-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_3957688-4126719

-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_22-snap.751-T1
Valid prediction for Augustus_model.g32862.t1
Valid prediction for GlimmerHMM_glimmerT_49282-T1
Valid prediction for GlimmerHMM_glimmerT_49257-T1
Valid prediction for snap_scaffold_22-snap.763-T1
Valid prediction for snap_scaffold_22-snap.767-T1
Valid prediction for snap_scaffold_22-snap.746-T1
Valid prediction for snap_scaffold_22-snap.748-T1
Valid prediction for snap_scaffold_22-snap.762-T1
Valid prediction for snap_scaffold_22-snap.756-T1
Valid prediction for snap_scaffold_22-snap.768-T1
Valid prediction for GlimmerHMM_glimmerT_49270-T1
Valid prediction for GlimmerHMM_glimmerT_49260-T1
Valid prediction for GlimmerHMM_glimmerT_49262-T1
Valid prediction for GlimmerHMM_glimmerT_49274-T1
Couldn't classify 139923, 140640
Couldn't classify 140728, 140936
Sorry, prediction pasa_asmbl_29966.p1 fails validation.
(GAG)	 TT	139923-140640	GT	AGG
(GTT)	 AG	140728-140936	GG	CAG
Valid prediction for snap_scaffold_22-snap.745-T1
Valid prediction for GlimmerHMM_glimmerT_49277-T1
Valid prediction for Augustus_model.g32871.t1
Valid prediction for GlimmerHMM_glimmerT_49275-T1
Valid prediction for snap_scaffold_22-snap.755-T1
Valid prediction for snap_scaffold_22-snap.754-T1
Valid prediction for snap_scaffold_22-snap.771-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_22-snap.749-T1
Valid prediction for GlimmerHMM_glimmerT_49265-T1
Valid prediction for GlimmerHMM_glimmerT_49281-T1
Valid prediction for GlimmerHMM_glimmerT_49272-T1
Couldn't classify 7491, 7567
Sorry, prediction pasa_asmbl_29965.p1 fails validation.
(GCT)	 CA	7491-7567	GT	ACG
(GAA)	 AG	7666-7760	GT	CTG
(CTC)	 AG	7856-8091	AG	AGA
-recovered pasa_asmbl_29965.p1, terminal, 7856, 8091
-recovered pasa_asmbl_29965.p1, internal, 7666, 7760
Valid prediction for snap_scaffold_22-snap.732-T1
Valid prediction for snap_scaffold_22-snap.741-T1
Valid prediction for snap_scaffold_22-snap.752-T1
Valid prediction for Augustus_model.g32874.t1
Valid prediction for snap_scaffold_22-snap.740-T1
Valid prediction for GlimmerHMM_glimmerT_49273-T1
Valid prediction for snap_scaffold_22-snap.765-T1
Valid prediction for GlimmerHMM_glimmerT_49276-T1
Valid prediction for snap_scaffold_22-snap.742-T1
Valid prediction for snap_scaffold_22-snap.738-T1
Valid prediction for snap_scaffold_22-snap.770-T1
Valid prediction for GlimmerHMM_glimmerT_49279-T1
Valid prediction for snap_scaffold_22-snap.759-T1
Valid prediction for snap_scaffold_22-snap.734-T1
Valid prediction for Augustus_model.g32873.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: -)Couldn't classify 133204, 133425
Couldn't classify 135261, 135281
Sorry, prediction pasa_asmbl_29201.p2 fails validation.
(CTG)	 GG	133204-133425	GT	AGG
(GTG)	 AG	133741-133866	GT	AAG
(ATC)	 AG	134106-134228	GT	AGG
(ATC)	 AG	135261-135281	TG	AAT
-recovered pasa_asmbl_29201.p2, internal, 133741, 133866
-recovered pasa_asmbl_29201.p2, internal, 134106, 134228
Valid prediction for snap_scaffold_22-snap.753-T1
Valid prediction for snap_scaffold_22-snap.761-T1
Valid prediction for snap_scaffold_22-snap.733-T1
Valid prediction for snap_scaffold_22-snap.743-T1
Couldn't classify 146088, 147728
Sorry, prediction pasa_asmbl_29199.p1 fails validation.
(AGG)	 AC	146088-147728	TC	GAT
Valid prediction for HiQ_model.g32863.t1
Valid prediction for Augustus_model.g32868.t1
Valid prediction for snap_scaffold_22-snap.758-T1
Couldn't classify 142642, 142717
Couldn't classify 143855, 144158
Sorry, prediction pasa_asmbl_29200.p1 fails validation.
(GAT)	 TA	142642-142717	GT	TGG
(AGT)	 AG	142901-143032	GT	AGG
(AAA)	 AG	143148-143297	GT	AGG
(GTT)	 AG	143407-143644	GT	AAG
(CAC)	 AG	143855-144158	GA	ATG
-recovered pasa_asmbl_29200.p1, internal, 142901, 143032
-recovered pasa_asmbl_29200.p1, internal, 143148, 143297
-recovered pasa_asmbl_29200.p1, internal, 143407, 143644
Valid prediction for snap_scaffold_22-snap.744-T1
Valid prediction for GlimmerHMM_glimmerT_49269-T1
Valid prediction for GlimmerHMM_glimmerT_49259-T1
Valid prediction for GlimmerHMM_glimmerT_49266-T1
Valid prediction for Augustus_model.g32865.t1
Valid prediction for Augustus_model.g32864.t1
Valid prediction for pasa_asmbl_29197.p1
Valid prediction for snap_scaffold_22-snap.757-T1
Valid prediction for Augustus_model.g32872.t1
Valid prediction for Augustus_model.g32869.t1
Valid prediction for GlimmerHMM_glimmerT_49261-T1
Valid prediction for snap_scaffold_22-snap.760-T1
Valid prediction for GlimmerHMM_glimmerT_49271-T1
Valid prediction for GlimmerHMM_glimmerT_49267-T1
Valid prediction for snap_scaffold_22-snap.766-T1
Valid prediction for GlimmerHMM_glimmerT_49264-T1
Valid prediction for snap_scaffold_22-snap.735-T1
Valid prediction for Augustus_model.g32867.t1
Valid prediction for snap_scaffold_22-snap.764-T1
Valid prediction for snap_scaffold_22-snap.737-T1
Valid prediction for Augustus_model.g32866.t1
Valid prediction for snap_scaffold_22-snap.750-T1
Valid prediction for GlimmerHMM_glimmerT_49280-T1
Valid prediction for GlimmerHMM_glimmerT_49263-T1
Valid prediction for snap_scaffold_22-snap.739-T1
Valid prediction for Augustus_model.g32870.t1
Valid prediction for snap_scaffold_22-snap.747-T1
Valid prediction for GlimmerHMM_glimmerT_49258-T1
Valid prediction for snap_scaffold_22-snap.769-T1
Valid prediction for GlimmerHMM_glimmerT_49268-T1
Valid prediction for snap_scaffold_22-snap.736-T1
Valid prediction for GlimmerHMM_glimmerT_49278-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 155846, rend_intergenic: 155843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38879, rend_intergenic: 35482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52913, rend_intergenic: 42934  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57213, rend_intergenic: 54673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68268, rend_intergenic: 62251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73357, rend_intergenic: 68425  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87747, rend_intergenic: 81379  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93168, rend_intergenic: 88191  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110039, rend_intergenic: 94150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121291, rend_intergenic: 121219  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127094, rend_intergenic: 122438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132286, rend_intergenic: 129145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141822, rend_intergenic: 134591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158983, rend_intergenic: 157795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 169032
-exon list size: 316


building trellis

0.3    
0.6    
0.9    
1.3    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.5    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.9    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
10.1    
10.4    
10.7    
11.0    
11.3    
11.6    
11.9    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.4    
16.7    
17.0    
17.3    
17.6    
17.9    
18.2    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.6    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.6    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
34.0    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.9    
47.2    
47.5    
47.8    
48.1    
48.4    
48.7    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.3    
51.6    
51.9    
52.2    
52.5    
52.8    
53.1    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.7    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.9    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
60.1    
60.4    
60.7    
61.0    
61.3    
61.6    
61.9    
62.3    
62.6    
62.9    
63.2    
63.5    
63.8    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.0    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.4    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
73.0    
73.3    
73.6    
73.9    
74.2    
74.5    
74.8    
75.2    
75.5    
75.8    
76.1    
76.4    
76.7    
77.0    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.8    
82.1    
82.4    
82.7    
83.0    
83.3    
83.6    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.1    
88.4    
88.7    
89.0    
89.3    
89.6    
89.9    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.1    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.5    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.7    
99.1    
99.4    
99.7    
-found 28 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 155846, rend_intergenic: 155843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38879, rend_intergenic: 35482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52913, rend_intergenic: 42934  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57213, rend_intergenic: 54673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68268, rend_intergenic: 62251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73357, rend_intergenic: 68425  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87747, rend_intergenic: 81379  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93168, rend_intergenic: 88191  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110039, rend_intergenic: 94150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121291, rend_intergenic: 121219  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127094, rend_intergenic: 122438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132286, rend_intergenic: 129145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141822, rend_intergenic: 134591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158983, rend_intergenic: 157795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support