-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_8896408-9063565

-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.g30898.t1
Valid prediction for snap_scaffold_20-snap.1931-T1
Couldn't classify 56075, 56146
Sorry, prediction pasa_asmbl_26811.p1 fails validation.
(AGG)	 CC	56075-56146	GT	GGG
(ATG)	 AG	56516-56662	GT	AGG
(TTT)	 AG	56753-56824	GT	GGG
(GCT)	 AG	57055-57231	CT	GAC
-recovered pasa_asmbl_26811.p1, initial, 56516, 56662
-recovered pasa_asmbl_26811.p1, terminal, 57055, 57231
-recovered pasa_asmbl_26811.p1, internal, 56516, 56662
-recovered pasa_asmbl_26811.p1, internal, 56753, 56824
Valid prediction for snap_scaffold_20-snap.1942-T1
Valid prediction for Augustus_model.g30909.t1
Valid prediction for GlimmerHMM_glimmerT_46549-T1
Valid prediction for snap_scaffold_20-snap.1962-T1
Valid prediction for snap_scaffold_20-snap.1959-T1
Valid prediction for GlimmerHMM_glimmerT_46536-T1
Valid prediction for CodingQuarry_transcript_30586-T1
Valid prediction for snap_scaffold_20-snap.1941-T1
Valid prediction for GlimmerHMM_glimmerT_46545-T1
Valid prediction for snap_scaffold_20-snap.1940-T1
Valid prediction for snap_scaffold_20-snap.1951-T1
Valid prediction for snap_scaffold_20-snap.1949-T1
Couldn't classify 50635, 50752
Couldn't classify 53189, 53272
Sorry, prediction pasa_asmbl_26810.p1 fails validation.
(TCC)	 GG	50635-50752	GT	AGG
(TAG)	 AG	51563-51780	GT	AGG
(TGC)	 AG	52692-52761	GT	TGG
(CGG)	 AG	52892-52944	GT	AGG
(CGG)	 AG	53189-53272	GG	AGG
-recovered pasa_asmbl_26810.p1, internal, 51563, 51780
-recovered pasa_asmbl_26810.p1, internal, 52692, 52761
-recovered pasa_asmbl_26810.p1, internal, 52892, 52944
Valid prediction for snap_scaffold_20-snap.1970-T1
Valid prediction for GlimmerHMM_glimmerT_46533-T1
Valid prediction for GlimmerHMM_glimmerT_46541-T1
Valid prediction for snap_scaffold_20-snap.1957-T1
Valid prediction for Augustus_model.g30911.t1
Couldn't classify 157948, 158014
Couldn't classify 158154, 158707
Sorry, prediction pasa_asmbl_26817.p1 fails validation.
(CCC)	 GC	157948-158014	GT	AGG
(ATG)	 AG	158154-158707	AT	CCA
Valid prediction for HiQ_model.g30901.t1
Valid prediction for GlimmerHMM_glimmerT_46547-T1
Valid prediction for pasa_asmbl_26807.p1
Valid prediction for snap_scaffold_20-snap.1958-T1
Valid prediction for Augustus_model.g30902.t1
Valid prediction for GlimmerHMM_glimmerT_46555-T1
Valid prediction for snap_scaffold_20-snap.1935-T1
Valid prediction for GlimmerHMM_glimmerT_46553-T1
Valid prediction for snap_scaffold_20-snap.1944-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.1936-T1
Valid prediction for GlimmerHMM_glimmerT_46546-T1
Valid prediction for Augustus_model.g30903.t1
Valid prediction for snap_scaffold_20-snap.1938-T1
Valid prediction for snap_scaffold_20-snap.1945-T1
Valid prediction for GlimmerHMM_glimmerT_46532-T1
Valid prediction for snap_scaffold_20-snap.1964-T1
Valid prediction for GlimmerHMM_glimmerT_46531-T1
Valid prediction for GlimmerHMM_glimmerT_46529-T1
Valid prediction for Augustus_model.g30918.t1
Valid prediction for snap_scaffold_20-snap.1947-T1
Valid prediction for Augustus_model.g30917.t1
Valid prediction for snap_scaffold_20-snap.1967-T1
Valid prediction for Augustus_model.g30916.t1
Valid prediction for snap_scaffold_20-snap.1971-T1
Couldn't classify 158942, 160789
Sorry, prediction pasa_asmbl_26818.p1 fails validation.
(CTC)	 AC	158942-160789	TG	AGT
Valid prediction for CodingQuarry_transcript_30587-T1
Valid prediction for GlimmerHMM_glimmerT_46556-T1
Valid prediction for snap_scaffold_20-snap.1972-T1
Valid prediction for pasa_asmbl_26813.p1
Valid prediction for GlimmerHMM_glimmerT_46539-T1
Valid prediction for Augustus_model.g30899.t1
Valid prediction for GlimmerHMM_glimmerT_46548-T1
Valid prediction for GlimmerHMM_glimmerT_46551-T1
Valid prediction for HiQ_model.g30915.t1
Valid prediction for Augustus_model.g30897.t1
Valid prediction for GlimmerHMM_glimmerT_46535-T1
Couldn't classify 151411, 151824
Sorry, prediction pasa_asmbl_26816.p1 fails validation.
(ATG)	 TG	151411-151824	AG	CCA
Valid prediction for snap_scaffold_20-snap.1963-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.1953-T1
Valid prediction for Augustus_model.g30907.t1
Valid prediction for snap_scaffold_20-snap.1939-T1
Valid prediction for GlimmerHMM_glimmerT_46528-T1
Valid prediction for snap_scaffold_20-snap.1937-T1
Valid prediction for Augustus_model.g30913.t1
Valid prediction for snap_scaffold_20-snap.1965-T1
Valid prediction for Augustus_model.g30912.t1
Valid prediction for snap_scaffold_20-snap.1950-T1
Valid prediction for snap_scaffold_20-snap.1934-T1
Valid prediction for snap_scaffold_20-snap.1961-T1
Valid prediction for snap_scaffold_20-snap.1966-T1
Couldn't classify 101246, 101368
Couldn't classify 101751, 101954
Sorry, prediction pasa_asmbl_26305.p1 fails validation.
(AGG)	 CC	101246-101368	GT	AGG
(TTG)	 AG	101751-101954	AC	GTA
Valid prediction for GlimmerHMM_glimmerT_46543-T1
Valid prediction for snap_scaffold_20-snap.1952-T1
Valid prediction for snap_scaffold_20-snap.1969-T1
Valid prediction for Augustus_model.g30905.t1
Valid prediction for GlimmerHMM_glimmerT_46527-T1
Valid prediction for snap_scaffold_20-snap.1932-T1
Valid prediction for Augustus_model.g30906.t1
Valid prediction for snap_scaffold_20-snap.1948-T1
Valid prediction for snap_scaffold_20-snap.1933-T1
Valid prediction for HiQ_model.g30900.t1
Valid prediction for GlimmerHMM_glimmerT_46538-T1
Valid prediction for snap_scaffold_20-snap.1968-T1
Valid prediction for CodingQuarry_transcript_30585-T1
Valid prediction for snap_scaffold_20-snap.1954-T1
Valid prediction for snap_scaffold_20-snap.1956-T1
Couldn't classify 79314, 79503
Couldn't classify 84017, 84074
Sorry, prediction pasa_asmbl_26281.p2 fails validation.
(TAC)	 AG	79314-79503	GT	CGG
(AGC)	 AG	81774-81858	GT	AGG
(GGA)	 AG	83463-83621	GT	AAG
(CAG)	 AG	84017-84074	TA	GGT
-recovered pasa_asmbl_26281.p2, internal, 79314, 79503
-recovered pasa_asmbl_26281.p2, internal, 81774, 81858
-recovered pasa_asmbl_26281.p2, internal, 83463, 83621
Valid prediction for GlimmerHMM_glimmerT_46550-T1
Valid prediction for Augustus_model.g30908.t1
Valid prediction for snap_scaffold_20-snap.1960-T1
Valid prediction for GlimmerHMM_glimmerT_46540-T1
Valid prediction for GlimmerHMM_glimmerT_46537-T1
Valid prediction for GlimmerHMM_glimmerT_46542-T1
Valid prediction for GlimmerHMM_glimmerT_46544-T1
Valid prediction for Augustus_model.g30910.t1
Valid prediction for Augustus_model.g30904.t1
Valid prediction for Augustus_model.g30914.t1
Valid prediction for snap_scaffold_20-snap.1955-T1
Valid prediction for GlimmerHMM_glimmerT_46530-T1
Valid prediction for GlimmerHMM_glimmerT_46552-T1
Valid prediction for snap_scaffold_20-snap.1943-T1
Valid prediction for snap_scaffold_20-snap.1946-T1
Valid prediction for GlimmerHMM_glimmerT_46534-T1
Valid prediction for GlimmerHMM_glimmerT_46554-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 24767, rend_intergenic: 4010  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30634, rend_intergenic: 24892  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33492, rend_intergenic: 31529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57231, rend_intergenic: 52248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65442, rend_intergenic: 63665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75532, rend_intergenic: 65533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76146, rend_intergenic: 75549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81477, rend_intergenic: 79997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95940, rend_intergenic: 82616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110344, rend_intergenic: 106093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116141, rend_intergenic: 114568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133685, rend_intergenic: 127915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147036, rend_intergenic: 145724  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 167158
-exon list size: 362


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    
6.9    
7.1    
7.4    
7.7    
8.0    
8.2    
8.5    
8.8    
9.1    
9.3    
9.6    
9.9    
10.2    
10.4    
10.7    
11.0    
11.3    
11.5    
11.8    
12.1    
12.4    
12.6    
12.9    
13.2    
13.5    
13.7    
14.0    
14.3    
14.6    
14.8    
15.1    
15.4    
15.7    
15.9    
16.2    
16.5    
16.8    
17.0    
17.3    
17.6    
17.9    
18.1    
18.4    
18.7    
19.0    
19.2    
19.5    
19.8    
20.1    
20.3    
20.6    
20.9    
21.2    
21.4    
21.7    
22.0    
22.3    
22.5    
22.8    
23.1    
23.4    
23.6    
23.9    
24.2    
24.5    
24.7    
25.0    
25.3    
25.5    
25.8    
26.1    
26.4    
26.6    
26.9    
27.2    
27.5    
27.7    
28.0    
28.3    
28.6    
28.8    
29.1    
29.4    
29.7    
29.9    
30.2    
30.5    
30.8    
31.0    
31.3    
31.6    
31.9    
32.1    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.3    
34.6    
34.9    
35.2    
35.4    
35.7    
36.0    
36.3    
36.5    
36.8    
37.1    
37.4    
37.6    
37.9    
38.2    
38.5    
38.7    
39.0    
39.3    
39.6    
39.8    
40.1    
40.4    
40.7    
40.9    
41.2    
41.5    
41.8    
42.0    
42.3    
42.6    
42.9    
43.1    
43.4    
43.7    
44.0    
44.2    
44.5    
44.8    
45.1    
45.3    
45.6    
45.9    
46.2    
46.4    
46.7    
47.0    
47.3    
47.5    
47.8    
48.1    
48.4    
48.6    
48.9    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.1    
51.4    
51.6    
51.9    
52.2    
52.5    
52.7    
53.0    
53.3    
53.6    
53.8    
54.1    
54.4    
54.7    
54.9    
55.2    
55.5    
55.8    
56.0    
56.3    
56.6    
56.9    
57.1    
57.4    
57.7    
58.0    
58.2    
58.5    
58.8    
59.1    
59.3    
59.6    
59.9    
60.2    
60.4    
60.7    
61.0    
61.3    
61.5    
61.8    
62.1    
62.4    
62.6    
62.9    
63.2    
63.5    
63.7    
64.0    
64.3    
64.6    
64.8    
65.1    
65.4    
65.7    
65.9    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.9    
68.1    
68.4    
68.7    
69.0    
69.2    
69.5    
69.8    
70.1    
70.3    
70.6    
70.9    
71.2    
71.4    
71.7    
72.0    
72.3    
72.5    
72.8    
73.1    
73.4    
73.6    
73.9    
74.2    
74.5    
74.7    
75.0    
75.3    
75.5    
75.8    
76.1    
76.4    
76.6    
76.9    
77.2    
77.5    
77.7    
78.0    
78.3    
78.6    
78.8    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.0    
81.3    
81.6    
81.9    
82.1    
82.4    
82.7    
83.0    
83.2    
83.5    
83.8    
84.1    
84.3    
84.6    
84.9    
85.2    
85.4    
85.7    
86.0    
86.3    
86.5    
86.8    
87.1    
87.4    
87.6    
87.9    
88.2    
88.5    
88.7    
89.0    
89.3    
89.6    
89.8    
90.1    
90.4    
90.7    
90.9    
91.2    
91.5    
91.8    
92.0    
92.3    
92.6    
92.9    
93.1    
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: 24767, rend_intergenic: 4010  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30634, rend_intergenic: 24892  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33492, rend_intergenic: 31529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57231, rend_intergenic: 52248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65442, rend_intergenic: 63665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75532, rend_intergenic: 65533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76146, rend_intergenic: 75549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81477, rend_intergenic: 79997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95940, rend_intergenic: 82616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110344, rend_intergenic: 106093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116141, rend_intergenic: 114568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133685, rend_intergenic: 127915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147036, rend_intergenic: 145724  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support