-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1/scaffold_1_22324134-22408856

-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_3048-T1
Valid prediction for GlimmerHMM_glimmerT_3051-T1
Valid prediction for snap_scaffold_1-snap.4265-T1
Valid prediction for GeneMark_model.4918_t
Valid prediction for GeneMark_model.4907_t
Valid prediction for GeneMark_model.4900_t
Couldn't classify 47705, 47781
Sorry, prediction pasa_asmbl_2681.p2 fails validation.
(GGT)	 TG	47705-47781	GT	CAG
(TGC)	 AG	48123-48174	GT	GGG
(GGG)	 AG	48305-48442	GT	AGG
(ATT)	 AG	49444-49542	AG	GAA
-recovered pasa_asmbl_2681.p2, terminal, 49444, 49542
-recovered pasa_asmbl_2681.p2, internal, 48123, 48174
-recovered pasa_asmbl_2681.p2, internal, 48305, 48442
Valid prediction for snap_scaffold_1-snap.4254-T1
Valid prediction for GeneMark_model.4894_t
Valid prediction for GeneMark_model.4926_t
Couldn't classify 80546, 80712
Sorry, prediction snap_scaffold_1-snap.4270-T1 fails validation.
(ATG)	 GA	77099-77534	GT	AGG
(AGA)	 AG	80546-80712	GT	GGG
-recovered snap_scaffold_1-snap.4270-T1, initial, 77099, 77534
-recovered snap_scaffold_1-snap.4270-T1, internal, 80546, 80712
Valid prediction for GeneMark_model.4928_t
Valid prediction for snap_scaffold_1-snap.4262-T1
Valid prediction for snap_scaffold_1-snap.4266-T1
Valid prediction for snap_scaffold_1-snap.4261-T1
Valid prediction for GeneMark_model.4919_t
Valid prediction for GlimmerHMM_glimmerT_3049-T1
Valid prediction for GeneMark_model.4920_t
Valid prediction for snap_scaffold_1-snap.4267-T1
Valid prediction for GlimmerHMM_glimmerT_3053-T1
Valid prediction for GlimmerHMM_glimmerT_3054-T1
Valid prediction for GeneMark_model.4908_t
Valid prediction for snap_scaffold_1-snap.4253-T1
Valid prediction for GeneMark_model.4905_t
Valid prediction for GeneMark_model.4924_t
Valid prediction for GeneMark_model.4897_t
Valid prediction for GeneMark_model.4914_t
Valid prediction for snap_scaffold_1-snap.4256-T1
Valid prediction for GlimmerHMM_glimmerT_3050-T1
Valid prediction for GeneMark_model.4902_t
Valid prediction for GeneMark_model.4917_t
Valid prediction for GeneMark_model.4906_t
Valid prediction for snap_scaffold_1-snap.4259-T1
Valid prediction for snap_scaffold_1-snap.4257-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_1-snap.4269-T1
Valid prediction for GeneMark_model.4921_t
Valid prediction for GlimmerHMM_glimmerT_3052-T1
Valid prediction for snap_scaffold_1-snap.4255-T1
Valid prediction for snap_scaffold_1-snap.4260-T1
Valid prediction for snap_scaffold_1-snap.4264-T1
Valid prediction for GlimmerHMM_glimmerT_3047-T1
Valid prediction for snap_scaffold_1-snap.4271-T1
Valid prediction for snap_scaffold_1-snap.4252-T1
Valid prediction for GeneMark_model.4929_t
Valid prediction for GeneMark_model.4909_t
Valid prediction for GeneMark_model.4912_t
Valid prediction for GeneMark_model.4903_t
Valid prediction for GeneMark_model.4915_t
Valid prediction for GlimmerHMM_glimmerT_3055-T1
Valid prediction for GeneMark_model.4922_t
Valid prediction for snap_scaffold_1-snap.4268-T1
Valid prediction for GeneMark_model.4898_t
Valid prediction for GeneMark_model.4927_t
Valid prediction for GeneMark_model.4901_t
Valid prediction for GeneMark_model.4893_t
Valid prediction for GeneMark_model.4932_t
Valid prediction for GlimmerHMM_glimmerT_3046-T1
Valid prediction for GeneMark_model.4899_t
Valid prediction for GeneMark_model.4925_t
Valid prediction for GlimmerHMM_glimmerT_3045-T1
Valid prediction for GeneMark_model.4916_t
Valid prediction for GeneMark_model.4931_t
Valid prediction for snap_scaffold_1-snap.4258-T1
Valid prediction for GeneMark_model.4910_t
Valid prediction for GeneMark_model.4904_t
Valid prediction for snap_scaffold_1-snap.4263-T1
Valid prediction for GeneMark_model.4923_t
Valid prediction for GeneMark_model.4896_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5891, rend_intergenic: 2861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 9904, rend_intergenic: 6395  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22827, rend_intergenic: 16273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32831, rend_intergenic: 25820  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40008, rend_intergenic: 32898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49542, rend_intergenic: 41306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65762, rend_intergenic: 50560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73360, rend_intergenic: 66105  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80712, rend_intergenic: 80121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 84723
-exon list size: 430


building trellis

0.2    
0.5    
0.7    
0.9    
1.2    
1.4    
1.6    
1.9    
2.1    
2.3    
2.5    
2.8    
3.0    
3.2    
3.5    
3.7    
3.9    
4.2    
4.4    
4.6    
4.9    
5.1    
5.3    
5.6    
5.8    
6.0    
6.2    
6.5    
6.7    
6.9    
7.2    
7.4    
7.6    
7.9    
8.1    
8.3    
8.6    
8.8    
9.0    
9.3    
9.5    
9.7    
10.0    
10.2    
10.4    
10.6    
10.9    
11.1    
11.3    
11.6    
11.8    
12.0    
12.3    
12.5    
12.7    
13.0    
13.2    
13.4    
13.7    
13.9    
14.1    
14.4    
14.6    
14.8    
15.0    
15.3    
15.5    
15.7    
16.0    
16.2    
16.4    
16.7    
16.9    
17.1    
17.4    
17.6    
17.8    
18.1    
18.3    
18.5    
18.8    
19.0    
19.2    
19.4    
19.7    
19.9    
20.1    
20.4    
20.6    
20.8    
21.1    
21.3    
21.5    
21.8    
22.0    
22.2    
22.5    
22.7    
22.9    
23.1    
23.4    
23.6    
23.8    
24.1    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
25.9    
26.2    
26.4    
26.6    
26.9    
27.1    
27.3    
27.5    
27.8    
28.0    
28.2    
28.5    
28.7    
28.9    
29.2    
29.4    
29.6    
29.9    
30.1    
30.3    
30.6    
30.8    
31.0    
31.2    
31.5    
31.7    
31.9    
32.2    
32.4    
32.6    
32.9    
33.1    
33.3    
33.6    
33.8    
34.0    
34.3    
34.5    
34.7    
35.0    
35.2    
35.4    
35.6    
35.9    
36.1    
36.3    
36.6    
36.8    
37.0    
37.3    
37.5    
37.7    
38.0    
38.2    
38.4    
38.7    
38.9    
39.1    
39.4    
39.6    
39.8    
40.0    
40.3    
40.5    
40.7    
41.0    
41.2    
41.4    
41.7    
41.9    
42.1    
42.4    
42.6    
42.8    
43.1    
43.3    
43.5    
43.8    
44.0    
44.2    
44.4    
44.7    
44.9    
45.1    
45.4    
45.6    
45.8    
46.1    
46.3    
46.5    
46.8    
47.0    
47.2    
47.5    
47.7    
47.9    
48.1    
48.4    
48.6    
48.8    
49.1    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
50.9    
51.2    
51.4    
51.6    
51.9    
52.1    
52.3    
52.5    
52.8    
53.0    
53.2    
53.5    
53.7    
53.9    
54.2    
54.4    
54.6    
54.9    
55.1    
55.3    
55.6    
55.8    
56.0    
56.2    
56.5    
56.7    
56.9    
57.2    
57.4    
57.6    
57.9    
58.1    
58.3    
58.6    
58.8    
59.0    
59.3    
59.5    
59.7    
60.0    
60.2    
60.4    
60.6    
60.9    
61.1    
61.3    
61.6    
61.8    
62.0    
62.3    
62.5    
62.7    
63.0    
63.2    
63.4    
63.7    
63.9    
64.1    
64.4    
64.6    
64.8    
65.0    
65.3    
65.5    
65.7    
66.0    
66.2    
66.4    
66.7    
66.9    
67.1    
67.4    
67.6    
67.8    
68.1    
68.3    
68.5    
68.8    
69.0    
69.2    
69.4    
69.7    
69.9    
70.1    
70.4    
70.6    
70.8    
71.1    
71.3    
71.5    
71.8    
72.0    
72.2    
72.5    
72.7    
72.9    
73.1    
73.4    
73.6    
73.8    
74.1    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
75.9    
76.2    
76.4    
76.6    
76.9    
77.1    
77.3    
77.5    
77.8    
78.0    
78.2    
78.5    
78.7    
78.9    
79.2    
79.4    
79.6    
79.9    
80.1    
80.3    
80.6    
80.8    
81.0    
81.2    
81.5    
81.7    
81.9    
82.2    
82.4    
82.6    
82.9    
83.1    
83.3    
83.6    
83.8    
84.0    
84.3    
84.5    
84.7    
85.0    
85.2    
85.4    
85.6    
85.9    
86.1    
86.3    
86.6    
86.8    
87.0    
87.3    
87.5    
87.7    
88.0    
88.2    
88.4    
88.7    
88.9    
89.1    
89.4    
89.6    
89.8    
90.0    
90.3    
90.5    
90.7    
91.0    
91.2    
91.4    
91.7    
91.9    
92.1    
92.4    
92.6    
92.8    
93.1    
93.3    
93.5    
93.8    
94.0    
94.2    
94.4    
94.7    
94.9    
95.1    
95.4    
95.6    
95.8    
96.1    
96.3    
96.5    
96.8    
97.0    
97.2    
97.5    
97.7    
97.9    
98.1    
98.4    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 5891, rend_intergenic: 2861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 9904, rend_intergenic: 6395  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22827, rend_intergenic: 16273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32831, rend_intergenic: 25820  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40008, rend_intergenic: 32898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49542, rend_intergenic: 41306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65762, rend_intergenic: 50560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73360, rend_intergenic: 66105  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80712, rend_intergenic: 80121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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