-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_17/scaffold_17_9130815-9327633

-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 Augustus_model.g27975.t1
Valid prediction for snap_scaffold_17-snap.1832-T1
Valid prediction for GeneMark_model.71823_t
Valid prediction for GeneMark_model.71846_t
Valid prediction for GeneMark_model.71838_t
Valid prediction for snap_scaffold_17-snap.1836-T1
Couldn't classify 48350, 48494
Couldn't classify 49531, 49799
Sorry, prediction pasa_asmbl_18192.p1 fails validation.
(TCA)	 AG	48350-48494	GT	CAG
(AGC)	 AG	49255-49401	GT	AGG
(TCT)	 AG	49531-49799	GA	AGG
-recovered pasa_asmbl_18192.p1, internal, 48350, 48494
-recovered pasa_asmbl_18192.p1, internal, 49255, 49401
Valid prediction for GlimmerHMM_glimmerT_41748-T1
Valid prediction for Augustus_model.g27988.t1
Valid prediction for Augustus_model.g27985.t1
Valid prediction for GlimmerHMM_glimmerT_41758-T1
Valid prediction for GlimmerHMM_glimmerT_41746-T1
Valid prediction for GeneMark_model.71840_t
Valid prediction for Augustus_model.g27973.t1
Valid prediction for snap_scaffold_17-snap.1828-T1
Valid prediction for snap_scaffold_17-snap.1846-T1
Valid prediction for snap_scaffold_17-snap.1817-T1
Valid prediction for GeneMark_model.71857_t
Valid prediction for GeneMark_model.71847_t
Valid prediction for GeneMark_model.71839_t
Valid prediction for GeneMark_model.71844_t
Valid prediction for snap_scaffold_17-snap.1837-T1
Valid prediction for GlimmerHMM_glimmerT_41733-T1
Valid prediction for GeneMark_model.71822_t
Valid prediction for GeneMark_model.71842_t
Valid prediction for GlimmerHMM_glimmerT_41755-T1
Valid prediction for Augustus_model.g27976.t1
Valid prediction for GlimmerHMM_glimmerT_41747-T1
Valid prediction for Augustus_model.g27979.t1
Valid prediction for snap_scaffold_17-snap.1814-T1
Valid prediction for GlimmerHMM_glimmerT_41740-T1
Valid prediction for GlimmerHMM_glimmerT_41737-T1
Valid prediction for GlimmerHMM_glimmerT_41749-T1
Valid prediction for HiQ_model.g27987.t1
Valid prediction for snap_scaffold_17-snap.1844-T1
Valid prediction for snap_scaffold_17-snap.1838-T1
Valid prediction for snap_scaffold_17-snap.1834-T1
Valid prediction for GeneMark_model.71851_t
Valid prediction for GlimmerHMM_glimmerT_41735-T1
Valid prediction for snap_scaffold_17-snap.1818-T1
Valid prediction for Augustus_model.g27984.t1
Valid prediction for snap_scaffold_17-snap.1833-T1
Valid prediction for GeneMark_model.71852_t
Valid prediction for snap_scaffold_17-snap.1815-T1
Valid prediction for snap_scaffold_17-snap.1816-T1
Valid prediction for GeneMark_model.71853_t
Valid prediction for CodingQuarry_transcript_22065-T1
Valid prediction for GeneMark_model.71828_t
Valid prediction for GeneMark_model.71837_t
Valid prediction for snap_scaffold_17-snap.1840-T1
Valid prediction for Augustus_model.g27974.t1
Valid prediction for GeneMark_model.71849_t
Valid prediction for snap_scaffold_17-snap.1839-T1
Valid prediction for GlimmerHMM_glimmerT_41734-T1
Couldn't classify 103723, 104046
Sorry, prediction pasa_asmbl_18196.p1 fails validation.
(CAG)	 CC	103723-104046	TG	AAT
Valid prediction for pasa_asmbl_18197.p1
Valid prediction for GlimmerHMM_glimmerT_41736-T1
Valid prediction for Augustus_model.g27986.t1
Valid prediction for GlimmerHMM_glimmerT_41732-T1
Valid prediction for GeneMark_model.71831_t
Valid prediction for GeneMark_model.71835_t
Valid prediction for snap_scaffold_17-snap.1823-T1
Valid prediction for CodingQuarry_transcript_22067-T1
Valid prediction for snap_scaffold_17-snap.1830-T1
Valid prediction for GeneMark_model.71824_t
Valid prediction for GeneMark_model.71841_t
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: -)Valid prediction for CodingQuarry_transcript_22064-T1
Valid prediction for GeneMark_model.71834_t
Valid prediction for Augustus_model.g27990.t1
Valid prediction for GlimmerHMM_glimmerT_41743-T1
Valid prediction for snap_scaffold_17-snap.1843-T1
Valid prediction for GeneMark_model.71843_t
Valid prediction for GlimmerHMM_glimmerT_41757-T1
Valid prediction for GlimmerHMM_glimmerT_41738-T1
Valid prediction for snap_scaffold_17-snap.1841-T1
Valid prediction for pasa_asmbl_19208.p1
Valid prediction for snap_scaffold_17-snap.1822-T1
Valid prediction for snap_scaffold_17-snap.1847-T1
Couldn't classify 23448, 23780
Sorry, prediction pasa_asmbl_19210.p1 fails validation.
(AGC)	 AT	23448-23780	AA	GAA
Valid prediction for snap_scaffold_17-snap.1831-T1
Valid prediction for GlimmerHMM_glimmerT_41753-T1
Valid prediction for snap_scaffold_17-snap.1835-T1
Valid prediction for pasa_asmbl_19209.p1
Valid prediction for Augustus_model.g27981.t1
Valid prediction for snap_scaffold_17-snap.1819-T1
Valid prediction for HiQ_model.g27980.t1
Valid prediction for GeneMark_model.71848_t
Valid prediction for GlimmerHMM_glimmerT_41751-T1
Valid prediction for GlimmerHMM_glimmerT_41756-T1
Valid prediction for GeneMark_model.71854_t
Valid prediction for Augustus_model.g27983.t1
Valid prediction for GlimmerHMM_glimmerT_41752-T1
Valid prediction for snap_scaffold_17-snap.1848-T1
Valid prediction for CodingQuarry_transcript_22066-T1
Valid prediction for CodingQuarry_transcript_22068-T1
Valid prediction for Augustus_model.g27992.t1
Valid prediction for GeneMark_model.71856_t
Valid prediction for snap_scaffold_17-snap.1851-T1
Valid prediction for snap_scaffold_17-snap.1849-T1
Valid prediction for GeneMark_model.71829_t
Valid prediction for GeneMark_model.71833_t
Valid prediction for GlimmerHMM_glimmerT_41754-T1
Valid prediction for GeneMark_model.71858_t
Valid prediction for snap_scaffold_17-snap.1842-T1
Valid prediction for snap_scaffold_17-snap.1850-T1
Valid prediction for snap_scaffold_17-snap.1845-T1
Valid prediction for GeneMark_model.71855_t
Valid prediction for snap_scaffold_17-snap.1824-T1
Valid prediction for GeneMark_model.71832_t
Valid prediction for GlimmerHMM_glimmerT_41759-T1
Valid prediction for GlimmerHMM_glimmerT_41741-T1
Valid prediction for snap_scaffold_17-snap.1825-T1
Valid prediction for Augustus_model.g27982.t1
Valid prediction for snap_scaffold_17-snap.1827-T1
Valid prediction for GlimmerHMM_glimmerT_41742-T1
Valid prediction for GeneMark_model.71850_t
Valid prediction for GeneMark_model.71845_t
Valid prediction for GeneMark_model.71830_t
Valid prediction for snap_scaffold_17-snap.1829-T1
Valid prediction for GeneMark_model.71825_t
Valid prediction for GlimmerHMM_glimmerT_41739-T1
Valid prediction for Augustus_model.g27977.t1
Valid prediction for GlimmerHMM_glimmerT_41750-T1
Valid prediction for GeneMark_model.71826_t
Valid prediction for HiQ_model.g27991.t1
Valid prediction for HiQ_model.g27978.t1
Valid prediction for Augustus_model.g27989.t1
Valid prediction for GlimmerHMM_glimmerT_41744-T1
Valid prediction for GeneMark_model.71827_t
Valid prediction for GlimmerHMM_glimmerT_41745-T1
Valid prediction for snap_scaffold_17-snap.1820-T1
Couldn't classify 23004, 23315
Sorry, prediction pasa_asmbl_19211.p1 fails validation.
(GAT)	 AT	23004-23315	GA	ACG
Valid prediction for pasa_asmbl_19212.p1
Valid prediction for snap_scaffold_17-snap.1826-T1
Valid prediction for GeneMark_model.71836_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 72307, rend_intergenic: 70323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79588, rend_intergenic: 73063  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86667, rend_intergenic: 80658  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94962, rend_intergenic: 93555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132364, rend_intergenic: 118351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149595, rend_intergenic: 145576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 196819
-exon list size: 490


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    
3.3    
3.5    
3.7    
3.9    
4.1    
4.3    
4.5    
4.7    
4.9    
5.1    
5.3    
5.5    
5.7    
5.9    
6.1    
6.3    
6.5    
6.7    
6.9    
7.1    
7.3    
7.5    
7.7    
7.9    
8.1    
8.3    
8.5    
8.7    
8.9    
9.1    
9.3    
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    
15.7    
15.9    
16.1    
16.3    
16.5    
16.7    
16.9    
17.1    
17.3    
17.5    
17.7    
17.9    
18.1    
18.3    
18.5    
18.7    
18.9    
19.1    
19.3    
19.5    
19.7    
19.9    
20.1    
20.3    
20.5    
20.7    
20.9    
21.1    
21.3    
21.5    
21.7    
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    
25.0    
25.2    
25.4    
25.6    
25.8    
26.0    
26.2    
26.4    
26.6    
26.8    
27.0    
27.2    
27.4    
27.6    
27.8    
28.0    
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    
34.6    
34.8    
35.0    
35.2    
35.4    
35.6    
35.8    
36.0    
36.2    
36.4    
36.6    
36.8    
37.0    
37.2    
37.4    
37.6    
37.8    
38.0    
38.2    
38.4    
38.6    
38.8    
39.0    
39.2    
39.4    
39.6    
39.8    
40.0    
40.2    
40.4    
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    
47.0    
47.2    
47.4    
47.6    
47.8    
48.0    
48.2    
48.4    
48.6    
48.8    
49.0    
49.2    
49.4    
49.6    
49.8    
50.0    
50.2    
50.4    
50.6    
50.8    
51.0    
51.2    
51.4    
51.6    
51.8    
52.0    
52.2    
52.4    
52.6    
52.8    
53.0    
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    
59.6    
59.8    
60.0    
60.2    
60.4    
60.6    
60.8    
61.0    
61.2    
61.4    
61.6    
61.8    
62.0    
62.2    
62.4    
62.6    
62.8    
63.0    
63.2    
63.4    
63.6    
63.8    
64.0    
64.2    
64.4    
64.6    
64.8    
65.0    
65.2    
65.4    
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    
72.0    
72.2    
72.4    
72.6    
72.8    
73.0    
73.2    
73.4    
73.6    
73.8    
74.0    
74.2    
74.4    
74.6    
74.8    
75.0    
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    
78.3    
78.5    
78.7    
78.9    
79.1    
79.3    
79.5    
79.7    
79.9    
80.1    
80.3    
80.5    
80.7    
80.9    
81.1    
81.3    
81.5    
81.7    
81.9    
82.1    
82.3    
82.5    
82.7    
82.9    
83.1    
83.3    
83.5    
83.7    
83.9    
84.1    
84.3    
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    
90.7    
90.9    
91.1    
91.3    
91.5    
91.7    
91.9    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.3    
93.5    
93.7    
93.9    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.3    
96.5    
96.7    
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 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 72307, rend_intergenic: 70323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79588, rend_intergenic: 73063  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86667, rend_intergenic: 80658  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94962, rend_intergenic: 93555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132364, rend_intergenic: 118351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149595, rend_intergenic: 145576  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