-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_4/scaffold_4_11705301-11948176

-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.17142_t
Valid prediction for GlimmerHMM_glimmerT_10506-T1
Valid prediction for snap_scaffold_4-snap.2518-T1
Valid prediction for snap_scaffold_4-snap.2529-T1
Valid prediction for GeneMark_model.17137_t
Valid prediction for Augustus_model.g6888.t1
Valid prediction for GlimmerHMM_glimmerT_10526-T1
Valid prediction for GlimmerHMM_glimmerT_10519-T1
Valid prediction for GlimmerHMM_glimmerT_10512-T1
Valid prediction for GlimmerHMM_glimmerT_10497-T1
Valid prediction for snap_scaffold_4-snap.2527-T1
Valid prediction for GeneMark_model.17164_t
Valid prediction for GlimmerHMM_glimmerT_10504-T1
Valid prediction for GeneMark_model.17149_t
Valid prediction for GlimmerHMM_glimmerT_10507-T1
Valid prediction for snap_scaffold_4-snap.2515-T1
Valid prediction for snap_scaffold_4-snap.2544-T1
Valid prediction for GlimmerHMM_glimmerT_10513-T1
Valid prediction for GeneMark_model.17122_t
Valid prediction for GeneMark_model.17133_t
Valid prediction for GeneMark_model.17141_t
Valid prediction for GlimmerHMM_glimmerT_10528-T1
Valid prediction for GlimmerHMM_glimmerT_10509-T1
Valid prediction for Augustus_model.g6887.t1
Valid prediction for snap_scaffold_4-snap.2526-T1
Valid prediction for GeneMark_model.17132_t
Valid prediction for snap_scaffold_4-snap.2528-T1
Valid prediction for snap_scaffold_4-snap.2522-T1
Valid prediction for snap_scaffold_4-snap.2514-T1
Valid prediction for GlimmerHMM_glimmerT_10521-T1
Valid prediction for snap_scaffold_4-snap.2536-T1
Valid prediction for GlimmerHMM_glimmerT_10498-T1
Valid prediction for GlimmerHMM_glimmerT_10503-T1
Valid prediction for snap_scaffold_4-snap.2521-T1
Valid prediction for snap_scaffold_4-snap.2533-T1
Valid prediction for snap_scaffold_4-snap.2523-T1
Valid prediction for GlimmerHMM_glimmerT_10508-T1
Valid prediction for snap_scaffold_4-snap.2507-T1
Valid prediction for snap_scaffold_4-snap.2537-T1
Valid prediction for GeneMark_model.17119_t
Valid prediction for GeneMark_model.17146_t
Valid prediction for GeneMark_model.17120_t
Valid prediction for Augustus_model.g6890.t1
Valid prediction for GeneMark_model.17150_t
Valid prediction for GlimmerHMM_glimmerT_10524-T1
Valid prediction for Augustus_model.g6891.t1
Valid prediction for GlimmerHMM_glimmerT_10529-T1
Valid prediction for GeneMark_model.17135_t
Valid prediction for GeneMark_model.17143_t
Valid prediction for Augustus_model.g6886.t1
Valid prediction for snap_scaffold_4-snap.2511-T1
Valid prediction for GeneMark_model.17127_t
Valid prediction for snap_scaffold_4-snap.2506-T1
Valid prediction for GeneMark_model.17162_t
Valid prediction for GlimmerHMM_glimmerT_10522-T1
Valid prediction for GlimmerHMM_glimmerT_10516-T1
Valid prediction for Augustus_model.g6895.t1
Valid prediction for GlimmerHMM_glimmerT_10527-T1
Valid prediction for snap_scaffold_4-snap.2538-T1
Valid prediction for GlimmerHMM_glimmerT_10500-T1
Valid prediction for GeneMark_model.17130_t
Valid prediction for GeneMark_model.17148_t
Valid prediction for GeneMark_model.17124_t
Valid prediction for snap_scaffold_4-snap.2510-T1
Valid prediction for GeneMark_model.17126_t
Valid prediction for GeneMark_model.17139_t
Valid prediction for GeneMark_model.17157_t
Valid prediction for GeneMark_model.17144_t
Valid prediction for snap_scaffold_4-snap.2539-T1
Valid prediction for snap_scaffold_4-snap.2517-T1
Valid prediction for GlimmerHMM_glimmerT_10517-T1
Valid prediction for GlimmerHMM_glimmerT_10502-T1
Valid prediction for GlimmerHMM_glimmerT_10511-T1
Valid prediction for snap_scaffold_4-snap.2508-T1
Valid prediction for snap_scaffold_4-snap.2512-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g6889.t1
Valid prediction for GeneMark_model.17145_t
Valid prediction for snap_scaffold_4-snap.2534-T1
Valid prediction for GeneMark_model.17159_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.17151_t
Valid prediction for GlimmerHMM_glimmerT_10523-T1
Valid prediction for GeneMark_model.17121_t
Valid prediction for GeneMark_model.17131_t
Valid prediction for snap_scaffold_4-snap.2519-T1
Valid prediction for GeneMark_model.17154_t
Valid prediction for GeneMark_model.17152_t
Valid prediction for snap_scaffold_4-snap.2530-T1
Valid prediction for Augustus_model.g6894.t1
Valid prediction for Augustus_model.g6892.t1
Valid prediction for GlimmerHMM_glimmerT_10520-T1
Valid prediction for GlimmerHMM_glimmerT_10518-T1
Valid prediction for GeneMark_model.17158_t
Valid prediction for snap_scaffold_4-snap.2531-T1
Valid prediction for GlimmerHMM_glimmerT_10505-T1
Valid prediction for snap_scaffold_4-snap.2542-T1
Valid prediction for GlimmerHMM_glimmerT_10510-T1
Valid prediction for GeneMark_model.17163_t
Valid prediction for GeneMark_model.17140_t
Valid prediction for Augustus_model.g6893.t1
Valid prediction for GlimmerHMM_glimmerT_10525-T1
Valid prediction for snap_scaffold_4-snap.2532-T1
Valid prediction for GeneMark_model.17125_t
Valid prediction for snap_scaffold_4-snap.2525-T1
Valid prediction for snap_scaffold_4-snap.2535-T1
Valid prediction for GeneMark_model.17153_t
Valid prediction for GeneMark_model.17134_t
Valid prediction for snap_scaffold_4-snap.2516-T1
Valid prediction for snap_scaffold_4-snap.2540-T1
Valid prediction for GeneMark_model.17155_t
Valid prediction for snap_scaffold_4-snap.2541-T1
Valid prediction for snap_scaffold_4-snap.2520-T1
Valid prediction for GlimmerHMM_glimmerT_10499-T1
Valid prediction for GeneMark_model.17128_t
Valid prediction for snap_scaffold_4-snap.2543-T1
Valid prediction for snap_scaffold_4-snap.2513-T1
Valid prediction for GlimmerHMM_glimmerT_10515-T1
Valid prediction for GeneMark_model.17138_t
Valid prediction for GeneMark_model.17160_t
Valid prediction for snap_scaffold_4-snap.2524-T1
Valid prediction for snap_scaffold_4-snap.2509-T1
Valid prediction for snap_scaffold_4-snap.2505-T1
Valid prediction for GeneMark_model.17161_t
Valid prediction for GeneMark_model.17129_t
Valid prediction for GlimmerHMM_glimmerT_10514-T1
Valid prediction for GeneMark_model.17123_t
Valid prediction for GlimmerHMM_glimmerT_10501-T1
Valid prediction for GeneMark_model.17156_t
Valid prediction for Augustus_model.g6896.t1
Valid prediction for GeneMark_model.17136_t
Valid prediction for GeneMark_model.17147_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18105, rend_intergenic: 16142  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62548, rend_intergenic: 58558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81996, rend_intergenic: 77296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104152, rend_intergenic: 94711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192921, rend_intergenic: 190665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214320, rend_intergenic: 210441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223248, rend_intergenic: 220365  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 235193, rend_intergenic: 232333  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 242876
-exon list size: 497


building trellis

0.2    
0.4    
0.6    
0.8    
1.0    
1.2    
1.4    
1.6    
1.8    
2.0    
2.2    
2.4    
2.6    
2.8    
3.0    
3.2    
3.4    
3.6    
3.8    
4.0    
4.2    
4.4    
4.6    
4.8    
5.0    
5.2    
5.4    
5.6    
5.8    
6.0    
6.2    
6.4    
6.6    
6.8    
7.0    
7.2    
7.4    
7.6    
7.8    
8.0    
8.2    
8.4    
8.6    
8.8    
9.0    
9.2    
9.4    
9.6    
9.8    
10.0    
10.2    
10.4    
10.6    
10.8    
11.0    
11.2    
11.4    
11.6    
11.8    
12.0    
12.2    
12.4    
12.6    
12.8    
13.0    
13.2    
13.4    
13.6    
13.8    
14.0    
14.2    
14.4    
14.6    
14.8    
15.0    
15.2    
15.4    
15.6    
15.8    
16.0    
16.2    
16.4    
16.6    
16.8    
17.0    
17.2    
17.4    
17.6    
17.8    
18.0    
18.2    
18.4    
18.6    
18.8    
19.0    
19.2    
19.4    
19.6    
19.8    
20.0    
20.2    
20.4    
20.6    
20.8    
21.0    
21.2    
21.4    
21.6    
21.8    
22.0    
22.2    
22.4    
22.6    
22.8    
23.0    
23.2    
23.4    
23.6    
23.8    
24.0    
24.2    
24.4    
24.6    
24.8    
25.1    
25.3    
25.5    
25.7    
25.9    
26.1    
26.3    
26.5    
26.7    
26.9    
27.1    
27.3    
27.5    
27.7    
27.9    
28.1    
28.3    
28.5    
28.7    
28.9    
29.1    
29.3    
29.5    
29.7    
29.9    
30.1    
30.3    
30.5    
30.7    
30.9    
31.1    
31.3    
31.5    
31.7    
31.9    
32.1    
32.3    
32.5    
32.7    
32.9    
33.1    
33.3    
33.5    
33.7    
33.9    
34.1    
34.3    
34.5    
34.7    
34.9    
35.1    
35.3    
35.5    
35.7    
35.9    
36.1    
36.3    
36.5    
36.7    
36.9    
37.1    
37.3    
37.5    
37.7    
37.9    
38.1    
38.3    
38.5    
38.7    
38.9    
39.1    
39.3    
39.5    
39.7    
39.9    
40.1    
40.3    
40.5    
40.7    
40.9    
41.1    
41.3    
41.5    
41.7    
41.9    
42.1    
42.3    
42.5    
42.7    
42.9    
43.1    
43.3    
43.5    
43.7    
43.9    
44.1    
44.3    
44.5    
44.7    
44.9    
45.1    
45.3    
45.5    
45.7    
45.9    
46.1    
46.3    
46.5    
46.7    
46.9    
47.1    
47.3    
47.5    
47.7    
47.9    
48.1    
48.3    
48.5    
48.7    
48.9    
49.1    
49.3    
49.5    
49.7    
49.9    
50.1    
50.3    
50.5    
50.7    
50.9    
51.1    
51.3    
51.5    
51.7    
51.9    
52.1    
52.3    
52.5    
52.7    
52.9    
53.1    
53.3    
53.5    
53.7    
53.9    
54.1    
54.3    
54.5    
54.7    
54.9    
55.1    
55.3    
55.5    
55.7    
55.9    
56.1    
56.3    
56.5    
56.7    
56.9    
57.1    
57.3    
57.5    
57.7    
57.9    
58.1    
58.3    
58.5    
58.7    
58.9    
59.1    
59.3    
59.5    
59.7    
59.9    
60.1    
60.3    
60.5    
60.7    
60.9    
61.1    
61.3    
61.5    
61.7    
61.9    
62.1    
62.3    
62.5    
62.7    
62.9    
63.1    
63.3    
63.5    
63.7    
63.9    
64.1    
64.3    
64.5    
64.7    
64.9    
65.1    
65.3    
65.5    
65.7    
65.9    
66.1    
66.3    
66.5    
66.7    
66.9    
67.1    
67.3    
67.5    
67.7    
67.9    
68.1    
68.3    
68.5    
68.7    
68.9    
69.1    
69.3    
69.5    
69.7    
69.9    
70.1    
70.3    
70.5    
70.7    
70.9    
71.1    
71.3    
71.5    
71.7    
71.9    
72.1    
72.3    
72.5    
72.7    
72.9    
73.1    
73.3    
73.5    
73.7    
73.9    
74.1    
74.3    
74.5    
74.7    
74.9    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.6    
76.8    
77.0    
77.2    
77.4    
77.6    
77.8    
78.0    
78.2    
78.4    
78.6    
78.8    
79.0    
79.2    
79.4    
79.6    
79.8    
80.0    
80.2    
80.4    
80.6    
80.8    
81.0    
81.2    
81.4    
81.6    
81.8    
82.0    
82.2    
82.4    
82.6    
82.8    
83.0    
83.2    
83.4    
83.6    
83.8    
84.0    
84.2    
84.4    
84.6    
84.8    
85.0    
85.2    
85.4    
85.6    
85.8    
86.0    
86.2    
86.4    
86.6    
86.8    
87.0    
87.2    
87.4    
87.6    
87.8    
88.0    
88.2    
88.4    
88.6    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.6    
91.8    
92.0    
92.2    
92.4    
92.6    
92.8    
93.0    
93.2    
93.4    
93.6    
93.8    
94.0    
94.2    
94.4    
94.6    
94.8    
95.0    
95.2    
95.4    
95.6    
95.8    
96.0    
96.2    
96.4    
96.6    
96.8    
97.0    
97.2    
97.4    
97.6    
97.8    
98.0    
98.2    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 18105, rend_intergenic: 16142  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62548, rend_intergenic: 58558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81996, rend_intergenic: 77296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104152, rend_intergenic: 94711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192921, rend_intergenic: 190665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214320, rend_intergenic: 210441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223248, rend_intergenic: 220365  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 235193, rend_intergenic: 232333  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 16141
-exon list size: 20


building trellis

4.5    
9.1    
13.6    
18.2    
22.7    
27.3    
31.8    
36.4    
40.9    
45.5    
50.0    
54.5    
59.1    
63.6    
68.2    
72.7    
77.3    
81.8    
86.4    
90.9    
95.5    
-found 1 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 - 14142
-exon list size: 17


building trellis

5.3    
10.5    
15.8    
21.1    
26.3    
31.6    
36.8    
42.1    
47.4    
52.6    
57.9    
63.2    
68.4    
73.7    
78.9    
84.2    
89.5    
94.7    
-found 1 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 - 12260
-exon list size: 8


building trellis

10.0    
20.0    
30.0    
40.0    
50.0    
60.0    
70.0    
80.0    
90.0    
-found 1 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 231843 - 242876
-exon list size: 10


building trellis

8.3    
16.7    
25.0    
33.3    
41.7    
50.0    
58.3    
66.7    
75.0    
83.3    
91.7    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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