-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_24/scaffold_24_2165028-2379891

-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.g34728.t1
Valid prediction for snap_scaffold_24-snap.529-T1
Couldn't classify 45060, 45107
Couldn't classify 47996, 48119
Sorry, prediction pasa_asmbl_32629.p1 fails validation.
(CAC)	 AG	45060-45107	GT	AGG
(GTG)	 AG	45353-45498	GT	GTG
(GCA)	 AG	47996-48119	GT	GGG
-recovered pasa_asmbl_32629.p1, internal, 45060, 45107
-recovered pasa_asmbl_32629.p1, internal, 45353, 45498
-recovered pasa_asmbl_32629.p1, internal, 47996, 48119
Valid prediction for snap_scaffold_24-snap.511-T1
Valid prediction for GlimmerHMM_glimmerT_52133-T1
Valid prediction for snap_scaffold_24-snap.541-T1
Couldn't classify 7238, 7520
Couldn't classify 7914, 7990
Sorry, prediction pasa_asmbl_32083.p2 fails validation.
(GGC)	 CG	7238-7520	GT	AGG
(GCT)	 AG	7914-7990	AG	GCA
Valid prediction for GlimmerHMM_glimmerT_52135-T1
Valid prediction for GlimmerHMM_glimmerT_52116-T1
Valid prediction for snap_scaffold_24-snap.528-T1
Valid prediction for snap_scaffold_24-snap.505-T1
Valid prediction for GlimmerHMM_glimmerT_52126-T1
Valid prediction for Augustus_model.g34739.t1
Valid prediction for GlimmerHMM_glimmerT_52130-T1
Valid prediction for GlimmerHMM_glimmerT_52122-T1
Valid prediction for GlimmerHMM_glimmerT_52118-T1
Valid prediction for Augustus_model.g34742.t1
Couldn't classify 12185, 12487
Sorry, prediction pasa_asmbl_32618.p1 fails validation.
(GCA)	 CG	12185-12487	CT	AGC
Valid prediction for snap_scaffold_24-snap.520-T1
Valid prediction for GlimmerHMM_glimmerT_52112-T1
Valid prediction for GlimmerHMM_glimmerT_52114-T1
Valid prediction for snap_scaffold_24-snap.526-T1
Valid prediction for Augustus_model.g34741.t1
Couldn't classify 33064, 34311
Couldn't classify 34998, 35516
Sorry, prediction pasa_asmbl_32614.p1 fails validation.
(CAT)	 AC	33064-34311	GT	CGG
(GAG)	 AG	34998-35516	AG	ACA
Valid prediction for Augustus_model.g34727.t1
Valid prediction for snap_scaffold_24-snap.532-T1
Couldn't classify 203396, 203514
Couldn't classify 204518, 204695
Sorry, prediction pasa_asmbl_32093.p2 fails validation.
(ATC)	 TC	203396-203514	GT	AGG
(GCG)	 AG	204518-204695	CG	AGC
Couldn't classify 185062, 185149
Couldn't classify 187862, 188005
Sorry, prediction pasa_asmbl_32091.p1 fails validation.
(ACC)	 AC	185062-185149	GT	GGG
(AGA)	 AG	187524-187744	GT	AGG
(AAC)	 AG	187862-188005	AC	AGA
-recovered pasa_asmbl_32091.p1, internal, 187524, 187744
Couldn't classify 29525, 29573
Couldn't classify 32483, 32997
Sorry, prediction pasa_asmbl_32086.p1 fails validation.
(ACT)	 GG	29525-29573	GT	CGG
(AGC)	 AG	31252-31412	GT	AGG
(TCC)	 AG	31849-31982	GT	AGG
(ATC)	 AG	32218-32285	GT	TGG
(ATG)	 AG	32483-32997	CA	AGC
-recovered pasa_asmbl_32086.p1, internal, 31252, 31412
-recovered pasa_asmbl_32086.p1, internal, 31849, 31982
-recovered pasa_asmbl_32086.p1, internal, 32218, 32285
Valid prediction for snap_scaffold_24-snap.539-T1
Couldn't classify 187502, 187744
Couldn't classify 187862, 188005
Sorry, prediction pasa_asmbl_32092.p1 fails validation.
(TCT)	 CT	187502-187744	GT	AGG
(AAC)	 AG	187862-188005	AC	AGA
Valid prediction for snap_scaffold_24-snap.522-T1
Valid prediction for Augustus_model.g34735.t1
Valid prediction for snap_scaffold_24-snap.519-T1
Valid prediction for snap_scaffold_24-snap.515-T1
Valid prediction for Augustus_model.g34734.t1
Valid prediction for snap_scaffold_24-snap.523-T1
Valid prediction for Augustus_model.g34729.t1
Valid prediction for Augustus_model.g34732.t1
Valid prediction for GlimmerHMM_glimmerT_52121-T1
Valid prediction for GlimmerHMM_glimmerT_52129-T1
Couldn't classify 19821, 19961
Sorry, prediction pasa_asmbl_32084.p2 fails validation.
(GCG)	 AG	19821-19961	GT	AGG
(ATG)	 AG	20050-20186	GT	AGG
(CTC)	 AG	20346-20453	GT	AGG
(TGG)	 AG	20747-20939	GT	AGG
(ACG)	 AG	21403-21420	CA	GAC
-recovered pasa_asmbl_32084.p2, initial, 20050, 20186
-recovered pasa_asmbl_32084.p2, terminal, 21403, 21420
-recovered pasa_asmbl_32084.p2, internal, 19821, 19961
-recovered pasa_asmbl_32084.p2, internal, 20050, 20186
-recovered pasa_asmbl_32084.p2, internal, 20346, 20453
-recovered pasa_asmbl_32084.p2, internal, 20747, 20939
Valid prediction for Augustus_model.g34740.t1
Valid prediction for GlimmerHMM_glimmerT_52113-T1
Couldn't classify 61405, 62343
Sorry, prediction pasa_asmbl_32088.p1 fails validation.
(GGA)	 CA	61405-62343	GA	GAG
Valid prediction for GlimmerHMM_glimmerT_52119-T1
Valid prediction for Augustus_model.g34730.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 GlimmerHMM_glimmerT_52120-T1
Valid prediction for snap_scaffold_24-snap.513-T1
Valid prediction for GlimmerHMM_glimmerT_52117-T1
Valid prediction for snap_scaffold_24-snap.525-T1
Valid prediction for snap_scaffold_24-snap.524-T1
Valid prediction for snap_scaffold_24-snap.534-T1
Valid prediction for snap_scaffold_24-snap.517-T1
Valid prediction for GlimmerHMM_glimmerT_52134-T1
Valid prediction for snap_scaffold_24-snap.510-T1
Valid prediction for snap_scaffold_24-snap.516-T1
Valid prediction for snap_scaffold_24-snap.533-T1
Valid prediction for snap_scaffold_24-snap.538-T1
Valid prediction for snap_scaffold_24-snap.507-T1
Valid prediction for snap_scaffold_24-snap.537-T1
Valid prediction for snap_scaffold_24-snap.531-T1
Valid prediction for HiQ_model.g34737.t1
Valid prediction for Augustus_model.g34738.t1
Valid prediction for snap_scaffold_24-snap.536-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_24-snap.518-T1
Valid prediction for snap_scaffold_24-snap.527-T1
Valid prediction for GlimmerHMM_glimmerT_52111-T1
Valid prediction for snap_scaffold_24-snap.509-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_52127-T1
Valid prediction for GlimmerHMM_glimmerT_52131-T1
Valid prediction for GlimmerHMM_glimmerT_52124-T1
Valid prediction for snap_scaffold_24-snap.535-T1
Valid prediction for snap_scaffold_24-snap.512-T1
Valid prediction for GlimmerHMM_glimmerT_52123-T1
Valid prediction for snap_scaffold_24-snap.508-T1
Valid prediction for Augustus_model.g34736.t1
Valid prediction for snap_scaffold_24-snap.521-T1
Valid prediction for GlimmerHMM_glimmerT_52115-T1
Valid prediction for Augustus_model.g34733.t1
Valid prediction for snap_scaffold_24-snap.514-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g34731.t1
Valid prediction for snap_scaffold_24-snap.530-T1
Couldn't classify 88133, 88210
Sorry, prediction pasa_asmbl_32777.p1 fails validation.
(ATG)	 AA	85264-85539	GT	AGG
(GTA)	 AG	85974-86038	GT	TGG
(GCA)	 AG	86484-86580	GT	AGG
(GAC)	 AG	88133-88210	TA	GGT
-recovered pasa_asmbl_32777.p1, initial, 85264, 85539
-recovered pasa_asmbl_32777.p1, internal, 85974, 86038
-recovered pasa_asmbl_32777.p1, internal, 86484, 86580
Valid prediction for snap_scaffold_24-snap.506-T1
Valid prediction for GlimmerHMM_glimmerT_52125-T1
Valid prediction for GlimmerHMM_glimmerT_52132-T1
Valid prediction for GlimmerHMM_glimmerT_52128-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 37403, rend_intergenic: 5146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62343, rend_intergenic: 43322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82850, rend_intergenic: 77760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88815, rend_intergenic: 85055  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90962, rend_intergenic: 88830  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94466, rend_intergenic: 91516  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115941, rend_intergenic: 99607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125595, rend_intergenic: 117352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129601, rend_intergenic: 125655  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144421, rend_intergenic: 132898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149973, rend_intergenic: 146179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198536, rend_intergenic: 152024  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208225, rend_intergenic: 199318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 214864
-exon list size: 416


building trellis

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0.5    
0.7    
1.0    
1.2    
1.4    
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1.9    
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2.9    
3.1    
3.3    
3.6    
3.8    
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5.0    
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8.1    
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8.9    
9.1    
9.3    
9.6    
9.8    
10.0    
10.3    
10.5    
10.8    
11.0    
11.2    
11.5    
11.7    
12.0    
12.2    
12.4    
12.7    
12.9    
13.2    
13.4    
13.6    
13.9    
14.1    
14.4    
14.6    
14.8    
15.1    
15.3    
15.6    
15.8    
16.0    
16.3    
16.5    
16.7    
17.0    
17.2    
17.5    
17.7    
17.9    
18.2    
18.4    
18.7    
18.9    
19.1    
19.4    
19.6    
19.9    
20.1    
20.3    
20.6    
20.8    
21.1    
21.3    
21.5    
21.8    
22.0    
22.2    
22.5    
22.7    
23.0    
23.2    
23.4    
23.7    
23.9    
24.2    
24.4    
24.6    
24.9    
25.1    
25.4    
25.6    
25.8    
26.1    
26.3    
26.6    
26.8    
27.0    
27.3    
27.5    
27.8    
28.0    
28.2    
28.5    
28.7    
28.9    
29.2    
29.4    
29.7    
29.9    
30.1    
30.4    
30.6    
30.9    
31.1    
31.3    
31.6    
31.8    
32.1    
32.3    
32.5    
32.8    
33.0    
33.3    
33.5    
33.7    
34.0    
34.2    
34.4    
34.7    
34.9    
35.2    
35.4    
35.6    
35.9    
36.1    
36.4    
36.6    
36.8    
37.1    
37.3    
37.6    
37.8    
38.0    
38.3    
38.5    
38.8    
39.0    
39.2    
39.5    
39.7    
40.0    
40.2    
40.4    
40.7    
40.9    
41.1    
41.4    
41.6    
41.9    
42.1    
42.3    
42.6    
42.8    
43.1    
43.3    
43.5    
43.8    
44.0    
44.3    
44.5    
44.7    
45.0    
45.2    
45.5    
45.7    
45.9    
46.2    
46.4    
46.7    
46.9    
47.1    
47.4    
47.6    
47.8    
48.1    
48.3    
48.6    
48.8    
49.0    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
51.0    
51.2    
51.4    
51.7    
51.9    
52.2    
52.4    
52.6    
52.9    
53.1    
53.3    
53.6    
53.8    
54.1    
54.3    
54.5    
54.8    
55.0    
55.3    
55.5    
55.7    
56.0    
56.2    
56.5    
56.7    
56.9    
57.2    
57.4    
57.7    
57.9    
58.1    
58.4    
58.6    
58.9    
59.1    
59.3    
59.6    
59.8    
60.0    
60.3    
60.5    
60.8    
61.0    
61.2    
61.5    
61.7    
62.0    
62.2    
62.4    
62.7    
62.9    
63.2    
63.4    
63.6    
63.9    
64.1    
64.4    
64.6    
64.8    
65.1    
65.3    
65.6    
65.8    
66.0    
66.3    
66.5    
66.7    
67.0    
67.2    
67.5    
67.7    
67.9    
68.2    
68.4    
68.7    
68.9    
69.1    
69.4    
69.6    
69.9    
70.1    
70.3    
70.6    
70.8    
71.1    
71.3    
71.5    
71.8    
72.0    
72.2    
72.5    
72.7    
73.0    
73.2    
73.4    
73.7    
73.9    
74.2    
74.4    
74.6    
74.9    
75.1    
75.4    
75.6    
75.8    
76.1    
76.3    
76.6    
76.8    
77.0    
77.3    
77.5    
77.8    
78.0    
78.2    
78.5    
78.7    
78.9    
79.2    
79.4    
79.7    
79.9    
80.1    
80.4    
80.6    
80.9    
81.1    
81.3    
81.6    
81.8    
82.1    
82.3    
82.5    
82.8    
83.0    
83.3    
83.5    
83.7    
84.0    
84.2    
84.4    
84.7    
84.9    
85.2    
85.4    
85.6    
85.9    
86.1    
86.4    
86.6    
86.8    
87.1    
87.3    
87.6    
87.8    
88.0    
88.3    
88.5    
88.8    
89.0    
89.2    
89.5    
89.7    
90.0    
90.2    
90.4    
90.7    
90.9    
91.1    
91.4    
91.6    
91.9    
92.1    
92.3    
92.6    
92.8    
93.1    
93.3    
93.5    
93.8    
94.0    
94.3    
94.5    
94.7    
95.0    
95.2    
95.5    
95.7    
95.9    
96.2    
96.4    
96.7    
96.9    
97.1    
97.4    
97.6    
97.8    
98.1    
98.3    
98.6    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 37403, rend_intergenic: 5146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62343, rend_intergenic: 43322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82850, rend_intergenic: 77760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88815, rend_intergenic: 85055  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90962, rend_intergenic: 88830  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94466, rend_intergenic: 91516  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115941, rend_intergenic: 99607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125595, rend_intergenic: 117352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129601, rend_intergenic: 125655  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144421, rend_intergenic: 132898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149973, rend_intergenic: 146179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198536, rend_intergenic: 152024  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208225, rend_intergenic: 199318  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