-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_2/scaffold_2_14973045-15081328

-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 GeneMark_model.8241_t
Valid prediction for snap_scaffold_2-snap.2911-T1
Valid prediction for GeneMark_model.8245_t
Valid prediction for GlimmerHMM_glimmerT_5127-T1
Valid prediction for GlimmerHMM_glimmerT_5123-T1
Valid prediction for GeneMark_model.8229_t
Valid prediction for GlimmerHMM_glimmerT_5126-T1
Valid prediction for Augustus_model.g3446.t1
Valid prediction for GeneMark_model.8242_t
Valid prediction for GeneMark_model.8237_t
Valid prediction for GeneMark_model.8239_t
Valid prediction for Augustus_model.g3455.t1
Valid prediction for snap_scaffold_2-snap.2914-T1
Valid prediction for Augustus_model.g3453.t1
Valid prediction for GlimmerHMM_glimmerT_5129-T1
Valid prediction for Augustus_model.g3449.t1
Valid prediction for snap_scaffold_2-snap.2915-T1
Valid prediction for GeneMark_model.8246_t
Valid prediction for GeneMark_model.8235_t
Valid prediction for GeneMark_model.8231_t
Valid prediction for GlimmerHMM_glimmerT_5119-T1
Valid prediction for snap_scaffold_2-snap.2908-T1
Valid prediction for Augustus_model.g3448.t1
Valid prediction for Augustus_model.g3451.t1
Valid prediction for GeneMark_model.8227_t
Valid prediction for snap_scaffold_2-snap.2907-T1
Valid prediction for snap_scaffold_2-snap.2904-T1
Valid prediction for Augustus_model.g3454.t1
Valid prediction for snap_scaffold_2-snap.2916-T1
Valid prediction for snap_scaffold_2-snap.2896-T1
Valid prediction for snap_scaffold_2-snap.2893-T1
Couldn't classify 106688, 106799
Couldn't classify 107500, 107580
Sorry, prediction pasa_asmbl_25010.p1 fails validation.
(GTG)	 AG	106688-106799	GT	TGG
(CCG)	 AG	106972-107069	GT	AGG
(ATG)	 AG	107168-107251	GT	AGG
(AAC)	 AG	107500-107580	TG	CGT
-recovered pasa_asmbl_25010.p1, initial, 107168, 107251
-recovered pasa_asmbl_25010.p1, internal, 106688, 106799
-recovered pasa_asmbl_25010.p1, internal, 106972, 107069
-recovered pasa_asmbl_25010.p1, internal, 107168, 107251
Valid prediction for GlimmerHMM_glimmerT_5117-T1
Valid prediction for snap_scaffold_2-snap.2900-T1
Valid prediction for snap_scaffold_2-snap.2910-T1
Valid prediction for GlimmerHMM_glimmerT_5128-T1
Valid prediction for GeneMark_model.8243_t
Valid prediction for snap_scaffold_2-snap.2899-T1
Valid prediction for snap_scaffold_2-snap.2902-T1
Valid prediction for GlimmerHMM_glimmerT_5122-T1
Valid prediction for snap_scaffold_2-snap.2897-T1
Valid prediction for snap_scaffold_2-snap.2895-T1
Valid prediction for GeneMark_model.8244_t

-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_5115-T1
Valid prediction for GlimmerHMM_glimmerT_5120-T1
Valid prediction for GeneMark_model.8226_t
Valid prediction for GlimmerHMM_glimmerT_5121-T1
Valid prediction for snap_scaffold_2-snap.2894-T1
Valid prediction for Augustus_model.g3444.t1
Valid prediction for GeneMark_model.8225_t
Valid prediction for Augustus_model.g3452.t1
Valid prediction for snap_scaffold_2-snap.2906-T1
Valid prediction for GeneMark_model.8236_t
Valid prediction for snap_scaffold_2-snap.2909-T1
Valid prediction for snap_scaffold_2-snap.2898-T1
Valid prediction for snap_scaffold_2-snap.2901-T1
Valid prediction for snap_scaffold_2-snap.2903-T1
Valid prediction for Augustus_model.g3445.t1
Valid prediction for snap_scaffold_2-snap.2905-T1
Valid prediction for GlimmerHMM_glimmerT_5116-T1
Valid prediction for Augustus_model.g3447.t1
Valid prediction for GlimmerHMM_glimmerT_5124-T1
Valid prediction for GeneMark_model.8234_t
Valid prediction for GeneMark_model.8238_t
Valid prediction for snap_scaffold_2-snap.2913-T1
Valid prediction for Augustus_model.g3450.t1
Valid prediction for GeneMark_model.8240_t
Valid prediction for GeneMark_model.8233_t
Valid prediction for GlimmerHMM_glimmerT_5118-T1
Valid prediction for GeneMark_model.8228_t
Valid prediction for GeneMark_model.8232_t
Valid prediction for GlimmerHMM_glimmerT_5125-T1
Valid prediction for snap_scaffold_2-snap.2912-T1
Valid prediction for GeneMark_model.8230_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 39160, rend_intergenic: 36876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49866, rend_intergenic: 42993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57953, rend_intergenic: 55620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100913, rend_intergenic: 98324  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 108284
-exon list size: 311


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.2    
2.6    
2.9    
3.2    
3.5    
3.8    
4.2    
4.5    
4.8    
5.1    
5.4    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.7    
8.0    
8.3    
8.6    
8.9    
9.3    
9.6    
9.9    
10.2    
10.5    
10.9    
11.2    
11.5    
11.8    
12.1    
12.5    
12.8    
13.1    
13.4    
13.7    
14.1    
14.4    
14.7    
15.0    
15.3    
15.7    
16.0    
16.3    
16.6    
16.9    
17.3    
17.6    
17.9    
18.2    
18.5    
18.8    
19.2    
19.5    
19.8    
20.1    
20.4    
20.8    
21.1    
21.4    
21.7    
22.0    
22.4    
22.7    
23.0    
23.3    
23.6    
24.0    
24.3    
24.6    
24.9    
25.2    
25.6    
25.9    
26.2    
26.5    
26.8    
27.2    
27.5    
27.8    
28.1    
28.4    
28.8    
29.1    
29.4    
29.7    
30.0    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.3    
32.6    
32.9    
33.2    
33.5    
33.9    
34.2    
34.5    
34.8    
35.1    
35.5    
35.8    
36.1    
36.4    
36.7    
37.1    
37.4    
37.7    
38.0    
38.3    
38.7    
39.0    
39.3    
39.6    
39.9    
40.3    
40.6    
40.9    
41.2    
41.5    
41.9    
42.2    
42.5    
42.8    
43.1    
43.5    
43.8    
44.1    
44.4    
44.7    
45.0    
45.4    
45.7    
46.0    
46.3    
46.6    
47.0    
47.3    
47.6    
47.9    
48.2    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.8    
52.1    
52.4    
52.7    
53.0    
53.4    
53.7    
54.0    
54.3    
54.6    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.9    
57.2    
57.5    
57.8    
58.1    
58.5    
58.8    
59.1    
59.4    
59.7    
60.1    
60.4    
60.7    
61.0    
61.3    
61.7    
62.0    
62.3    
62.6    
62.9    
63.3    
63.6    
63.9    
64.2    
64.5    
64.9    
65.2    
65.5    
65.8    
66.1    
66.5    
66.8    
67.1    
67.4    
67.7    
68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
70.0    
70.3    
70.6    
70.9    
71.2    
71.6    
71.9    
72.2    
72.5    
72.8    
73.2    
73.5    
73.8    
74.1    
74.4    
74.8    
75.1    
75.4    
75.7    
76.0    
76.4    
76.7    
77.0    
77.3    
77.6    
78.0    
78.3    
78.6    
78.9    
79.2    
79.6    
79.9    
80.2    
80.5    
80.8    
81.2    
81.5    
81.8    
82.1    
82.4    
82.7    
83.1    
83.4    
83.7    
84.0    
84.3    
84.7    
85.0    
85.3    
85.6    
85.9    
86.3    
86.6    
86.9    
87.2    
87.5    
87.9    
88.2    
88.5    
88.8    
89.1    
89.5    
89.8    
90.1    
90.4    
90.7    
91.1    
91.4    
91.7    
92.0    
92.3    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.6    
94.9    
95.2    
95.5    
95.8    
96.2    
96.5    
96.8    
97.1    
97.4    
97.8    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 20 predictions from path traversal
Error with prediction: snap lend_intergenic: 39160, rend_intergenic: 36876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49866, rend_intergenic: 42993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57953, rend_intergenic: 55620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100913, rend_intergenic: 98324  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 10 predictions persist after filtering for low support