-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_4987456-5181048

-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_18-snap.1037-T1
Valid prediction for GlimmerHMM_glimmerT_42285-T1
Valid prediction for Augustus_model.g28142.t1
Valid prediction for Augustus_model.g28157.t1
Valid prediction for snap_scaffold_18-snap.1043-T1
Valid prediction for GlimmerHMM_glimmerT_42257-T1
Valid prediction for pasa_asmbl_20572.p1
Valid prediction for GlimmerHMM_glimmerT_42264-T1
Valid prediction for snap_scaffold_18-snap.1039-T1
Valid prediction for GlimmerHMM_glimmerT_42283-T1
Valid prediction for HiQ_model.g28160.t1
Valid prediction for snap_scaffold_18-snap.1049-T1
Valid prediction for GlimmerHMM_glimmerT_42280-T1
Valid prediction for Augustus_model.g28158.t1
Valid prediction for GlimmerHMM_glimmerT_42263-T1
Valid prediction for snap_scaffold_18-snap.1054-T1
Valid prediction for pasa_asmbl_21145.p1
Valid prediction for snap_scaffold_18-snap.1061-T1
Valid prediction for CodingQuarry_transcript_23759-T1
Valid prediction for Augustus_model.g28156.t1
Valid prediction for CodingQuarry_transcript_23760-T1
Couldn't classify 63265, 63639
Sorry, prediction pasa_asmbl_20573.p1 fails validation.
(AAC)	 CC	63265-63639	GG	CAG
Valid prediction for GlimmerHMM_glimmerT_42276-T1
Valid prediction for snap_scaffold_18-snap.1034-T1
Valid prediction for snap_scaffold_18-snap.1035-T1
Valid prediction for Augustus_model.g28161.t1
Valid prediction for Augustus_model.g28143.t1
Valid prediction for snap_scaffold_18-snap.1056-T1
Valid prediction for snap_scaffold_18-snap.1046-T1
Valid prediction for HiQ_model.g28141.t1
Valid prediction for snap_scaffold_18-snap.1057-T1
Valid prediction for snap_scaffold_18-snap.1050-T1
Valid prediction for snap_scaffold_18-snap.1036-T1
Valid prediction for Augustus_model.g28150.t1
Valid prediction for GlimmerHMM_glimmerT_42270-T1
Valid prediction for GlimmerHMM_glimmerT_42282-T1
Valid prediction for snap_scaffold_18-snap.1058-T1
Valid prediction for Augustus_model.g28154.t1
Couldn't classify 68942, 69185
Sorry, prediction pasa_asmbl_20574.p1 fails validation.
(GAA)	 CA	68942-69185	GT	AGG
(GCA)	 AG	72029-72345	GG	AGG
-recovered pasa_asmbl_20574.p1, terminal, 72029, 72345
Valid prediction for GlimmerHMM_glimmerT_42268-T1
Valid prediction for snap_scaffold_18-snap.1027-T1
Valid prediction for snap_scaffold_18-snap.1029-T1
Valid prediction for snap_scaffold_18-snap.1024-T1
Valid prediction for Augustus_model.g28151.t1
Valid prediction for Augustus_model.g28148.t1
Valid prediction for snap_scaffold_18-snap.1045-T1
Valid prediction for GlimmerHMM_glimmerT_42277-T1
Valid prediction for snap_scaffold_18-snap.1052-T1
Valid prediction for Augustus_model.g28147.t1
Valid prediction for GlimmerHMM_glimmerT_42278-T1
Valid prediction for snap_scaffold_18-snap.1033-T1
Valid prediction for GlimmerHMM_glimmerT_42266-T1
Valid prediction for GlimmerHMM_glimmerT_42284-T1
Valid prediction for GlimmerHMM_glimmerT_42258-T1
Valid prediction for GlimmerHMM_glimmerT_42273-T1
Valid prediction for GlimmerHMM_glimmerT_42262-T1
Valid prediction for Augustus_model.g28149.t1
Valid prediction for GlimmerHMM_glimmerT_42265-T1
Valid prediction for snap_scaffold_18-snap.1026-T1
Valid prediction for snap_scaffold_18-snap.1025-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_42256-T1
Valid prediction for snap_scaffold_18-snap.1038-T1
Valid prediction for snap_scaffold_18-snap.1053-T1
Valid prediction for GlimmerHMM_glimmerT_42267-T1
Couldn't classify 156822, 157047
Sorry, prediction pasa_asmbl_19826.p1 fails validation.
(AGG)	 CC	156822-157047	GT	GGG
(CGG)	 AG	157635-157858	GT	AGG
(GCC)	 AG	158064-158278	GT	AAG
(GTC)	 AG	158584-158694	GT	GGG
(GAG)	 AG	159000-159144	GT	GGG
(AGC)	 AG	159316-159528	CA	AGC
-recovered pasa_asmbl_19826.p1, terminal, 159316, 159528
-recovered pasa_asmbl_19826.p1, internal, 157635, 157858
-recovered pasa_asmbl_19826.p1, internal, 158064, 158278
-recovered pasa_asmbl_19826.p1, internal, 158584, 158694
-recovered pasa_asmbl_19826.p1, internal, 159000, 159144
Valid prediction for Augustus_model.g28153.t1
Valid prediction for snap_scaffold_18-snap.1040-T1
Valid prediction for snap_scaffold_18-snap.1030-T1
Valid prediction for snap_scaffold_18-snap.1059-T1
Valid prediction for snap_scaffold_18-snap.1060-T1
Valid prediction for snap_scaffold_18-snap.1048-T1
Valid prediction for GlimmerHMM_glimmerT_42286-T1
Valid prediction for snap_scaffold_18-snap.1028-T1
Valid prediction for snap_scaffold_18-snap.1032-T1
Valid prediction for Augustus_model.g28145.t1
Valid prediction for snap_scaffold_18-snap.1062-T1
Valid prediction for snap_scaffold_18-snap.1031-T1
Valid prediction for Augustus_model.g28159.t1
Valid prediction for GlimmerHMM_glimmerT_42272-T1
Valid prediction for HiQ_model.g28146.t1
Valid prediction for GlimmerHMM_glimmerT_42279-T1
Valid prediction for GlimmerHMM_glimmerT_42274-T1
Valid prediction for GlimmerHMM_glimmerT_42269-T1
Valid prediction for snap_scaffold_18-snap.1055-T1
Valid prediction for snap_scaffold_18-snap.1063-T1
Valid prediction for Augustus_model.g28152.t1
Valid prediction for snap_scaffold_18-snap.1041-T1
Valid prediction for GlimmerHMM_glimmerT_42261-T1
Valid prediction for GlimmerHMM_glimmerT_42281-T1
Valid prediction for GlimmerHMM_glimmerT_42260-T1
Valid prediction for snap_scaffold_18-snap.1047-T1
Valid prediction for GlimmerHMM_glimmerT_42259-T1
Valid prediction for snap_scaffold_18-snap.1064-T1
Valid prediction for Augustus_model.g28155.t1
Valid prediction for snap_scaffold_18-snap.1044-T1
Valid prediction for GlimmerHMM_glimmerT_42271-T1
Valid prediction for Augustus_model.g28144.t1
Valid prediction for GlimmerHMM_glimmerT_42275-T1
Valid prediction for snap_scaffold_18-snap.1042-T1
Valid prediction for snap_scaffold_18-snap.1051-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 69781, rend_intergenic: 65304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104082, rend_intergenic: 101793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130498, rend_intergenic: 126561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 193593
-exon list size: 317


building trellis

0.3    
0.6    
0.9    
1.3    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.6    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.8    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.7    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.6    
17.9    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.5    
24.8    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.1    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.2    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.9    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.7    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.2    
75.5    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.1    
82.4    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.2    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.7    
99.1    
99.4    
99.7    
-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 69781, rend_intergenic: 65304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104082, rend_intergenic: 101793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130498, rend_intergenic: 126561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 29 predictions persist after filtering for low support