-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1/scaffold_1_6110445-6265315

-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_1-snap.1010-T1
Valid prediction for GlimmerHMM_glimmerT_791-T1
Valid prediction for snap_scaffold_1-snap.1001-T1
Valid prediction for snap_scaffold_1-snap.1014-T1
Valid prediction for GlimmerHMM_glimmerT_795-T1
Valid prediction for Augustus_model.g619.t1
Valid prediction for snap_scaffold_1-snap.996-T1
Valid prediction for snap_scaffold_1-snap.1002-T1
Valid prediction for snap_scaffold_1-snap.1007-T1
Valid prediction for GlimmerHMM_glimmerT_808-T1
Valid prediction for Augustus_model.g614.t1
Valid prediction for GlimmerHMM_glimmerT_784-T1
Valid prediction for Augustus_model.g613.t1
Valid prediction for snap_scaffold_1-snap.1009-T1
Valid prediction for snap_scaffold_1-snap.1006-T1
Valid prediction for snap_scaffold_1-snap.995-T1
Valid prediction for Augustus_model.g618.t1
Valid prediction for snap_scaffold_1-snap.1000-T1
Valid prediction for GlimmerHMM_glimmerT_803-T1
Valid prediction for GlimmerHMM_glimmerT_794-T1
Valid prediction for snap_scaffold_1-snap.1017-T1
Valid prediction for snap_scaffold_1-snap.1004-T1
Valid prediction for Augustus_model.g607.t1
Valid prediction for GlimmerHMM_glimmerT_780-T1
Valid prediction for snap_scaffold_1-snap.1020-T1
Valid prediction for GlimmerHMM_glimmerT_805-T1
Valid prediction for GlimmerHMM_glimmerT_801-T1
Valid prediction for Augustus_model.g610.t1
Valid prediction for GlimmerHMM_glimmerT_812-T1
Couldn't classify 76818, 76877
Couldn't classify 79785, 79877
Sorry, prediction pasa_asmbl_1821.p1 fails validation.
(CTC)	 GC	76818-76877	GT	ACG
(ACC)	 AG	78203-78401	GT	CGG
(ACC)	 AG	78485-78576	GT	AGG
(GAC)	 AG	79785-79877	GT	AGG
-recovered pasa_asmbl_1821.p1, internal, 78203, 78401
-recovered pasa_asmbl_1821.p1, internal, 78485, 78576
-recovered pasa_asmbl_1821.p1, internal, 79785, 79877
Valid prediction for GlimmerHMM_glimmerT_790-T1
Valid prediction for GlimmerHMM_glimmerT_792-T1
Valid prediction for GlimmerHMM_glimmerT_797-T1
Valid prediction for snap_scaffold_1-snap.1008-T1
Valid prediction for snap_scaffold_1-snap.1015-T1
Valid prediction for GlimmerHMM_glimmerT_807-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 pasa_asmbl_330.p1
Valid prediction for Augustus_model.g611.t1
Couldn't classify 132314, 132394
Sorry, prediction pasa_asmbl_321.p1 fails validation.
(ATG)	 AC	130116-130162	GT	CGG
(TGG)	 AG	130587-132195	GT	AGG
(GAT)	 AG	132314-132394	AT	CAA
-recovered pasa_asmbl_321.p1, initial, 130116, 130162
-recovered pasa_asmbl_321.p1, internal, 130587, 132195
Valid prediction for HiQ_model.g608.t1
Valid prediction for snap_scaffold_1-snap.1011-T1
Valid prediction for Augustus_model.g617.t1
Valid prediction for Augustus_model.g616.t1
Valid prediction for snap_scaffold_1-snap.998-T1
Valid prediction for snap_scaffold_1-snap.1019-T1
Valid prediction for snap_scaffold_1-snap.997-T1
Valid prediction for snap_scaffold_1-snap.1018-T1
Valid prediction for pasa_asmbl_323.p1
Valid prediction for GlimmerHMM_glimmerT_806-T1
Valid prediction for GlimmerHMM_glimmerT_789-T1
Valid prediction for GlimmerHMM_glimmerT_785-T1
Valid prediction for HiQ_model.g620.t1
Valid prediction for GlimmerHMM_glimmerT_800-T1
Valid prediction for GlimmerHMM_glimmerT_782-T1
Valid prediction for GlimmerHMM_glimmerT_802-T1
Valid prediction for CodingQuarry_transcript_2644-T1
Valid prediction for GlimmerHMM_glimmerT_799-T1
Valid prediction for GlimmerHMM_glimmerT_798-T1
Valid prediction for snap_scaffold_1-snap.999-T1
Couldn't classify 42762, 42922
Couldn't classify 47082, 47234
Sorry, prediction pasa_asmbl_326.p1 fails validation.
(GAT)	 AG	42762-42922	GT	TAG
(CTA)	 AG	45108-45236	GT	AAG
(GAT)	 AG	46632-46761	GT	TGG
(AAC)	 AG	47082-47234	GG	CAG
-recovered pasa_asmbl_326.p1, internal, 42762, 42922
-recovered pasa_asmbl_326.p1, internal, 45108, 45236
-recovered pasa_asmbl_326.p1, internal, 46632, 46761
Valid prediction for GlimmerHMM_glimmerT_811-T1
Valid prediction for snap_scaffold_1-snap.992-T1
Valid prediction for snap_scaffold_1-snap.1016-T1
Valid prediction for snap_scaffold_1-snap.991-T1
Valid prediction for snap_scaffold_1-snap.1012-T1
Valid prediction for CodingQuarry_transcript_2641-T1
Valid prediction for GlimmerHMM_glimmerT_781-T1
Valid prediction for snap_scaffold_1-snap.989-T1
Valid prediction for Augustus_model.g612.t1
Valid prediction for GlimmerHMM_glimmerT_793-T1
Valid prediction for snap_scaffold_1-snap.990-T1
Valid prediction for GlimmerHMM_glimmerT_786-T1
Valid prediction for GlimmerHMM_glimmerT_783-T1
Valid prediction for GlimmerHMM_glimmerT_813-T1
Valid prediction for CodingQuarry_transcript_2643-T1
Valid prediction for snap_scaffold_1-snap.994-T1
Valid prediction for snap_scaffold_1-snap.1005-T1
Valid prediction for snap_scaffold_1-snap.1003-T1
Valid prediction for Augustus_model.g615.t1
Valid prediction for GlimmerHMM_glimmerT_804-T1
Valid prediction for GlimmerHMM_glimmerT_809-T1
Valid prediction for pasa_asmbl_320.p1
Valid prediction for GlimmerHMM_glimmerT_796-T1
Valid prediction for Augustus_model.g609.t1
Valid prediction for GlimmerHMM_glimmerT_810-T1
Valid prediction for snap_scaffold_1-snap.993-T1
Valid prediction for snap_scaffold_1-snap.1013-T1
Valid prediction for GlimmerHMM_glimmerT_788-T1
Valid prediction for GlimmerHMM_glimmerT_787-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 83972, rend_intergenic: 78654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88312, rend_intergenic: 86576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122047, rend_intergenic: 111527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130629, rend_intergenic: 125755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152735, rend_intergenic: 145082  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 154871
-exon list size: 331


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.9    
4.2    
4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.8    
47.1    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
52.9    
53.2    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.3    
73.6    
73.9    
74.2    
74.5    
74.8    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 83972, rend_intergenic: 78654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88312, rend_intergenic: 86576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122047, rend_intergenic: 111527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130629, rend_intergenic: 125755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152735, rend_intergenic: 145082  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