-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_23/scaffold_23_3075434-3256197

-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_50764-T1
Valid prediction for snap_scaffold_23-snap.630-T1
Valid prediction for GlimmerHMM_glimmerT_50772-T1
Valid prediction for snap_scaffold_23-snap.639-T1
Couldn't classify 168928, 169075
Sorry, prediction pasa_asmbl_31431.p1 fails validation.
(ATG)	 CC	167712-167751	GT	ATG
(TTG)	 AG	168344-168467	GT	AGG
(AAA)	 AG	168710-168829	GT	AAG
(TAC)	 AG	168928-169075	GG	CAG
-recovered pasa_asmbl_31431.p1, initial, 167712, 167751
-recovered pasa_asmbl_31431.p1, internal, 168344, 168467
-recovered pasa_asmbl_31431.p1, internal, 168710, 168829
Valid prediction for Augustus_model.g33911.t1
Valid prediction for snap_scaffold_23-snap.622-T1
Valid prediction for GlimmerHMM_glimmerT_50758-T1
Valid prediction for snap_scaffold_23-snap.601-T1
Valid prediction for GlimmerHMM_glimmerT_50762-T1
Valid prediction for GlimmerHMM_glimmerT_50757-T1
Valid prediction for Augustus_model.g33917.t1
Valid prediction for snap_scaffold_23-snap.638-T1
Valid prediction for snap_scaffold_23-snap.632-T1
Valid prediction for GlimmerHMM_glimmerT_50774-T1
Valid prediction for snap_scaffold_23-snap.637-T1
Valid prediction for GlimmerHMM_glimmerT_50776-T1
Valid prediction for Augustus_model.g33925.t1
Valid prediction for snap_scaffold_23-snap.621-T1
Valid prediction for CodingQuarry_transcript_35606-T1
Valid prediction for snap_scaffold_23-snap.603-T1
Valid prediction for snap_scaffold_23-snap.604-T1
Valid prediction for GlimmerHMM_glimmerT_50763-T1
Valid prediction for GlimmerHMM_glimmerT_50755-T1
Valid prediction for snap_scaffold_23-snap.606-T1
Valid prediction for GlimmerHMM_glimmerT_50770-T1
Valid prediction for GlimmerHMM_glimmerT_50765-T1
Valid prediction for Augustus_model.g33912.t1
Valid prediction for GlimmerHMM_glimmerT_50783-T1
Valid prediction for Augustus_model.g33921.t1
Valid prediction for snap_scaffold_23-snap.612-T1
Valid prediction for snap_scaffold_23-snap.627-T1
Valid prediction for GlimmerHMM_glimmerT_50778-T1
Valid prediction for snap_scaffold_23-snap.618-T1
Valid prediction for GlimmerHMM_glimmerT_50766-T1
Valid prediction for GlimmerHMM_glimmerT_50779-T1
Valid prediction for CodingQuarry_transcript_35605-T1
Valid prediction for GlimmerHMM_glimmerT_50784-T1
Valid prediction for Augustus_model.g33910.t1
Valid prediction for GlimmerHMM_glimmerT_50777-T1
Valid prediction for HiQ_model.g33929.t1
Valid prediction for GlimmerHMM_glimmerT_50773-T1
Valid prediction for snap_scaffold_23-snap.608-T1
Valid prediction for Augustus_model.g33930.t1
Valid prediction for pasa_asmbl_31432.p1
Valid prediction for CodingQuarry_transcript_35604-T1
Valid prediction for pasa_asmbl_31429.p1
Valid prediction for Augustus_model.g33915.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_23-snap.628-T1
Valid prediction for snap_scaffold_23-snap.633-T1
Valid prediction for snap_scaffold_23-snap.599-T1
Valid prediction for snap_scaffold_23-snap.624-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_23-snap.598-T1
Valid prediction for snap_scaffold_23-snap.600-T1
Valid prediction for pasa_asmbl_30787.p1
Valid prediction for Augustus_model.g33924.t1
Valid prediction for snap_scaffold_23-snap.614-T1
Valid prediction for HiQ_model.g33928.t1
Valid prediction for snap_scaffold_23-snap.620-T1
Valid prediction for CodingQuarry_transcript_35603-T1
Valid prediction for snap_scaffold_23-snap.619-T1
Valid prediction for snap_scaffold_23-snap.629-T1
Valid prediction for snap_scaffold_23-snap.616-T1
Valid prediction for Augustus_model.g33914.t1
Valid prediction for snap_scaffold_23-snap.634-T1
Valid prediction for Augustus_model.g33913.t1
Valid prediction for snap_scaffold_23-snap.602-T1
Valid prediction for GlimmerHMM_glimmerT_50760-T1
Valid prediction for Augustus_model.g33922.t1
Valid prediction for Augustus_model.g33927.t1
Valid prediction for GlimmerHMM_glimmerT_50756-T1
Valid prediction for snap_scaffold_23-snap.605-T1
Valid prediction for CodingQuarry_transcript_35602-T1
Valid prediction for GlimmerHMM_glimmerT_50769-T1
Valid prediction for Augustus_model.g33918.t1
Valid prediction for snap_scaffold_23-snap.613-T1
Valid prediction for GlimmerHMM_glimmerT_50768-T1
Valid prediction for Augustus_model.g33926.t1
Valid prediction for snap_scaffold_23-snap.610-T1
Valid prediction for GlimmerHMM_glimmerT_50785-T1
Valid prediction for Augustus_model.g33920.t1
Valid prediction for GlimmerHMM_glimmerT_50780-T1
Valid prediction for Augustus_model.g33919.t1
Valid prediction for snap_scaffold_23-snap.636-T1
Valid prediction for snap_scaffold_23-snap.635-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_50771-T1
Valid prediction for snap_scaffold_23-snap.631-T1
Valid prediction for snap_scaffold_23-snap.625-T1
Valid prediction for GlimmerHMM_glimmerT_50781-T1
Valid prediction for snap_scaffold_23-snap.607-T1
Valid prediction for GlimmerHMM_glimmerT_50775-T1
Valid prediction for snap_scaffold_23-snap.626-T1
Valid prediction for snap_scaffold_23-snap.615-T1
Valid prediction for GlimmerHMM_glimmerT_50782-T1
Valid prediction for snap_scaffold_23-snap.623-T1
Valid prediction for GlimmerHMM_glimmerT_50767-T1
Valid prediction for Augustus_model.g33916.t1
Valid prediction for snap_scaffold_23-snap.611-T1
Valid prediction for snap_scaffold_23-snap.617-T1
Valid prediction for Augustus_model.g33923.t1
Valid prediction for snap_scaffold_23-snap.609-T1
Valid prediction for GlimmerHMM_glimmerT_50759-T1
Valid prediction for GlimmerHMM_glimmerT_50761-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18120, rend_intergenic: 17394  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21614, rend_intergenic: 18748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28081, rend_intergenic: 24335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42340, rend_intergenic: 36468  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66502, rend_intergenic: 60001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85397, rend_intergenic: 78566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103538, rend_intergenic: 100329  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122643, rend_intergenic: 120163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 180764
-exon list size: 341


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.7    
2.0    
2.3    
2.6    
2.9    
3.2    
3.5    
3.8    
4.1    
4.4    
4.7    
5.0    
5.2    
5.5    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
7.9    
8.2    
8.5    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.2    
12.5    
12.8    
13.1    
13.4    
13.7    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.4    
18.7    
19.0    
19.2    
19.5    
19.8    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
25.1    
25.4    
25.7    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
32.9    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.7    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.1    
43.4    
43.7    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.6    
46.9    
47.2    
47.5    
47.8    
48.1    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.9    
52.2    
52.5    
52.8    
53.1    
53.4    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.3    
56.6    
56.9    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.3    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.1    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.3    
74.6    
74.9    
75.2    
75.5    
75.8    
76.1    
76.4    
76.7    
77.0    
77.3    
77.6    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.2    
80.5    
80.8    
81.0    
81.3    
81.6    
81.9    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.3    
86.6    
86.9    
87.2    
87.5    
87.8    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.5    
91.8    
92.1    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
95.0    
95.3    
95.6    
95.9    
96.2    
96.5    
96.8    
97.1    
97.4    
97.7    
98.0    
98.3    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 18120, rend_intergenic: 17394  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21614, rend_intergenic: 18748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28081, rend_intergenic: 24335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42340, rend_intergenic: 36468  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66502, rend_intergenic: 60001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85397, rend_intergenic: 78566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103538, rend_intergenic: 100329  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122643, rend_intergenic: 120163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support