-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1/scaffold_1_15664292-15892101

-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_1-snap.2768-T1
Valid prediction for HiQ_model.g1553.t1
Valid prediction for HiQ_model.g1566.t1
Valid prediction for Augustus_model.g1558.t1
Valid prediction for snap_scaffold_1-snap.2767-T1
Valid prediction for GeneMark_model.2974_t
Valid prediction for GeneMark_model.2992_t
Valid prediction for pasa_asmbl_2431.p1
Valid prediction for GlimmerHMM_glimmerT_2122-T1
Valid prediction for snap_scaffold_1-snap.2772-T1
Valid prediction for Augustus_model.g1550.t1
Valid prediction for Augustus_model.g1559.t1
Valid prediction for snap_scaffold_1-snap.2766-T1
Valid prediction for CodingQuarry_transcript_2934-T1
Valid prediction for snap_scaffold_1-snap.2775-T1
Valid prediction for snap_scaffold_1-snap.2756-T1
Valid prediction for pasa_asmbl_2427.p1
Valid prediction for snap_scaffold_1-snap.2786-T1
Valid prediction for snap_scaffold_1-snap.2762-T1
Valid prediction for GeneMark_model.2987_t
Valid prediction for snap_scaffold_1-snap.2761-T1
Valid prediction for GeneMark_model.2985_t
Valid prediction for GlimmerHMM_glimmerT_2132-T1
Valid prediction for GlimmerHMM_glimmerT_2127-T1
Valid prediction for GeneMark_model.3000_t
Valid prediction for snap_scaffold_1-snap.2784-T1
Valid prediction for pasa_asmbl_2429.p1
Valid prediction for GeneMark_model.2995_t
Valid prediction for snap_scaffold_1-snap.2778-T1
Valid prediction for Augustus_model.g1556.t1
Valid prediction for GlimmerHMM_glimmerT_2120-T1
Valid prediction for Augustus_model.g1555.t1
Valid prediction for HiQ_model.g1561.t1
Valid prediction for GlimmerHMM_glimmerT_2128-T1
Valid prediction for GeneMark_model.2973_t
Valid prediction for Augustus_model.g1564.t1
Valid prediction for snap_scaffold_1-snap.2782-T1
Valid prediction for GlimmerHMM_glimmerT_2136-T1
Valid prediction for GeneMark_model.2988_t
Valid prediction for Augustus_model.g1563.t1
Valid prediction for snap_scaffold_1-snap.2780-T1
Valid prediction for snap_scaffold_1-snap.2759-T1
Valid prediction for GlimmerHMM_glimmerT_2138-T1
Valid prediction for snap_scaffold_1-snap.2783-T1
Valid prediction for snap_scaffold_1-snap.2753-T1
Valid prediction for Augustus_model.g1554.t1
Valid prediction for snap_scaffold_1-snap.2755-T1
Valid prediction for GeneMark_model.2980_t
Valid prediction for snap_scaffold_1-snap.2769-T1
Valid prediction for snap_scaffold_1-snap.2764-T1
Valid prediction for GlimmerHMM_glimmerT_2114-T1
Valid prediction for CodingQuarry_transcript_2937-T1
Valid prediction for snap_scaffold_1-snap.2754-T1
Valid prediction for GlimmerHMM_glimmerT_2129-T1
Valid prediction for CodingQuarry_transcript_2939-T1
Valid prediction for HiQ_model.g1565.t1
Valid prediction for CodingQuarry_transcript_2936-T1
Valid prediction for snap_scaffold_1-snap.2758-T1
Valid prediction for snap_scaffold_1-snap.2760-T1
Valid prediction for GeneMark_model.2986_t
Valid prediction for GlimmerHMM_glimmerT_2123-T1
Valid prediction for snap_scaffold_1-snap.2765-T1
Valid prediction for Augustus_model.g1549.t1
Valid prediction for GlimmerHMM_glimmerT_2124-T1
Valid prediction for GlimmerHMM_glimmerT_2116-T1
Valid prediction for snap_scaffold_1-snap.2771-T1
Valid prediction for GeneMark_model.2998_t
Valid prediction for GlimmerHMM_glimmerT_2133-T1
Valid prediction for snap_scaffold_1-snap.2757-T1
Valid prediction for Augustus_model.g1551.t1
Valid prediction for GeneMark_model.2983_t
Valid prediction for snap_scaffold_1-snap.2773-T1
Valid prediction for Augustus_model.g1552.t1
Valid prediction for HiQ_model.g1568.t1
Valid prediction for GlimmerHMM_glimmerT_2126-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 GeneMark_model.2978_t
Valid prediction for GeneMark_model.2976_t
Valid prediction for GlimmerHMM_glimmerT_2135-T1
Valid prediction for GlimmerHMM_glimmerT_2131-T1
Valid prediction for pasa_asmbl_967.p1
Valid prediction for GeneMark_model.2991_t
Valid prediction for snap_scaffold_1-snap.2785-T1
Valid prediction for GeneMark_model.2977_t
Valid prediction for GeneMark_model.2981_t
Valid prediction for snap_scaffold_1-snap.2781-T1
Valid prediction for snap_scaffold_1-snap.2763-T1
Valid prediction for snap_scaffold_1-snap.2752-T1
Valid prediction for GlimmerHMM_glimmerT_2134-T1
Valid prediction for GeneMark_model.2970_t
Valid prediction for GeneMark_model.2975_t
Valid prediction for GlimmerHMM_glimmerT_2117-T1
Valid prediction for GeneMark_model.2997_t
Valid prediction for pasa_asmbl_966.p1
Valid prediction for GlimmerHMM_glimmerT_2121-T1
Valid prediction for GeneMark_model.2969_t
Valid prediction for pasa_asmbl_1283.p1
Valid prediction for GeneMark_model.2993_t
Valid prediction for CodingQuarry_transcript_2933-T1
Valid prediction for CodingQuarry_transcript_2938-T1
Valid prediction for GeneMark_model.2979_t
Valid prediction for GeneMark_model.2994_t
Valid prediction for snap_scaffold_1-snap.2770-T1
Valid prediction for GeneMark_model.2996_t
Valid prediction for HiQ_model.g1560.t1
Valid prediction for snap_scaffold_1-snap.2777-T1
Valid prediction for GeneMark_model.2971_t
Valid prediction for CodingQuarry_transcript_2932-T1
Valid prediction for snap_scaffold_1-snap.2776-T1
Valid prediction for HiQ_model.g1567.t1
Valid prediction for GlimmerHMM_glimmerT_2125-T1
Valid prediction for GlimmerHMM_glimmerT_2137-T1
Valid prediction for CodingQuarry_transcript_2935-T1
Valid prediction for snap_scaffold_1-snap.2774-T1
Valid prediction for GeneMark_model.2989_t
Valid prediction for pasa_asmbl_965.p1
Valid prediction for GeneMark_model.2990_t
Valid prediction for GeneMark_model.2972_t
Valid prediction for GeneMark_model.2982_t
Valid prediction for GlimmerHMM_glimmerT_2119-T1
Valid prediction for GeneMark_model.2999_t
Valid prediction for HiQ_model.g1562.t1
Valid prediction for snap_scaffold_1-snap.2779-T1
Valid prediction for Augustus_model.g1557.t1
Valid prediction for GlimmerHMM_glimmerT_2115-T1
Valid prediction for GeneMark_model.2984_t
Valid prediction for GlimmerHMM_glimmerT_2130-T1
Valid prediction for GlimmerHMM_glimmerT_2118-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 73417, rend_intergenic: 73414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167304, rend_intergenic: 165305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176279, rend_intergenic: 175167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178444, rend_intergenic: 176963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 227810
-exon list size: 408


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.5    
1.7    
2.0    
2.2    
2.4    
2.7    
2.9    
3.2    
3.4    
3.7    
3.9    
4.1    
4.4    
4.6    
4.9    
5.1    
5.4    
5.6    
5.9    
6.1    
6.3    
6.6    
6.8    
7.1    
7.3    
7.6    
7.8    
8.0    
8.3    
8.5    
8.8    
9.0    
9.3    
9.5    
9.8    
10.0    
10.2    
10.5    
10.7    
11.0    
11.2    
11.5    
11.7    
12.0    
12.2    
12.4    
12.7    
12.9    
13.2    
13.4    
13.7    
13.9    
14.1    
14.4    
14.6    
14.9    
15.1    
15.4    
15.6    
15.9    
16.1    
16.3    
16.6    
16.8    
17.1    
17.3    
17.6    
17.8    
18.0    
18.3    
18.5    
18.8    
19.0    
19.3    
19.5    
19.8    
20.0    
20.2    
20.5    
20.7    
21.0    
21.2    
21.5    
21.7    
22.0    
22.2    
22.4    
22.7    
22.9    
23.2    
23.4    
23.7    
23.9    
24.1    
24.4    
24.6    
24.9    
25.1    
25.4    
25.6    
25.9    
26.1    
26.3    
26.6    
26.8    
27.1    
27.3    
27.6    
27.8    
28.0    
28.3    
28.5    
28.8    
29.0    
29.3    
29.5    
29.8    
30.0    
30.2    
30.5    
30.7    
31.0    
31.2    
31.5    
31.7    
32.0    
32.2    
32.4    
32.7    
32.9    
33.2    
33.4    
33.7    
33.9    
34.1    
34.4    
34.6    
34.9    
35.1    
35.4    
35.6    
35.9    
36.1    
36.3    
36.6    
36.8    
37.1    
37.3    
37.6    
37.8    
38.0    
38.3    
38.5    
38.8    
39.0    
39.3    
39.5    
39.8    
40.0    
40.2    
40.5    
40.7    
41.0    
41.2    
41.5    
41.7    
42.0    
42.2    
42.4    
42.7    
42.9    
43.2    
43.4    
43.7    
43.9    
44.1    
44.4    
44.6    
44.9    
45.1    
45.4    
45.6    
45.9    
46.1    
46.3    
46.6    
46.8    
47.1    
47.3    
47.6    
47.8    
48.0    
48.3    
48.5    
48.8    
49.0    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
51.0    
51.2    
51.5    
51.7    
52.0    
52.2    
52.4    
52.7    
52.9    
53.2    
53.4    
53.7    
53.9    
54.1    
54.4    
54.6    
54.9    
55.1    
55.4    
55.6    
55.9    
56.1    
56.3    
56.6    
56.8    
57.1    
57.3    
57.6    
57.8    
58.0    
58.3    
58.5    
58.8    
59.0    
59.3    
59.5    
59.8    
60.0    
60.2    
60.5    
60.7    
61.0    
61.2    
61.5    
61.7    
62.0    
62.2    
62.4    
62.7    
62.9    
63.2    
63.4    
63.7    
63.9    
64.1    
64.4    
64.6    
64.9    
65.1    
65.4    
65.6    
65.9    
66.1    
66.3    
66.6    
66.8    
67.1    
67.3    
67.6    
67.8    
68.0    
68.3    
68.5    
68.8    
69.0    
69.3    
69.5    
69.8    
70.0    
70.2    
70.5    
70.7    
71.0    
71.2    
71.5    
71.7    
72.0    
72.2    
72.4    
72.7    
72.9    
73.2    
73.4    
73.7    
73.9    
74.1    
74.4    
74.6    
74.9    
75.1    
75.4    
75.6    
75.9    
76.1    
76.3    
76.6    
76.8    
77.1    
77.3    
77.6    
77.8    
78.0    
78.3    
78.5    
78.8    
79.0    
79.3    
79.5    
79.8    
80.0    
80.2    
80.5    
80.7    
81.0    
81.2    
81.5    
81.7    
82.0    
82.2    
82.4    
82.7    
82.9    
83.2    
83.4    
83.7    
83.9    
84.1    
84.4    
84.6    
84.9    
85.1    
85.4    
85.6    
85.9    
86.1    
86.3    
86.6    
86.8    
87.1    
87.3    
87.6    
87.8    
88.0    
88.3    
88.5    
88.8    
89.0    
89.3    
89.5    
89.8    
90.0    
90.2    
90.5    
90.7    
91.0    
91.2    
91.5    
91.7    
92.0    
92.2    
92.4    
92.7    
92.9    
93.2    
93.4    
93.7    
93.9    
94.1    
94.4    
94.6    
94.9    
95.1    
95.4    
95.6    
95.9    
96.1    
96.3    
96.6    
96.8    
97.1    
97.3    
97.6    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 27 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 73417, rend_intergenic: 73414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167304, rend_intergenic: 165305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176279, rend_intergenic: 175167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178444, rend_intergenic: 176963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 26560
-exon list size: 26


building trellis

3.6    
7.1    
10.7    
14.3    
17.9    
21.4    
25.0    
28.6    
32.1    
35.7    
39.3    
42.9    
46.4    
50.0    
53.6    
57.1    
60.7    
64.3    
67.9    
71.4    
75.0    
78.6    
82.1    
85.7    
89.3    
92.9    
96.4    
-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 - 21951
-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 - 18844
-exon list size: 12


building trellis

7.1    
14.3    
21.4    
28.6    
35.7    
42.9    
50.0    
57.1    
64.3    
71.4    
78.6    
85.7    
92.9    
-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 5639 - 18844
-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

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

-building DP trellis

-building trellis in range 6593 - 18844
-exon list size: 6


building trellis

12.5    
25.0    
37.5    
50.0    
62.5    
75.0    
87.5    
-found 1 predictions from path traversal

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