-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_9369798-9572750

-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_50028-T1
Valid prediction for GlimmerHMM_glimmerT_50032-T1
Valid prediction for snap_scaffold_22-snap.1913-T1
Valid prediction for snap_scaffold_22-snap.1914-T1
Valid prediction for snap_scaffold_22-snap.1917-T1
Valid prediction for GlimmerHMM_glimmerT_50016-T1
Valid prediction for CodingQuarry_transcript_34256-T1
Valid prediction for Augustus_model.g33366.t1
Valid prediction for snap_scaffold_22-snap.1919-T1
Valid prediction for GlimmerHMM_glimmerT_50017-T1
Valid prediction for GlimmerHMM_glimmerT_50031-T1
Valid prediction for Augustus_model.g33362.t1
Valid prediction for GlimmerHMM_glimmerT_50027-T1
Valid prediction for snap_scaffold_22-snap.1918-T1
Valid prediction for GlimmerHMM_glimmerT_50019-T1
Valid prediction for snap_scaffold_22-snap.1931-T1
Valid prediction for snap_scaffold_22-snap.1930-T1
Couldn't classify 28303, 28656
Sorry, prediction pasa_asmbl_30526.p1 fails validation.
(ATG)	 AC	28303-28656	AA	GGA
Valid prediction for snap_scaffold_22-snap.1904-T1
Valid prediction for snap_scaffold_22-snap.1947-T1
Valid prediction for snap_scaffold_22-snap.1925-T1
Valid prediction for snap_scaffold_22-snap.1927-T1
Valid prediction for HiQ_model.g33364.t1
Valid prediction for GlimmerHMM_glimmerT_50033-T1
Valid prediction for GlimmerHMM_glimmerT_50030-T1
Valid prediction for snap_scaffold_22-snap.1937-T1
Valid prediction for snap_scaffold_22-snap.1920-T1
Valid prediction for GlimmerHMM_glimmerT_50020-T1
Valid prediction for GlimmerHMM_glimmerT_50021-T1
Valid prediction for Augustus_model.g33371.t1
Valid prediction for snap_scaffold_22-snap.1934-T1
Valid prediction for snap_scaffold_22-snap.1935-T1
Valid prediction for snap_scaffold_22-snap.1939-T1
Valid prediction for GlimmerHMM_glimmerT_50037-T1
Valid prediction for snap_scaffold_22-snap.1922-T1
Valid prediction for pasa_asmbl_30307.p1
Valid prediction for snap_scaffold_22-snap.1901-T1
Valid prediction for snap_scaffold_22-snap.1938-T1
Valid prediction for snap_scaffold_22-snap.1944-T1
Valid prediction for Augustus_model.g33365.t1
Valid prediction for Augustus_model.g33370.t1
Valid prediction for GlimmerHMM_glimmerT_50029-T1
Valid prediction for Augustus_model.g33367.t1
Valid prediction for snap_scaffold_22-snap.1900-T1
Valid prediction for GlimmerHMM_glimmerT_50022-T1
Valid prediction for snap_scaffold_22-snap.1908-T1
Valid prediction for Augustus_model.g33363.t1
Valid prediction for GlimmerHMM_glimmerT_50018-T1
Valid prediction for snap_scaffold_22-snap.1907-T1
Valid prediction for GlimmerHMM_glimmerT_50024-T1
Valid prediction for snap_scaffold_22-snap.1932-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 GlimmerHMM_glimmerT_50035-T1
Valid prediction for Augustus_model.g33372.t1
Valid prediction for GlimmerHMM_glimmerT_50025-T1
Valid prediction for snap_scaffold_22-snap.1910-T1
Valid prediction for snap_scaffold_22-snap.1946-T1
Valid prediction for snap_scaffold_22-snap.1902-T1
Valid prediction for snap_scaffold_22-snap.1906-T1
Valid prediction for snap_scaffold_22-snap.1933-T1
Valid prediction for GlimmerHMM_glimmerT_50038-T1
Valid prediction for snap_scaffold_22-snap.1924-T1
Valid prediction for snap_scaffold_22-snap.1921-T1
Valid prediction for snap_scaffold_22-snap.1941-T1
Valid prediction for snap_scaffold_22-snap.1899-T1
Valid prediction for Augustus_model.g33369.t1
Valid prediction for HiQ_model.g33374.t1
Valid prediction for snap_scaffold_22-snap.1915-T1
Valid prediction for snap_scaffold_22-snap.1926-T1
Valid prediction for snap_scaffold_22-snap.1911-T1
Valid prediction for snap_scaffold_22-snap.1943-T1
Valid prediction for GlimmerHMM_glimmerT_50039-T1
Valid prediction for GlimmerHMM_glimmerT_50023-T1
Valid prediction for snap_scaffold_22-snap.1909-T1
Valid prediction for Augustus_model.g33368.t1
Valid prediction for snap_scaffold_22-snap.1929-T1
Valid prediction for GlimmerHMM_glimmerT_50034-T1
Valid prediction for snap_scaffold_22-snap.1936-T1
Valid prediction for snap_scaffold_22-snap.1945-T1
Valid prediction for snap_scaffold_22-snap.1923-T1
Valid prediction for snap_scaffold_22-snap.1940-T1
Valid prediction for GlimmerHMM_glimmerT_50026-T1
Valid prediction for snap_scaffold_22-snap.1916-T1
Valid prediction for snap_scaffold_22-snap.1928-T1
Valid prediction for snap_scaffold_22-snap.1905-T1
Valid prediction for snap_scaffold_22-snap.1942-T1
Valid prediction for CodingQuarry_transcript_34257-T1
Valid prediction for Augustus_model.g33373.t1
Valid prediction for snap_scaffold_22-snap.1912-T1
Valid prediction for snap_scaffold_22-snap.1903-T1
Valid prediction for GlimmerHMM_glimmerT_50036-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15900, rend_intergenic: 11019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20699, rend_intergenic: 19318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24625, rend_intergenic: 20877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28620, rend_intergenic: 26673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44635, rend_intergenic: 30370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49540, rend_intergenic: 45885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61347, rend_intergenic: 58796  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68166, rend_intergenic: 63261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83332, rend_intergenic: 80184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89996, rend_intergenic: 84978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94619, rend_intergenic: 90348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97595, rend_intergenic: 96281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104870, rend_intergenic: 97957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109167, rend_intergenic: 107504  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123549, rend_intergenic: 116956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143189, rend_intergenic: 141784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153173, rend_intergenic: 143707  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161806, rend_intergenic: 157360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182130, rend_intergenic: 173790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198945, rend_intergenic: 195767  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 202953
-exon list size: 367


building trellis

0.3    
0.5    
0.8    
1.1    
1.4    
1.6    
1.9    
2.2    
2.4    
2.7    
3.0    
3.3    
3.5    
3.8    
4.1    
4.3    
4.6    
4.9    
5.1    
5.4    
5.7    
6.0    
6.2    
6.5    
6.8    
7.0    
7.3    
7.6    
7.9    
8.1    
8.4    
8.7    
8.9    
9.2    
9.5    
9.8    
10.0    
10.3    
10.6    
10.8    
11.1    
11.4    
11.7    
11.9    
12.2    
12.5    
12.7    
13.0    
13.3    
13.6    
13.8    
14.1    
14.4    
14.6    
14.9    
15.2    
15.4    
15.7    
16.0    
16.3    
16.5    
16.8    
17.1    
17.3    
17.6    
17.9    
18.2    
18.4    
18.7    
19.0    
19.2    
19.5    
19.8    
20.1    
20.3    
20.6    
20.9    
21.1    
21.4    
21.7    
22.0    
22.2    
22.5    
22.8    
23.0    
23.3    
23.6    
23.8    
24.1    
24.4    
24.7    
24.9    
25.2    
25.5    
25.7    
26.0    
26.3    
26.6    
26.8    
27.1    
27.4    
27.6    
27.9    
28.2    
28.5    
28.7    
29.0    
29.3    
29.5    
29.8    
30.1    
30.4    
30.6    
30.9    
31.2    
31.4    
31.7    
32.0    
32.2    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.1    
34.4    
34.7    
35.0    
35.2    
35.5    
35.8    
36.0    
36.3    
36.6    
36.9    
37.1    
37.4    
37.7    
37.9    
38.2    
38.5    
38.8    
39.0    
39.3    
39.6    
39.8    
40.1    
40.4    
40.7    
40.9    
41.2    
41.5    
41.7    
42.0    
42.3    
42.5    
42.8    
43.1    
43.4    
43.6    
43.9    
44.2    
44.4    
44.7    
45.0    
45.3    
45.5    
45.8    
46.1    
46.3    
46.6    
46.9    
47.2    
47.4    
47.7    
48.0    
48.2    
48.5    
48.8    
49.1    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
50.9    
51.2    
51.5    
51.8    
52.0    
52.3    
52.6    
52.8    
53.1    
53.4    
53.7    
53.9    
54.2    
54.5    
54.7    
55.0    
55.3    
55.6    
55.8    
56.1    
56.4    
56.6    
56.9    
57.2    
57.5    
57.7    
58.0    
58.3    
58.5    
58.8    
59.1    
59.3    
59.6    
59.9    
60.2    
60.4    
60.7    
61.0    
61.2    
61.5    
61.8    
62.1    
62.3    
62.6    
62.9    
63.1    
63.4    
63.7    
64.0    
64.2    
64.5    
64.8    
65.0    
65.3    
65.6    
65.9    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.8    
68.0    
68.3    
68.6    
68.8    
69.1    
69.4    
69.6    
69.9    
70.2    
70.5    
70.7    
71.0    
71.3    
71.5    
71.8    
72.1    
72.4    
72.6    
72.9    
73.2    
73.4    
73.7    
74.0    
74.3    
74.5    
74.8    
75.1    
75.3    
75.6    
75.9    
76.2    
76.4    
76.7    
77.0    
77.2    
77.5    
77.8    
78.0    
78.3    
78.6    
78.9    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.0    
81.3    
81.6    
81.8    
82.1    
82.4    
82.7    
82.9    
83.2    
83.5    
83.7    
84.0    
84.3    
84.6    
84.8    
85.1    
85.4    
85.6    
85.9    
86.2    
86.4    
86.7    
87.0    
87.3    
87.5    
87.8    
88.1    
88.3    
88.6    
88.9    
89.2    
89.4    
89.7    
90.0    
90.2    
90.5    
90.8    
91.1    
91.3    
91.6    
91.9    
92.1    
92.4    
92.7    
93.0    
93.2    
93.5    
93.8    
94.0    
94.3    
94.6    
94.9    
95.1    
95.4    
95.7    
95.9    
96.2    
96.5    
96.7    
97.0    
97.3    
97.6    
97.8    
98.1    
98.4    
98.6    
98.9    
99.2    
99.5    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 15900, rend_intergenic: 11019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20699, rend_intergenic: 19318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24625, rend_intergenic: 20877  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28620, rend_intergenic: 26673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44635, rend_intergenic: 30370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49540, rend_intergenic: 45885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61347, rend_intergenic: 58796  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68166, rend_intergenic: 63261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83332, rend_intergenic: 80184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89996, rend_intergenic: 84978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94619, rend_intergenic: 90348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97595, rend_intergenic: 96281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104870, rend_intergenic: 97957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109167, rend_intergenic: 107504  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123549, rend_intergenic: 116956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143189, rend_intergenic: 141784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153173, rend_intergenic: 143707  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161806, rend_intergenic: 157360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182130, rend_intergenic: 173790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198945, rend_intergenic: 195767  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 19317
-exon list size: 14


building trellis

6.2    
12.5    
18.8    
25.0    
31.2    
37.5    
43.8    
50.0    
56.2    
62.5    
68.8    
75.0    
81.2    
87.5    
93.8    
-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 - 19025
-exon list size: 13


building trellis

6.7    
13.3    
20.0    
26.7    
33.3    
40.0    
46.7    
53.3    
60.0    
66.7    
73.3    
80.0    
86.7    
93.3    
-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 8806 - 19025
-exon list size: 9


building trellis

9.1    
18.2    
27.3    
36.4    
45.5    
54.5    
63.6    
72.7    
81.8    
90.9    
-found 1 predictions from path traversal

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