8-snap.1999-T1
Valid prediction for snap_scaffold_8-snap.2026-T1
Valid prediction for snap_scaffold_8-snap.2024-T1
Valid prediction for snap_scaffold_8-snap.2007-T1
Valid prediction for snap_scaffold_8-snap.2022-T1
Valid prediction for snap_scaffold_8-snap.2000-T1
Valid prediction for snap_scaffold_8-snap.2027-T1
Valid prediction for snap_scaffold_8-snap.2021-T1
Valid prediction for snap_scaffold_8-snap.2005-T1
Valid prediction for GlimmerHMM_glimmerT_20421-T1
Valid prediction for GlimmerHMM_glimmerT_20418-T1
Valid prediction for GlimmerHMM_glimmerT_20420-T1
Valid prediction for GlimmerHMM_glimmerT_20430-T1
Valid prediction for snap_scaffold_8-snap.2032-T1
Valid prediction for GlimmerHMM_glimmerT_20416-T1
Valid prediction for GlimmerHMM_glimmerT_20423-T1
Valid prediction for GlimmerHMM_glimmerT_20414-T1
Valid prediction for Augustus_model.g13602.t1
Valid prediction for Augustus_model.g13599.t1
Valid prediction for Augustus_model.g13597.t1
Valid prediction for GlimmerHMM_glimmerT_20427-T1
Valid prediction for GlimmerHMM_glimmerT_20411-T1
Valid prediction for GlimmerHMM_glimmerT_20412-T1
Valid prediction for GlimmerHMM_glimmerT_20410-T1
Valid prediction for snap_scaffold_8-snap.2011-T1
Valid prediction for Augustus_model.g13594.t1
Valid prediction for snap_scaffold_8-snap.2030-T1
Valid prediction for snap_scaffold_8-snap.2012-T1
Valid prediction for GlimmerHMM_glimmerT_20426-T1
Valid prediction for snap_scaffold_8-snap.2028-T1
Valid prediction for snap_scaffold_8-snap.2025-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 101338, rend_intergenic: 91790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113771, rend_intergenic: 107332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151410, rend_intergenic: 142975  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 277039, rend_intergenic: 275318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 290078
-exon list size: 294


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.0    
2.4    
2.7    
3.0    
3.4    
3.7    
4.1    
4.4    
4.7    
5.1    
5.4    
5.7    
6.1    
6.4    
6.8    
7.1    
7.4    
7.8    
8.1    
8.4    
8.8    
9.1    
9.5    
9.8    
10.1    
10.5    
10.8    
11.1    
11.5    
11.8    
12.2    
12.5    
12.8    
13.2    
13.5    
13.9    
14.2    
14.5    
14.9    
15.2    
15.5    
15.9    
16.2    
16.6    
16.9    
17.2    
17.6    
17.9    
18.2    
18.6    
18.9    
19.3    
19.6    
19.9    
20.3    
20.6    
20.9    
21.3    
21.6    
22.0    
22.3    
22.6    
23.0    
23.3    
23.6    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.4    
26.7    
27.0    
27.4    
27.7    
28.0    
28.4    
28.7    
29.1    
29.4    
29.7    
30.1    
30.4    
30.7    
31.1    
31.4    
31.8    
32.1    
32.4    
32.8    
33.1    
33.4    
33.8    
34.1    
34.5    
34.8    
35.1    
35.5    
35.8    
36.1    
36.5    
36.8    
37.2    
37.5    
37.8    
38.2    
38.5    
38.9    
39.2    
39.5    
39.9    
40.2    
40.5    
40.9    
41.2    
41.6    
41.9    
42.2    
42.6    
42.9    
43.2    
43.6    
43.9    
44.3    
44.6    
44.9    
45.3    
45.6    
45.9    
46.3    
46.6    
47.0    
47.3    
47.6    
48.0    
48.3    
48.6    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.4    
51.7    
52.0    
52.4    
52.7    
53.0    
53.4    
53.7    
54.1    
54.4    
54.7    
55.1    
55.4    
55.7    
56.1    
56.4    
56.8    
57.1    
57.4    
57.8    
58.1    
58.4    
58.8    
59.1    
59.5    
59.8    
60.1    
60.5    
60.8    
61.1    
61.5    
61.8    
62.2    
62.5    
62.8    
63.2    
63.5    
63.9    
64.2    
64.5    
64.9    
65.2    
65.5    
65.9    
66.2    
66.6    
66.9    
67.2    
67.6    
67.9    
68.2    
68.6    
68.9    
69.3    
69.6    
69.9    
70.3    
70.6    
70.9    
71.3    
71.6    
72.0    
72.3    
72.6    
73.0    
73.3    
73.6    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.4    
76.7    
77.0    
77.4    
77.7    
78.0    
78.4    
78.7    
79.1    
79.4    
79.7    
80.1    
80.4    
80.7    
81.1    
81.4    
81.8    
82.1    
82.4    
82.8    
83.1    
83.4    
83.8    
84.1    
84.5    
84.8    
85.1    
85.5    
85.8    
86.1    
86.5    
86.8    
87.2    
87.5    
87.8    
88.2    
88.5    
88.9    
89.2    
89.5    
89.9    
90.2    
90.5    
90.9    
91.2    
91.6    
91.9    
92.2    
92.6    
92.9    
93.2    
93.6    
93.9    
94.3    
94.6    
94.9    
95.3    
95.6    
95.9    
96.3    
96.6    
97.0    
97.3    
97.6    
98.0    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 101338, rend_intergenic: 91790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113771, rend_intergenic: 107332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151410, rend_intergenic: 142975  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 277039, rend_intergenic: 275318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 16093
-exon list size: 6


building trellis

12.5    
25.0    
37.5    
50.0    
62.5    
75.0    
87.5    
-found 2 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 12251
-exon list size: 3


building trellis

20.0    
40.0    
60.0    
80.0    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support