-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_20/scaffold_20_8743974-8900416

-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_20-snap.1901-T1
Valid prediction for snap_scaffold_20-snap.1894-T1
Valid prediction for GlimmerHMM_glimmerT_46525-T1
Couldn't classify 101290, 101832
Sorry, prediction pasa_asmbl_26799.p1 fails validation.
(CAG)	 CG	101290-101832	GC	GAG
Valid prediction for snap_scaffold_20-snap.1919-T1
Valid prediction for GlimmerHMM_glimmerT_46512-T1
Valid prediction for GlimmerHMM_glimmerT_46522-T1
Valid prediction for Augustus_model.g30889.t1
Valid prediction for snap_scaffold_20-snap.1895-T1
Valid prediction for GlimmerHMM_glimmerT_46518-T1
Valid prediction for Augustus_model.g30895.t1
Valid prediction for Augustus_model.g30891.t1
Valid prediction for snap_scaffold_20-snap.1897-T1
Valid prediction for snap_scaffold_20-snap.1925-T1
Valid prediction for snap_scaffold_20-snap.1898-T1
Valid prediction for GlimmerHMM_glimmerT_46500-T1
Valid prediction for snap_scaffold_20-snap.1913-T1
Valid prediction for snap_scaffold_20-snap.1929-T1
Valid prediction for GlimmerHMM_glimmerT_46509-T1
Valid prediction for Augustus_model.g30894.t1
Valid prediction for snap_scaffold_20-snap.1920-T1
Valid prediction for Augustus_model.g30888.t1
Valid prediction for GlimmerHMM_glimmerT_46514-T1
Valid prediction for GlimmerHMM_glimmerT_46513-T1
Valid prediction for GlimmerHMM_glimmerT_46503-T1
Valid prediction for GlimmerHMM_glimmerT_46505-T1
Valid prediction for Augustus_model.g30887.t1
Valid prediction for Augustus_model.g30896.t1
Valid prediction for Augustus_model.g30886.t1
Couldn't classify 123829, 124232
Couldn't classify 124427, 124595
Sorry, prediction CodingQuarry_transcript_30583-T1 fails validation.
(ATG)	 AC	123829-124232	AT	ACA
(ATG)	 AC	124427-124595	AG	GAA
Valid prediction for snap_scaffold_20-snap.1907-T1
Valid prediction for snap_scaffold_20-snap.1911-T1
Valid prediction for snap_scaffold_20-snap.1900-T1
Valid prediction for snap_scaffold_20-snap.1923-T1
Valid prediction for snap_scaffold_20-snap.1905-T1
Valid prediction for GlimmerHMM_glimmerT_46504-T1
Valid prediction for snap_scaffold_20-snap.1914-T1
Valid prediction for GlimmerHMM_glimmerT_46502-T1
Valid prediction for Augustus_model.g30893.t1
Valid prediction for Augustus_model.g30890.t1
Valid prediction for snap_scaffold_20-snap.1927-T1
Valid prediction for snap_scaffold_20-snap.1928-T1
Valid prediction for snap_scaffold_20-snap.1916-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_20-snap.1906-T1
Valid prediction for GlimmerHMM_glimmerT_46515-T1
Valid prediction for snap_scaffold_20-snap.1904-T1
Valid prediction for GlimmerHMM_glimmerT_46511-T1
Valid prediction for snap_scaffold_20-snap.1903-T1
Valid prediction for snap_scaffold_20-snap.1912-T1
Valid prediction for snap_scaffold_20-snap.1915-T1
Valid prediction for snap_scaffold_20-snap.1922-T1
Valid prediction for GlimmerHMM_glimmerT_46517-T1
Valid prediction for snap_scaffold_20-snap.1921-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.1909-T1
Valid prediction for GlimmerHMM_glimmerT_46516-T1
Valid prediction for snap_scaffold_20-snap.1918-T1
Valid prediction for snap_scaffold_20-snap.1926-T1
Valid prediction for GlimmerHMM_glimmerT_46520-T1
Valid prediction for HiQ_model.g30885.t1
Valid prediction for GlimmerHMM_glimmerT_46507-T1
Valid prediction for GlimmerHMM_glimmerT_46521-T1
Valid prediction for GlimmerHMM_glimmerT_46501-T1
Valid prediction for snap_scaffold_20-snap.1924-T1
Valid prediction for snap_scaffold_20-snap.1910-T1
Valid prediction for snap_scaffold_20-snap.1899-T1
Valid prediction for GlimmerHMM_glimmerT_46524-T1
Valid prediction for GlimmerHMM_glimmerT_46523-T1
Valid prediction for GlimmerHMM_glimmerT_46508-T1
Valid prediction for snap_scaffold_20-snap.1908-T1
Valid prediction for GlimmerHMM_glimmerT_46506-T1
Valid prediction for GlimmerHMM_glimmerT_46510-T1
Valid prediction for snap_scaffold_20-snap.1902-T1
Valid prediction for snap_scaffold_20-snap.1896-T1
Valid prediction for snap_scaffold_20-snap.1917-T1
Valid prediction for Augustus_model.g30892.t1
Valid prediction for GlimmerHMM_glimmerT_46519-T1
Valid prediction for snap_scaffold_20-snap.1930-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 25000, rend_intergenic: 21264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45745, rend_intergenic: 44624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46592, rend_intergenic: 45944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52745, rend_intergenic: 47865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55165, rend_intergenic: 53984  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67785, rend_intergenic: 65519  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71837, rend_intergenic: 68012  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84662, rend_intergenic: 82535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111431, rend_intergenic: 101088  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117291, rend_intergenic: 112204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125437, rend_intergenic: 117544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128850, rend_intergenic: 125459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129289, rend_intergenic: 128918  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143351, rend_intergenic: 129415  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152015, rend_intergenic: 143463  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 156443
-exon list size: 250


building trellis

0.4    
0.8    
1.2    
1.6    
2.0    
2.4    
2.8    
3.2    
3.6    
4.0    
4.4    
4.8    
5.2    
5.6    
6.0    
6.3    
6.7    
7.1    
7.5    
7.9    
8.3    
8.7    
9.1    
9.5    
9.9    
10.3    
10.7    
11.1    
11.5    
11.9    
12.3    
12.7    
13.1    
13.5    
13.9    
14.3    
14.7    
15.1    
15.5    
15.9    
16.3    
16.7    
17.1    
17.5    
17.9    
18.3    
18.7    
19.0    
19.4    
19.8    
20.2    
20.6    
21.0    
21.4    
21.8    
22.2    
22.6    
23.0    
23.4    
23.8    
24.2    
24.6    
25.0    
25.4    
25.8    
26.2    
26.6    
27.0    
27.4    
27.8    
28.2    
28.6    
29.0    
29.4    
29.8    
30.2    
30.6    
31.0    
31.3    
31.7    
32.1    
32.5    
32.9    
33.3    
33.7    
34.1    
34.5    
34.9    
35.3    
35.7    
36.1    
36.5    
36.9    
37.3    
37.7    
38.1    
38.5    
38.9    
39.3    
39.7    
40.1    
40.5    
40.9    
41.3    
41.7    
42.1    
42.5    
42.9    
43.3    
43.7    
44.0    
44.4    
44.8    
45.2    
45.6    
46.0    
46.4    
46.8    
47.2    
47.6    
48.0    
48.4    
48.8    
49.2    
49.6    
50.0    
50.4    
50.8    
51.2    
51.6    
52.0    
52.4    
52.8    
53.2    
53.6    
54.0    
54.4    
54.8    
55.2    
55.6    
56.0    
56.3    
56.7    
57.1    
57.5    
57.9    
58.3    
58.7    
59.1    
59.5    
59.9    
60.3    
60.7    
61.1    
61.5    
61.9    
62.3    
62.7    
63.1    
63.5    
63.9    
64.3    
64.7    
65.1    
65.5    
65.9    
66.3    
66.7    
67.1    
67.5    
67.9    
68.3    
68.7    
69.0    
69.4    
69.8    
70.2    
70.6    
71.0    
71.4    
71.8    
72.2    
72.6    
73.0    
73.4    
73.8    
74.2    
74.6    
75.0    
75.4    
75.8    
76.2    
76.6    
77.0    
77.4    
77.8    
78.2    
78.6    
79.0    
79.4    
79.8    
80.2    
80.6    
81.0    
81.3    
81.7    
82.1    
82.5    
82.9    
83.3    
83.7    
84.1    
84.5    
84.9    
85.3    
85.7    
86.1    
86.5    
86.9    
87.3    
87.7    
88.1    
88.5    
88.9    
89.3    
89.7    
90.1    
90.5    
90.9    
91.3    
91.7    
92.1    
92.5    
92.9    
93.3    
93.7    
94.0    
94.4    
94.8    
95.2    
95.6    
96.0    
96.4    
96.8    
97.2    
97.6    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 25000, rend_intergenic: 21264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45745, rend_intergenic: 44624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46592, rend_intergenic: 45944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52745, rend_intergenic: 47865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55165, rend_intergenic: 53984  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67785, rend_intergenic: 65519  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71837, rend_intergenic: 68012  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84662, rend_intergenic: 82535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111431, rend_intergenic: 101088  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117291, rend_intergenic: 112204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125437, rend_intergenic: 117544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128850, rend_intergenic: 125459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129289, rend_intergenic: 128918  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143351, rend_intergenic: 129415  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152015, rend_intergenic: 143463  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 129939 - 156443
-exon list size: 24


building trellis

3.8    
7.7    
11.5    
15.4    
19.2    
23.1    
26.9    
30.8    
34.6    
38.5    
42.3    
46.2    
50.0    
53.8    
57.7    
61.5    
65.4    
69.2    
73.1    
76.9    
80.8    
84.6    
88.5    
92.3    
96.2    
-found 3 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 143664 - 156443
-exon list size: 5


building trellis

14.3    
28.6    
42.9    
57.1    
71.4    
85.7    
-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 145960 - 156443
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-found 1 predictions from path traversal

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