-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_18/scaffold_18_3233585-3354540

-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.655-T1
Valid prediction for GeneMark_model.74245_t
Valid prediction for GeneMark_model.74264_t
Valid prediction for GlimmerHMM_glimmerT_42989-T1
Valid prediction for snap_scaffold_18-snap.646-T1
Valid prediction for snap_scaffold_18-snap.662-T1
Valid prediction for GeneMark_model.74262_t
Valid prediction for snap_scaffold_18-snap.645-T1
Valid prediction for snap_scaffold_18-snap.665-T1
Valid prediction for GeneMark_model.74256_t
Valid prediction for GeneMark_model.74240_t
Valid prediction for GeneMark_model.74242_t
Valid prediction for snap_scaffold_18-snap.653-T1
Valid prediction for snap_scaffold_18-snap.668-T1
Valid prediction for GeneMark_model.74258_t
Valid prediction for snap_scaffold_18-snap.664-T1
Valid prediction for GeneMark_model.74248_t
Valid prediction for GlimmerHMM_glimmerT_42994-T1
Valid prediction for GeneMark_model.74246_t
Valid prediction for Augustus_model.g28764.t1
Valid prediction for snap_scaffold_18-snap.660-T1
Valid prediction for snap_scaffold_18-snap.659-T1
Valid prediction for GeneMark_model.74251_t
Valid prediction for Augustus_model.g28763.t1
Valid prediction for snap_scaffold_18-snap.652-T1
Valid prediction for snap_scaffold_18-snap.648-T1
Valid prediction for GeneMark_model.74267_t
Valid prediction for GeneMark_model.74249_t
Valid prediction for GeneMark_model.74253_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 GeneMark_model.74241_t
Valid prediction for GlimmerHMM_glimmerT_42983-T1
Valid prediction for Augustus_model.g28762.t1
Valid prediction for GlimmerHMM_glimmerT_42984-T1
Valid prediction for GeneMark_model.74247_t
Valid prediction for GeneMark_model.74244_t
Valid prediction for snap_scaffold_18-snap.649-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GeneMark_model.74243_t
Valid prediction for Augustus_model.g28757.t1
Valid prediction for Augustus_model.g28760.t1
Valid prediction for snap_scaffold_18-snap.657-T1
Valid prediction for Augustus_model.g28761.t1
Valid prediction for GeneMark_model.74259_t
Valid prediction for GlimmerHMM_glimmerT_42990-T1
Valid prediction for GlimmerHMM_glimmerT_42986-T1
Valid prediction for GlimmerHMM_glimmerT_42991-T1
Valid prediction for snap_scaffold_18-snap.654-T1
Valid prediction for snap_scaffold_18-snap.656-T1
Valid prediction for snap_scaffold_18-snap.643-T1
Valid prediction for Augustus_model.g28759.t1
Valid prediction for GeneMark_model.74250_t
Valid prediction for snap_scaffold_18-snap.658-T1
Valid prediction for GeneMark_model.74252_t
Valid prediction for GlimmerHMM_glimmerT_42988-T1
Valid prediction for Augustus_model.g28758.t1
Valid prediction for snap_scaffold_18-snap.647-T1
Valid prediction for snap_scaffold_18-snap.663-T1
Couldn't classify 111707, 111772
Sorry, prediction pasa_asmbl_19798.p1 fails validation.
(CTG)	 AT	111707-111772	GT	AGG
(GGT)	 AG	111918-112013	GT	AGG
(GAG)	 AG	112213-112381	GT	AGG
(GTG)	 AG	113219-113454	GT	AGG
(GAC)	 AG	113555-113709	GT	TGG
(CCC)	 AG	114216-114287	GT	AGG
(GTG)	 AG	114918-115114	GT	TGG
(GTC)	 AG	115327-115445	GT	AGG
(CTG)	 AG	115628-115831	GT	TGG
(ATG)	 AG	116616-116735	AC	AGA
-recovered pasa_asmbl_19798.p1, terminal, 116616, 116735
-recovered pasa_asmbl_19798.p1, internal, 111918, 112013
-recovered pasa_asmbl_19798.p1, internal, 112213, 112381
-recovered pasa_asmbl_19798.p1, internal, 113219, 113454
-recovered pasa_asmbl_19798.p1, internal, 113555, 113709
-recovered pasa_asmbl_19798.p1, internal, 114216, 114287
-recovered pasa_asmbl_19798.p1, internal, 114918, 115114
-recovered pasa_asmbl_19798.p1, internal, 115327, 115445
-recovered pasa_asmbl_19798.p1, internal, 115628, 115831
Valid prediction for Augustus_model.g28756.t1
Valid prediction for snap_scaffold_18-snap.644-T1
Valid prediction for GlimmerHMM_glimmerT_42992-T1
Valid prediction for snap_scaffold_18-snap.640-T1
Valid prediction for snap_scaffold_18-snap.666-T1
Valid prediction for snap_scaffold_18-snap.651-T1
Valid prediction for GeneMark_model.74239_t
Couldn't classify 104360, 104437
Couldn't classify 107817, 107954
Sorry, prediction pasa_asmbl_19799.p1 fails validation.
(CTG)	 AC	104360-104437	GT	AGG
(GAG)	 AG	105534-105645	GT	AGG
(ACC)	 AG	105860-105981	GT	GGG
(CTG)	 AG	107817-107954	AT	GCA
-recovered pasa_asmbl_19799.p1, internal, 105534, 105645
-recovered pasa_asmbl_19799.p1, internal, 105860, 105981
Valid prediction for GeneMark_model.74255_t
Valid prediction for Augustus_model.g28754.t1
Valid prediction for GeneMark_model.74266_t
Valid prediction for snap_scaffold_18-snap.641-T1
Valid prediction for GlimmerHMM_glimmerT_42993-T1
Valid prediction for GeneMark_model.74261_t
Valid prediction for GeneMark_model.74263_t
Valid prediction for snap_scaffold_18-snap.661-T1
Valid prediction for snap_scaffold_18-snap.650-T1
Valid prediction for GeneMark_model.74265_t
Valid prediction for Augustus_model.g28755.t1
Valid prediction for GeneMark_model.74260_t
Valid prediction for snap_scaffold_18-snap.642-T1
Valid prediction for GlimmerHMM_glimmerT_42987-T1
Valid prediction for GlimmerHMM_glimmerT_42985-T1
Valid prediction for snap_scaffold_18-snap.639-T1
Valid prediction for snap_scaffold_18-snap.667-T1
Valid prediction for GeneMark_model.74254_t
Valid prediction for GeneMark_model.74257_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 47293, rend_intergenic: 40476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52186, rend_intergenic: 48835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53544, rend_intergenic: 52375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62933, rend_intergenic: 56511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66286, rend_intergenic: 63035  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73533, rend_intergenic: 67010  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81993, rend_intergenic: 80120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86591, rend_intergenic: 84254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89006, rend_intergenic: 88358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92502, rend_intergenic: 89542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112991, rend_intergenic: 108421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 120956
-exon list size: 393


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
1.8    
2.0    
2.3    
2.5    
2.8    
3.0    
3.3    
3.5    
3.8    
4.1    
4.3    
4.6    
4.8    
5.1    
5.3    
5.6    
5.8    
6.1    
6.3    
6.6    
6.8    
7.1    
7.3    
7.6    
7.8    
8.1    
8.4    
8.6    
8.9    
9.1    
9.4    
9.6    
9.9    
10.1    
10.4    
10.6    
10.9    
11.1    
11.4    
11.6    
11.9    
12.2    
12.4    
12.7    
12.9    
13.2    
13.4    
13.7    
13.9    
14.2    
14.4    
14.7    
14.9    
15.2    
15.4    
15.7    
15.9    
16.2    
16.5    
16.7    
17.0    
17.2    
17.5    
17.7    
18.0    
18.2    
18.5    
18.7    
19.0    
19.2    
19.5    
19.7    
20.0    
20.3    
20.5    
20.8    
21.0    
21.3    
21.5    
21.8    
22.0    
22.3    
22.5    
22.8    
23.0    
23.3    
23.5    
23.8    
24.1    
24.3    
24.6    
24.8    
25.1    
25.3    
25.6    
25.8    
26.1    
26.3    
26.6    
26.8    
27.1    
27.3    
27.6    
27.8    
28.1    
28.4    
28.6    
28.9    
29.1    
29.4    
29.6    
29.9    
30.1    
30.4    
30.6    
30.9    
31.1    
31.4    
31.6    
31.9    
32.2    
32.4    
32.7    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.4    
34.7    
34.9    
35.2    
35.4    
35.7    
35.9    
36.2    
36.5    
36.7    
37.0    
37.2    
37.5    
37.7    
38.0    
38.2    
38.5    
38.7    
39.0    
39.2    
39.5    
39.7    
40.0    
40.3    
40.5    
40.8    
41.0    
41.3    
41.5    
41.8    
42.0    
42.3    
42.5    
42.8    
43.0    
43.3    
43.5    
43.8    
44.1    
44.3    
44.6    
44.8    
45.1    
45.3    
45.6    
45.8    
46.1    
46.3    
46.6    
46.8    
47.1    
47.3    
47.6    
47.8    
48.1    
48.4    
48.6    
48.9    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.1    
51.4    
51.6    
51.9    
52.2    
52.4    
52.7    
52.9    
53.2    
53.4    
53.7    
53.9    
54.2    
54.4    
54.7    
54.9    
55.2    
55.4    
55.7    
55.9    
56.2    
56.5    
56.7    
57.0    
57.2    
57.5    
57.7    
58.0    
58.2    
58.5    
58.7    
59.0    
59.2    
59.5    
59.7    
60.0    
60.3    
60.5    
60.8    
61.0    
61.3    
61.5    
61.8    
62.0    
62.3    
62.5    
62.8    
63.0    
63.3    
63.5    
63.8    
64.1    
64.3    
64.6    
64.8    
65.1    
65.3    
65.6    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.3    
67.6    
67.8    
68.1    
68.4    
68.6    
68.9    
69.1    
69.4    
69.6    
69.9    
70.1    
70.4    
70.6    
70.9    
71.1    
71.4    
71.6    
71.9    
72.2    
72.4    
72.7    
72.9    
73.2    
73.4    
73.7    
73.9    
74.2    
74.4    
74.7    
74.9    
75.2    
75.4    
75.7    
75.9    
76.2    
76.5    
76.7    
77.0    
77.2    
77.5    
77.7    
78.0    
78.2    
78.5    
78.7    
79.0    
79.2    
79.5    
79.7    
80.0    
80.3    
80.5    
80.8    
81.0    
81.3    
81.5    
81.8    
82.0    
82.3    
82.5    
82.8    
83.0    
83.3    
83.5    
83.8    
84.1    
84.3    
84.6    
84.8    
85.1    
85.3    
85.6    
85.8    
86.1    
86.3    
86.6    
86.8    
87.1    
87.3    
87.6    
87.8    
88.1    
88.4    
88.6    
88.9    
89.1    
89.4    
89.6    
89.9    
90.1    
90.4    
90.6    
90.9    
91.1    
91.4    
91.6    
91.9    
92.2    
92.4    
92.7    
92.9    
93.2    
93.4    
93.7    
93.9    
94.2    
94.4    
94.7    
94.9    
95.2    
95.4    
95.7    
95.9    
96.2    
96.5    
96.7    
97.0    
97.2    
97.5    
97.7    
98.0    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 18 predictions from path traversal
Error with prediction: snap lend_intergenic: 47293, rend_intergenic: 40476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52186, rend_intergenic: 48835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53544, rend_intergenic: 52375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62933, rend_intergenic: 56511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66286, rend_intergenic: 63035  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73533, rend_intergenic: 67010  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81993, rend_intergenic: 80120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86591, rend_intergenic: 84254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89006, rend_intergenic: 88358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92502, rend_intergenic: 89542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112991, rend_intergenic: 108421  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