-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_18649913-18773205

-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_6-snap.4010-T1
Valid prediction for snap_scaffold_6-snap.4002-T1
Valid prediction for Augustus_model.g11111.t1
Valid prediction for snap_scaffold_6-snap.4015-T1
Valid prediction for snap_scaffold_6-snap.4012-T1
Valid prediction for GlimmerHMM_glimmerT_16611-T1
Valid prediction for Augustus_model.g11113.t1
Valid prediction for GlimmerHMM_glimmerT_16600-T1
Valid prediction for snap_scaffold_6-snap.4017-T1
Valid prediction for GlimmerHMM_glimmerT_16604-T1
Valid prediction for GlimmerHMM_glimmerT_16606-T1
Valid prediction for HiQ_model.g11112.t1
Valid prediction for CodingQuarry_transcript_55435-T1
Valid prediction for snap_scaffold_6-snap.3997-T1
Valid prediction for GlimmerHMM_glimmerT_16603-T1
Valid prediction for Augustus_model.g11120.t1
Couldn't classify 58542, 58556
Couldn't classify 60209, 60329
Sorry, prediction pasa_asmbl_47844.p1 fails validation.
(GAC)	 TA	58542-58556	GT	CTG
(TAT)	 AG	59374-59505	GT	AGG
(AAG)	 AG	60020-60120	GT	GGG
(GGT)	 AG	60209-60329	AG	GGA
-recovered pasa_asmbl_47844.p1, internal, 59374, 59505
-recovered pasa_asmbl_47844.p1, internal, 60020, 60120
Valid prediction for snap_scaffold_6-snap.4016-T1
Valid prediction for Augustus_model.g11115.t1
Valid prediction for pasa_asmbl_47846.p2
Valid prediction for GlimmerHMM_glimmerT_16607-T1
Valid prediction for snap_scaffold_6-snap.3993-T1
Valid prediction for snap_scaffold_6-snap.3999-T1
Valid prediction for pasa_asmbl_47834.p1
Valid prediction for snap_scaffold_6-snap.3987-T1
Valid prediction for snap_scaffold_6-snap.4005-T1
Valid prediction for GlimmerHMM_glimmerT_16605-T1
Valid prediction for CodingQuarry_transcript_55434-T1
Valid prediction for snap_scaffold_6-snap.3985-T1
Valid prediction for GlimmerHMM_glimmerT_16612-T1
Valid prediction for snap_scaffold_6-snap.4014-T1
Valid prediction for HiQ_model.g11114.t1
Valid prediction for snap_scaffold_6-snap.4008-T1
Valid prediction for GlimmerHMM_glimmerT_16601-T1
Valid prediction for Augustus_model.g11116.t1
Valid prediction for snap_scaffold_6-snap.3995-T1
Valid prediction for GlimmerHMM_glimmerT_16602-T1
Valid prediction for pasa_asmbl_47841.p1

-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 HiQ_model.g11119.t1
Valid prediction for snap_scaffold_6-snap.4003-T1
Valid prediction for snap_scaffold_6-snap.4006-T1
Valid prediction for snap_scaffold_6-snap.3986-T1
Valid prediction for GlimmerHMM_glimmerT_16610-T1
Valid prediction for GlimmerHMM_glimmerT_16609-T1
Valid prediction for snap_scaffold_6-snap.3988-T1
Valid prediction for CodingQuarry_transcript_55438-T1
Valid prediction for snap_scaffold_6-snap.4009-T1
Valid prediction for GlimmerHMM_glimmerT_16608-T1
Valid prediction for Augustus_model.g11121.t1
Valid prediction for CodingQuarry_transcript_55437-T1
Valid prediction for snap_scaffold_6-snap.3998-T1
Valid prediction for snap_scaffold_6-snap.4004-T1
Valid prediction for CodingQuarry_transcript_55439-T1
Valid prediction for snap_scaffold_6-snap.3994-T1
Valid prediction for snap_scaffold_6-snap.4001-T1
Valid prediction for snap_scaffold_6-snap.3990-T1
Valid prediction for snap_scaffold_6-snap.4018-T1
Valid prediction for snap_scaffold_6-snap.4000-T1
Valid prediction for CodingQuarry_transcript_55436-T1
Valid prediction for snap_scaffold_6-snap.4013-T1
Valid prediction for snap_scaffold_6-snap.3991-T1
Valid prediction for Augustus_model.g11117.t1
Valid prediction for snap_scaffold_6-snap.3996-T1
Valid prediction for GlimmerHMM_glimmerT_16614-T1
Valid prediction for snap_scaffold_6-snap.4011-T1
Valid prediction for snap_scaffold_6-snap.3989-T1
Valid prediction for pasa_asmbl_49269.p1
Valid prediction for GlimmerHMM_glimmerT_16613-T1
Valid prediction for snap_scaffold_6-snap.4007-T1
Valid prediction for Augustus_model.g11118.t1
Valid prediction for snap_scaffold_6-snap.3992-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8532, rend_intergenic: 6083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10177, rend_intergenic: 8972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27212, rend_intergenic: 10804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29285, rend_intergenic: 27450  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35231, rend_intergenic: 32843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35831, rend_intergenic: 35628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42781, rend_intergenic: 41203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55979, rend_intergenic: 44329  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65671, rend_intergenic: 57873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69199, rend_intergenic: 68421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77737, rend_intergenic: 72506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79930, rend_intergenic: 78111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83729, rend_intergenic: 80008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85766, rend_intergenic: 84374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106147, rend_intergenic: 94843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117245, rend_intergenic: 111603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 123293
-exon list size: 352


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
2.0    
2.3    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.2    
4.5    
4.8    
5.1    
5.4    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.3    
7.6    
7.9    
8.2    
8.5    
8.8    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.7    
11.0    
11.3    
11.6    
11.9    
12.1    
12.4    
12.7    
13.0    
13.3    
13.6    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.5    
15.8    
16.1    
16.4    
16.7    
16.9    
17.2    
17.5    
17.8    
18.1    
18.4    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.0    
22.3    
22.6    
22.9    
23.2    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.8    
27.1    
27.4    
27.7    
28.0    
28.2    
28.5    
28.8    
29.1    
29.4    
29.7    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.6    
31.9    
32.2    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.2    
34.5    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.1    
38.4    
38.7    
39.0    
39.3    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.6    
44.9    
45.2    
45.5    
45.8    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.4    
49.7    
50.0    
50.3    
50.6    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.5    
52.8    
53.1    
53.4    
53.7    
54.0    
54.2    
54.5    
54.8    
55.1    
55.4    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.7    
61.0    
61.3    
61.6    
61.9    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.5    
65.8    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.8    
68.1    
68.4    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.3    
70.6    
70.9    
71.2    
71.5    
71.8    
72.0    
72.3    
72.6    
72.9    
73.2    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.8    
77.1    
77.4    
77.7    
78.0    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.6    
81.9    
82.2    
82.5    
82.8    
83.1    
83.3    
83.6    
83.9    
84.2    
84.5    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.4    
86.7    
87.0    
87.3    
87.6    
87.9    
88.1    
88.4    
88.7    
89.0    
89.3    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.6    
94.9    
95.2    
95.5    
95.8    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.7    
98.0    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 18 predictions from path traversal
Error with prediction: snap lend_intergenic: 8532, rend_intergenic: 6083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10177, rend_intergenic: 8972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27212, rend_intergenic: 10804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29285, rend_intergenic: 27450  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35231, rend_intergenic: 32843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35831, rend_intergenic: 35628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42781, rend_intergenic: 41203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55979, rend_intergenic: 44329  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65671, rend_intergenic: 57873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69199, rend_intergenic: 68421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77737, rend_intergenic: 72506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79930, rend_intergenic: 78111  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83729, rend_intergenic: 80008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85766, rend_intergenic: 84374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106147, rend_intergenic: 94843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117245, rend_intergenic: 111603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support