-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_9161377-9402916

-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_12-snap.1726-T1
Valid prediction for CodingQuarry_transcript_10334-T1
Valid prediction for snap_scaffold_12-snap.1758-T1
Valid prediction for snap_scaffold_12-snap.1753-T1
Valid prediction for GlimmerHMM_glimmerT_29781-T1
Valid prediction for snap_scaffold_12-snap.1736-T1
Valid prediction for snap_scaffold_12-snap.1755-T1
Valid prediction for Augustus_model.g19700.t1
Valid prediction for snap_scaffold_12-snap.1742-T1
Valid prediction for GlimmerHMM_glimmerT_29793-T1
Valid prediction for snap_scaffold_12-snap.1727-T1
Valid prediction for GlimmerHMM_glimmerT_29789-T1
Valid prediction for snap_scaffold_12-snap.1759-T1
Valid prediction for HiQ_model.g19689.t1
Valid prediction for Augustus_model.g19706.t1
Valid prediction for snap_scaffold_12-snap.1725-T1
Valid prediction for GlimmerHMM_glimmerT_29786-T1
Valid prediction for Augustus_model.g19704.t1
Valid prediction for snap_scaffold_12-snap.1749-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.1748-T1
Valid prediction for snap_scaffold_12-snap.1752-T1
Valid prediction for snap_scaffold_12-snap.1723-T1
Valid prediction for Augustus_model.g19703.t1
Valid prediction for snap_scaffold_12-snap.1747-T1
Valid prediction for GlimmerHMM_glimmerT_29803-T1
Valid prediction for Augustus_model.g19699.t1
Valid prediction for snap_scaffold_12-snap.1740-T1
Valid prediction for Augustus_model.g19682.t1
Valid prediction for snap_scaffold_12-snap.1724-T1
Valid prediction for snap_scaffold_12-snap.1739-T1
Valid prediction for Augustus_model.g19685.t1
Valid prediction for snap_scaffold_12-snap.1720-T1
Valid prediction for snap_scaffold_12-snap.1745-T1
Valid prediction for snap_scaffold_12-snap.1738-T1
Valid prediction for snap_scaffold_12-snap.1728-T1
Valid prediction for snap_scaffold_12-snap.1743-T1
Valid prediction for snap_scaffold_12-snap.1730-T1
Valid prediction for snap_scaffold_12-snap.1722-T1
Valid prediction for snap_scaffold_12-snap.1733-T1
Valid prediction for GlimmerHMM_glimmerT_29780-T1
Valid prediction for GlimmerHMM_glimmerT_29801-T1
Valid prediction for Augustus_model.g19684.t1
Valid prediction for GlimmerHMM_glimmerT_29794-T1
Valid prediction for GlimmerHMM_glimmerT_29805-T1
Valid prediction for GlimmerHMM_glimmerT_29787-T1
Valid prediction for pasa_asmbl_7860.p1
Valid prediction for Augustus_model.g19695.t1
Valid prediction for GlimmerHMM_glimmerT_29782-T1
Valid prediction for snap_scaffold_12-snap.1750-T1
Valid prediction for GlimmerHMM_glimmerT_29797-T1
Valid prediction for Augustus_model.g19683.t1
Valid prediction for GlimmerHMM_glimmerT_29800-T1
Valid prediction for snap_scaffold_12-snap.1735-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 Augustus_model.g19693.t1
Valid prediction for GlimmerHMM_glimmerT_29779-T1
Valid prediction for snap_scaffold_12-snap.1731-T1
Valid prediction for Augustus_model.g19691.t1
Valid prediction for GlimmerHMM_glimmerT_29796-T1
Valid prediction for Augustus_model.g19702.t1
Valid prediction for Augustus_model.g19681.t1
Valid prediction for HiQ_model.g19688.t1
Valid prediction for GlimmerHMM_glimmerT_29798-T1
Valid prediction for Augustus_model.g19696.t1
Valid prediction for Augustus_model.g19697.t1
Valid prediction for GlimmerHMM_glimmerT_29791-T1
Valid prediction for snap_scaffold_12-snap.1754-T1
Valid prediction for snap_scaffold_12-snap.1741-T1
Valid prediction for GlimmerHMM_glimmerT_29804-T1
Valid prediction for GlimmerHMM_glimmerT_29784-T1
Valid prediction for pasa_asmbl_8662.p1
Valid prediction for GlimmerHMM_glimmerT_29785-T1
Valid prediction for GlimmerHMM_glimmerT_29790-T1
Valid prediction for GlimmerHMM_glimmerT_29802-T1
Valid prediction for snap_scaffold_12-snap.1721-T1
Valid prediction for GlimmerHMM_glimmerT_29778-T1
Valid prediction for pasa_asmbl_8658.p1
Valid prediction for snap_scaffold_12-snap.1756-T1
Valid prediction for Augustus_model.g19690.t1
Valid prediction for GlimmerHMM_glimmerT_29788-T1
Valid prediction for snap_scaffold_12-snap.1732-T1
Valid prediction for Augustus_model.g19701.t1
Valid prediction for Augustus_model.g19694.t1
Valid prediction for Augustus_model.g19692.t1
Valid prediction for Augustus_model.g19687.t1
Valid prediction for CodingQuarry_transcript_10331-T1
Valid prediction for GlimmerHMM_glimmerT_29799-T1
Couldn't classify 180731, 180859
Sorry, prediction pasa_asmbl_8657.p1 fails validation.
(GAC)	 TG	180731-180859	GT	AGG
(GGG)	 AG	180981-181040	GT	TGG
(ACC)	 AG	182214-182360	GT	AGG
(GAA)	 AG	183220-183306	GT	AAG
(GGG)	 AG	183469-183550	GT	AGG
(GGA)	 AG	184011-184126	GT	AGG
(ACT)	 AG	184406-184582	GT	AGG
(AGG)	 AG	185641-185661	GT	AGG
(GAT)	 AG	187017-187113	GT	TTG
(GCA)	 AG	187421-187507	GT	AGG
(CTG)	 AG	187746-187845	GT	AAG
(GAG)	 AG	188003-188057	GT	AGG
(GAG)	 AG	188264-188386	AC	GAA
-recovered pasa_asmbl_8657.p1, terminal, 188264, 188386
-recovered pasa_asmbl_8657.p1, internal, 180981, 181040
-recovered pasa_asmbl_8657.p1, internal, 182214, 182360
-recovered pasa_asmbl_8657.p1, internal, 183220, 183306
-recovered pasa_asmbl_8657.p1, internal, 183469, 183550
-recovered pasa_asmbl_8657.p1, internal, 184011, 184126
-recovered pasa_asmbl_8657.p1, internal, 184406, 184582
-recovered pasa_asmbl_8657.p1, internal, 185641, 185661
-recovered pasa_asmbl_8657.p1, internal, 187017, 187113
-recovered pasa_asmbl_8657.p1, internal, 187421, 187507
-recovered pasa_asmbl_8657.p1, internal, 187746, 187845
-recovered pasa_asmbl_8657.p1, internal, 188003, 188057
Valid prediction for GlimmerHMM_glimmerT_29792-T1
Valid prediction for snap_scaffold_12-snap.1746-T1
Valid prediction for snap_scaffold_12-snap.1734-T1
Valid prediction for Augustus_model.g19698.t1
Valid prediction for CodingQuarry_transcript_10333-T1
Valid prediction for snap_scaffold_12-snap.1737-T1
Valid prediction for Augustus_model.g19686.t1
Valid prediction for Augustus_model.g19705.t1
Valid prediction for snap_scaffold_12-snap.1744-T1
Valid prediction for CodingQuarry_transcript_10332-T1
Valid prediction for GlimmerHMM_glimmerT_29795-T1
Valid prediction for snap_scaffold_12-snap.1729-T1
Valid prediction for snap_scaffold_12-snap.1751-T1
Valid prediction for GlimmerHMM_glimmerT_29783-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 57196, rend_intergenic: 53155  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61802, rend_intergenic: 57422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98848, rend_intergenic: 96344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99914, rend_intergenic: 99717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113731, rend_intergenic: 106712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119512, rend_intergenic: 114445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127738, rend_intergenic: 124251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131145, rend_intergenic: 128358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 241540
-exon list size: 363


building trellis

0.3    
0.5    
0.8    
1.1    
1.4    
1.6    
1.9    
2.2    
2.5    
2.7    
3.0    
3.3    
3.6    
3.8    
4.1    
4.4    
4.7    
4.9    
5.2    
5.5    
5.8    
6.0    
6.3    
6.6    
6.8    
7.1    
7.4    
7.7    
7.9    
8.2    
8.5    
8.8    
9.0    
9.3    
9.6    
9.9    
10.1    
10.4    
10.7    
11.0    
11.2    
11.5    
11.8    
12.1    
12.3    
12.6    
12.9    
13.2    
13.4    
13.7    
14.0    
14.2    
14.5    
14.8    
15.1    
15.3    
15.6    
15.9    
16.2    
16.4    
16.7    
17.0    
17.3    
17.5    
17.8    
18.1    
18.4    
18.6    
18.9    
19.2    
19.5    
19.7    
20.0    
20.3    
20.5    
20.8    
21.1    
21.4    
21.6    
21.9    
22.2    
22.5    
22.7    
23.0    
23.3    
23.6    
23.8    
24.1    
24.4    
24.7    
24.9    
25.2    
25.5    
25.8    
26.0    
26.3    
26.6    
26.8    
27.1    
27.4    
27.7    
27.9    
28.2    
28.5    
28.8    
29.0    
29.3    
29.6    
29.9    
30.1    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.1    
32.3    
32.6    
32.9    
33.2    
33.4    
33.7    
34.0    
34.2    
34.5    
34.8    
35.1    
35.3    
35.6    
35.9    
36.2    
36.4    
36.7    
37.0    
37.3    
37.5    
37.8    
38.1    
38.4    
38.6    
38.9    
39.2    
39.5    
39.7    
40.0    
40.3    
40.5    
40.8    
41.1    
41.4    
41.6    
41.9    
42.2    
42.5    
42.7    
43.0    
43.3    
43.6    
43.8    
44.1    
44.4    
44.7    
44.9    
45.2    
45.5    
45.8    
46.0    
46.3    
46.6    
46.8    
47.1    
47.4    
47.7    
47.9    
48.2    
48.5    
48.8    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.2    
51.5    
51.8    
52.1    
52.3    
52.6    
52.9    
53.2    
53.4    
53.7    
54.0    
54.2    
54.5    
54.8    
55.1    
55.3    
55.6    
55.9    
56.2    
56.4    
56.7    
57.0    
57.3    
57.5    
57.8    
58.1    
58.4    
58.6    
58.9    
59.2    
59.5    
59.7    
60.0    
60.3    
60.5    
60.8    
61.1    
61.4    
61.6    
61.9    
62.2    
62.5    
62.7    
63.0    
63.3    
63.6    
63.8    
64.1    
64.4    
64.7    
64.9    
65.2    
65.5    
65.8    
66.0    
66.3    
66.6    
66.8    
67.1    
67.4    
67.7    
67.9    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.9    
70.1    
70.4    
70.7    
71.0    
71.2    
71.5    
71.8    
72.1    
72.3    
72.6    
72.9    
73.2    
73.4    
73.7    
74.0    
74.2    
74.5    
74.8    
75.1    
75.3    
75.6    
75.9    
76.2    
76.4    
76.7    
77.0    
77.3    
77.5    
77.8    
78.1    
78.4    
78.6    
78.9    
79.2    
79.5    
79.7    
80.0    
80.3    
80.5    
80.8    
81.1    
81.4    
81.6    
81.9    
82.2    
82.5    
82.7    
83.0    
83.3    
83.6    
83.8    
84.1    
84.4    
84.7    
84.9    
85.2    
85.5    
85.8    
86.0    
86.3    
86.6    
86.8    
87.1    
87.4    
87.7    
87.9    
88.2    
88.5    
88.8    
89.0    
89.3    
89.6    
89.9    
90.1    
90.4    
90.7    
91.0    
91.2    
91.5    
91.8    
92.1    
92.3    
92.6    
92.9    
93.2    
93.4    
93.7    
94.0    
94.2    
94.5    
94.8    
95.1    
95.3    
95.6    
95.9    
96.2    
96.4    
96.7    
97.0    
97.3    
97.5    
97.8    
98.1    
98.4    
98.6    
98.9    
99.2    
99.5    
99.7    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 57196, rend_intergenic: 53155  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61802, rend_intergenic: 57422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98848, rend_intergenic: 96344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99914, rend_intergenic: 99717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113731, rend_intergenic: 106712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119512, rend_intergenic: 114445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127738, rend_intergenic: 124251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131145, rend_intergenic: 128358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support