-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_9147252-9389570

-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_40800-T1
Valid prediction for GlimmerHMM_glimmerT_40830-T1
Valid prediction for GlimmerHMM_glimmerT_40814-T1
Couldn't classify 87286, 87609
Sorry, prediction pasa_asmbl_19070.p1 fails validation.
(CAG)	 CC	87286-87609	TG	AAT
Valid prediction for snap_scaffold_17-snap.1834-T1
Valid prediction for snap_scaffold_17-snap.1826-T1
Valid prediction for GlimmerHMM_glimmerT_40822-T1
Valid prediction for Augustus_model.g27214.t1
Valid prediction for snap_scaffold_17-snap.1830-T1
Valid prediction for snap_scaffold_17-snap.1849-T1
Valid prediction for snap_scaffold_17-snap.1814-T1
Valid prediction for snap_scaffold_17-snap.1827-T1
Valid prediction for snap_scaffold_17-snap.1837-T1
Valid prediction for snap_scaffold_17-snap.1829-T1
Valid prediction for snap_scaffold_17-snap.1808-T1
Valid prediction for snap_scaffold_17-snap.1820-T1
Valid prediction for snap_scaffold_17-snap.1809-T1
Valid prediction for GlimmerHMM_glimmerT_40816-T1
Valid prediction for GlimmerHMM_glimmerT_40813-T1
Valid prediction for snap_scaffold_17-snap.1823-T1
Valid prediction for HiQ_model.g27225.t1
Valid prediction for Augustus_model.g27223.t1
Valid prediction for snap_scaffold_17-snap.1850-T1
Valid prediction for snap_scaffold_17-snap.1828-T1
Valid prediction for Augustus_model.g27224.t1
Valid prediction for GlimmerHMM_glimmerT_40802-T1
Couldn't classify 31913, 32057
Couldn't classify 33094, 33362
Sorry, prediction pasa_asmbl_19066.p1 fails validation.
(TCA)	 AG	31913-32057	GT	CAG
(AGC)	 AG	32818-32964	GT	AGG
(TCT)	 AG	33094-33362	GA	AGG
-recovered pasa_asmbl_19066.p1, internal, 31913, 32057
-recovered pasa_asmbl_19066.p1, internal, 32818, 32964
Valid prediction for Augustus_model.g27217.t1
Valid prediction for GlimmerHMM_glimmerT_40815-T1
Valid prediction for Augustus_model.g27237.t1
Valid prediction for Augustus_model.g27213.t1
Valid prediction for pasa_asmbl_19071.p1
Valid prediction for snap_scaffold_17-snap.1812-T1
Valid prediction for snap_scaffold_17-snap.1824-T1
Valid prediction for Augustus_model.g27226.t1
Valid prediction for GlimmerHMM_glimmerT_40812-T1
Valid prediction for GlimmerHMM_glimmerT_40828-T1
Valid prediction for CodingQuarry_transcript_22111-T1
Valid prediction for GlimmerHMM_glimmerT_40801-T1
Valid prediction for GlimmerHMM_glimmerT_40805-T1
Valid prediction for Augustus_model.g27222.t1
Valid prediction for CodingQuarry_transcript_22113-T1
Valid prediction for snap_scaffold_17-snap.1821-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: -)Couldn't classify 47714, 48188
Sorry, prediction pasa_asmbl_18168.p1 fails validation.
(AGG)	 CA	47714-48188	GT	AGG
(ACC)	 AG	48952-49340	AT	GAA
-recovered pasa_asmbl_18168.p1, terminal, 48952, 49340
Valid prediction for GlimmerHMM_glimmerT_40803-T1
Valid prediction for GlimmerHMM_glimmerT_40818-T1
Valid prediction for snap_scaffold_17-snap.1839-T1
Valid prediction for snap_scaffold_17-snap.1815-T1
Valid prediction for CodingQuarry_transcript_22114-T1
Valid prediction for GlimmerHMM_glimmerT_40817-T1
Valid prediction for snap_scaffold_17-snap.1819-T1
Valid prediction for GlimmerHMM_glimmerT_40811-T1
Valid prediction for GlimmerHMM_glimmerT_40809-T1
Valid prediction for CodingQuarry_transcript_22116-T1
Valid prediction for GlimmerHMM_glimmerT_40806-T1
Valid prediction for CodingQuarry_transcript_22112-T1
Valid prediction for GlimmerHMM_glimmerT_40826-T1
Valid prediction for GlimmerHMM_glimmerT_40820-T1
Valid prediction for GlimmerHMM_glimmerT_40808-T1
Valid prediction for snap_scaffold_17-snap.1841-T1
Valid prediction for HiQ_model.g27231.t1
Valid prediction for snap_scaffold_17-snap.1840-T1
Valid prediction for GlimmerHMM_glimmerT_40827-T1
Valid prediction for GlimmerHMM_glimmerT_40810-T1
Valid prediction for HiQ_model.g27232.t1
Valid prediction for snap_scaffold_17-snap.1838-T1
Valid prediction for HiQ_model.g27218.t1
Valid prediction for snap_scaffold_17-snap.1848-T1
Valid prediction for GlimmerHMM_glimmerT_40807-T1
Valid prediction for CodingQuarry_transcript_22117-T1
Valid prediction for GlimmerHMM_glimmerT_40823-T1
Valid prediction for Augustus_model.g27228.t1
Valid prediction for Augustus_model.g27230.t1
Valid prediction for pasa_asmbl_18170.p1
Valid prediction for snap_scaffold_17-snap.1832-T1
Valid prediction for GlimmerHMM_glimmerT_40829-T1
Valid prediction for HiQ_model.g27229.t1
Valid prediction for snap_scaffold_17-snap.1842-T1
Valid prediction for GlimmerHMM_glimmerT_40821-T1
Valid prediction for HiQ_model.g27234.t1
Valid prediction for Augustus_model.g27215.t1
Couldn't classify 85385, 85717
Sorry, prediction pasa_asmbl_18163.p1 fails validation.
(AGC)	 AT	85385-85717	AA	GAA
Valid prediction for GlimmerHMM_glimmerT_40804-T1
Couldn't classify 37066, 37294
Sorry, prediction pasa_asmbl_18172.p1 fails validation.
(CCC)	 AC	37066-37294	GT	CGG
(GAG)	 AG	38008-38282	TG	GAT
-recovered pasa_asmbl_18172.p1, terminal, 38008, 38282
Valid prediction for snap_scaffold_17-snap.1811-T1
Couldn't classify 84941, 85252
Sorry, prediction pasa_asmbl_18164.p1 fails validation.
(GAT)	 AT	84941-85252	GA	ACG
Valid prediction for GlimmerHMM_glimmerT_40819-T1
Valid prediction for snap_scaffold_17-snap.1843-T1
Valid prediction for snap_scaffold_17-snap.1833-T1
Valid prediction for snap_scaffold_17-snap.1813-T1
Valid prediction for snap_scaffold_17-snap.1831-T1
Valid prediction for HiQ_model.g27216.t1
Valid prediction for GlimmerHMM_glimmerT_40824-T1
Valid prediction for HiQ_model.g27220.t1
Valid prediction for snap_scaffold_17-snap.1825-T1
Valid prediction for Augustus_model.g27235.t1
Valid prediction for snap_scaffold_17-snap.1810-T1
Valid prediction for pasa_asmbl_18161.p1
Valid prediction for snap_scaffold_17-snap.1846-T1
Valid prediction for Augustus_model.g27219.t1
Valid prediction for snap_scaffold_17-snap.1844-T1
Valid prediction for pasa_asmbl_18162.p1
Valid prediction for snap_scaffold_17-snap.1836-T1
Valid prediction for snap_scaffold_17-snap.1847-T1
Valid prediction for snap_scaffold_17-snap.1817-T1
Valid prediction for CodingQuarry_transcript_22110-T1
Valid prediction for pasa_asmbl_18165.p1
Valid prediction for HiQ_model.g27236.t1
Couldn't classify 55866, 56088
Sorry, prediction pasa_asmbl_18166.p1 fails validation.
(ACC)	 TC	55866-56088	GT	CGG
(ACA)	 AG	56632-56885	TA	GAT
-recovered pasa_asmbl_18166.p1, terminal, 56632, 56885
Valid prediction for snap_scaffold_17-snap.1822-T1
Valid prediction for GlimmerHMM_glimmerT_40825-T1
Valid prediction for snap_scaffold_17-snap.1818-T1
Valid prediction for snap_scaffold_17-snap.1835-T1
Valid prediction for snap_scaffold_17-snap.1845-T1
Valid prediction for Augustus_model.g27227.t1
Valid prediction for HiQ_model.g27233.t1
Valid prediction for Augustus_model.g27221.t1
Valid prediction for snap_scaffold_17-snap.1816-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 63188, rend_intergenic: 56570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67420, rend_intergenic: 63609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70230, rend_intergenic: 67674  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78525, rend_intergenic: 77118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115927, rend_intergenic: 101914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133158, rend_intergenic: 129139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 242319
-exon list size: 317


building trellis

0.3    
0.6    
0.9    
1.3    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.6    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.8    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.7    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.6    
17.9    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.5    
24.8    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.1    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.2    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.9    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.7    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.2    
75.5    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.1    
82.4    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.2    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.7    
99.1    
99.4    
99.7    
-found 37 predictions from path traversal
Error with prediction: snap lend_intergenic: 63188, rend_intergenic: 56570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67420, rend_intergenic: 63609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70230, rend_intergenic: 67674  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78525, rend_intergenic: 77118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115927, rend_intergenic: 101914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133158, rend_intergenic: 129139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 28 predictions persist after filtering for low support