-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_1-152665

-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_8-snap.18-T1
Couldn't classify 76970, 77129
Sorry, prediction pasa_asmbl_52644.p1 fails validation.
(ATG)	 AA	76071-76110	GT	AGG
(TGG)	 AG	76432-76627	GT	GCG
(GTA)	 AG	76970-77129	GC	GGG
-recovered pasa_asmbl_52644.p1, initial, 76071, 76110
-recovered pasa_asmbl_52644.p1, internal, 76432, 76627
-recovered pasa_asmbl_52644.p1, internal, 76970, 77129
Valid prediction for HiQ_model.g12772.t1
Valid prediction for snap_scaffold_8-snap.31-T1
Valid prediction for snap_scaffold_8-snap.2-T1
Valid prediction for snap_scaffold_8-snap.25-T1
Valid prediction for GlimmerHMM_glimmerT_19099-T1
Valid prediction for HiQ_model.g12779.t1
Valid prediction for snap_scaffold_8-snap.33-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.23-T1
Valid prediction for GlimmerHMM_glimmerT_19082-T1
Valid prediction for GlimmerHMM_glimmerT_19093-T1
Valid prediction for Augustus_model.g12785.t1
Valid prediction for GlimmerHMM_glimmerT_19104-T1
Valid prediction for snap_scaffold_8-snap.8-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.12-T1
Valid prediction for pasa_asmbl_52642.p1
Valid prediction for GlimmerHMM_glimmerT_19089-T1
Valid prediction for GlimmerHMM_glimmerT_19100-T1
Valid prediction for Augustus_model.g12777.t1
Valid prediction for snap_scaffold_8-snap.5-T1
Valid prediction for CodingQuarry_transcript_59579-T1
Valid prediction for GlimmerHMM_glimmerT_19084-T1
Valid prediction for pasa_asmbl_52648.p1
Valid prediction for GlimmerHMM_glimmerT_19080-T1
Valid prediction for GlimmerHMM_glimmerT_19095-T1
Valid prediction for snap_scaffold_8-snap.17-T1
Valid prediction for CodingQuarry_transcript_59581-T1
Valid prediction for snap_scaffold_8-snap.7-T1
Valid prediction for GlimmerHMM_glimmerT_19086-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.29-T1
Valid prediction for GlimmerHMM_glimmerT_19091-T1
Valid prediction for snap_scaffold_8-snap.13-T1
Valid prediction for GlimmerHMM_glimmerT_19097-T1
Valid prediction for snap_scaffold_8-snap.21-T1
Valid prediction for snap_scaffold_8-snap.1-T1
Valid prediction for snap_scaffold_8-snap.14-T1
Valid prediction for Augustus_model.g12782.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_19090-T1
Valid prediction for snap_scaffold_8-snap.28-T1
Valid prediction for GlimmerHMM_glimmerT_19106-T1
Valid prediction for CodingQuarry_transcript_59580-T1
Valid prediction for HiQ_model.g12778.t1
Valid prediction for GlimmerHMM_glimmerT_19088-T1
Valid prediction for HiQ_model.g12776.t1
Valid prediction for snap_scaffold_8-snap.22-T1
Valid prediction for snap_scaffold_8-snap.34-T1
Valid prediction for GlimmerHMM_glimmerT_19087-T1
Valid prediction for snap_scaffold_8-snap.6-T1
Couldn't classify 29330, 29379
Couldn't classify 31171, 31310
Sorry, prediction pasa_asmbl_51694.p1 fails validation.
(TCC)	 AC	29330-29379	GT	AGG
(GTG)	 AG	29628-29763	GT	AGG
(GAC)	 AG	30017-30184	GT	AGG
(GGA)	 AG	30471-30546	GT	AGG
(AGC)	 AG	30895-31074	GT	AGG
(GAA)	 AG	31171-31310	AT	GGA
-recovered pasa_asmbl_51694.p1, internal, 29628, 29763
-recovered pasa_asmbl_51694.p1, internal, 30017, 30184
-recovered pasa_asmbl_51694.p1, internal, 30471, 30546
-recovered pasa_asmbl_51694.p1, internal, 30895, 31074
Couldn't classify 119257, 119469
Sorry, prediction pasa_asmbl_51686.p1 fails validation.
(CGC)	 AG	119257-119469	GT	AGG
(TCC)	 AG	120248-120394	GT	AGG
(ACA)	 AG	120563-120697	GT	AGG
(GCA)	 AG	121067-121150	GT	GGG
(GCG)	 AG	121531-121662	GT	AGG
(AAC)	 AG	121951-122013	GT	AGG
(GAG)	 AG	122189-122268	GT	GGG
(ACG)	 AG	122409-122559	GT	AGG
(GTC)	 AG	123902-124125	GT	AGG
(GAT)	 AG	124238-124529	CC	GAC
-recovered pasa_asmbl_51686.p1, terminal, 124238, 124529
-recovered pasa_asmbl_51686.p1, internal, 119257, 119469
-recovered pasa_asmbl_51686.p1, internal, 120248, 120394
-recovered pasa_asmbl_51686.p1, internal, 120563, 120697
-recovered pasa_asmbl_51686.p1, internal, 121067, 121150
-recovered pasa_asmbl_51686.p1, internal, 121531, 121662
-recovered pasa_asmbl_51686.p1, internal, 121951, 122013
-recovered pasa_asmbl_51686.p1, internal, 122189, 122268
-recovered pasa_asmbl_51686.p1, internal, 122409, 122559
-recovered pasa_asmbl_51686.p1, internal, 123902, 124125
Valid prediction for GlimmerHMM_glimmerT_19107-T1
Valid prediction for snap_scaffold_8-snap.15-T1
Valid prediction for snap_scaffold_8-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_19083-T1
Valid prediction for GlimmerHMM_glimmerT_19105-T1
Valid prediction for GlimmerHMM_glimmerT_19098-T1
Valid prediction for Augustus_model.g12780.t1
Valid prediction for pasa_asmbl_51688.p1
Valid prediction for snap_scaffold_8-snap.9-T1
Valid prediction for snap_scaffold_8-snap.16-T1
Valid prediction for Augustus_model.g12773.t1
Valid prediction for Augustus_model.g12781.t1
Valid prediction for GlimmerHMM_glimmerT_19102-T1
Valid prediction for pasa_asmbl_51691.p1
Valid prediction for snap_scaffold_8-snap.10-T1
Valid prediction for GlimmerHMM_glimmerT_19092-T1
Valid prediction for snap_scaffold_8-snap.30-T1
Valid prediction for GlimmerHMM_glimmerT_19103-T1
Valid prediction for snap_scaffold_8-snap.24-T1
Valid prediction for snap_scaffold_8-snap.4-T1
Valid prediction for snap_scaffold_8-snap.26-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_19085-T1
Valid prediction for snap_scaffold_8-snap.20-T1
Valid prediction for GlimmerHMM_glimmerT_19101-T1
Valid prediction for GlimmerHMM_glimmerT_19094-T1
Valid prediction for snap_scaffold_8-snap.27-T1
Valid prediction for CodingQuarry_transcript_59583-T1
Valid prediction for snap_scaffold_8-snap.19-T1
Couldn't classify 34395, 34442
Sorry, prediction pasa_asmbl_52636.p1 fails validation.
(AAC)	 AT	34395-34442	GT	GAG
(GCA)	 AG	34796-34941	GT	CAG
(ATA)	 AG	35145-35313	GT	CTG
(GTC)	 AG	35638-36009	GC	AGG
-recovered pasa_asmbl_52636.p1, terminal, 35638, 36009
-recovered pasa_asmbl_52636.p1, internal, 34796, 34941
-recovered pasa_asmbl_52636.p1, internal, 35145, 35313
-recovered pasa_asmbl_52636.p1, internal, 35638, 36009
Valid prediction for HiQ_model.g12775.t1
Couldn't classify 117541, 117705
Sorry, prediction pasa_asmbl_51687.p1 fails validation.
(ATG)	 AG	116219-116485	GT	AGG
(GAG)	 AG	116644-116745	GT	GGG
(CTG)	 AG	117541-117705	GT	AGG
-recovered pasa_asmbl_51687.p1, initial, 116219, 116485
-recovered pasa_asmbl_51687.p1, internal, 116219, 116485
-recovered pasa_asmbl_51687.p1, internal, 116644, 116745
-recovered pasa_asmbl_51687.p1, internal, 117541, 117705
Valid prediction for Augustus_model.g12783.t1
Valid prediction for pasa_asmbl_51685.p2
Valid prediction for Augustus_model.g12786.t1
Valid prediction for HiQ_model.g12774.t1
Valid prediction for pasa_asmbl_51679.p1
Couldn't classify 35638, 35780
Couldn't classify 35829, 36009
Sorry, prediction CodingQuarry_transcript_59582-T1 fails validation.
(ATG)	 GC	34922-34941	GT	CAG
(ATA)	 AG	35145-35313	GT	CTG
(GTC)	 AG	35638-35780	TT	CGT
(CTC)	 CG	35829-36009	GC	AGG
-recovered CodingQuarry_transcript_59582-T1, initial, 34922, 34941
-recovered CodingQuarry_transcript_59582-T1, internal, 35145, 35313
Valid prediction for snap_scaffold_8-snap.11-T1
Valid prediction for Augustus_model.g12784.t1
Valid prediction for GlimmerHMM_glimmerT_19096-T1
Valid prediction for snap_scaffold_8-snap.32-T1
Valid prediction for Augustus_model.g12787.t1
Valid prediction for GlimmerHMM_glimmerT_19081-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 23432, rend_intergenic: 16053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35340, rend_intergenic: 26939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80548, rend_intergenic: 77661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97148, rend_intergenic: 85299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103788, rend_intergenic: 97374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129980, rend_intergenic: 126678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131750, rend_intergenic: 131093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135128, rend_intergenic: 131798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148046, rend_intergenic: 144092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 152665
-exon list size: 376


building trellis

0.3    
0.5    
0.8    
1.1    
1.3    
1.6    
1.9    
2.1    
2.4    
2.6    
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3.7    
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4.2    
4.5    
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5.0    
5.3    
5.6    
5.8    
6.1    
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6.9    
7.1    
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7.9    
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9.0    
9.3    
9.5    
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10.1    
10.3    
10.6    
10.8    
11.1    
11.4    
11.6    
11.9    
12.2    
12.4    
12.7    
13.0    
13.2    
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13.8    
14.0    
14.3    
14.6    
14.8    
15.1    
15.3    
15.6    
15.9    
16.1    
16.4    
16.7    
16.9    
17.2    
17.5    
17.7    
18.0    
18.3    
18.5    
18.8    
19.0    
19.3    
19.6    
19.8    
20.1    
20.4    
20.6    
20.9    
21.2    
21.4    
21.7    
22.0    
22.2    
22.5    
22.8    
23.0    
23.3    
23.5    
23.8    
24.1    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
25.9    
26.2    
26.5    
26.7    
27.0    
27.2    
27.5    
27.8    
28.0    
28.3    
28.6    
28.8    
29.1    
29.4    
29.6    
29.9    
30.2    
30.4    
30.7    
31.0    
31.2    
31.5    
31.7    
32.0    
32.3    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.1    
34.4    
34.7    
34.9    
35.2    
35.4    
35.7    
36.0    
36.2    
36.5    
36.8    
37.0    
37.3    
37.6    
37.8    
38.1    
38.4    
38.6    
38.9    
39.2    
39.4    
39.7    
39.9    
40.2    
40.5    
40.7    
41.0    
41.3    
41.5    
41.8    
42.1    
42.3    
42.6    
42.9    
43.1    
43.4    
43.7    
43.9    
44.2    
44.4    
44.7    
45.0    
45.2    
45.5    
45.8    
46.0    
46.3    
46.6    
46.8    
47.1    
47.4    
47.6    
47.9    
48.1    
48.4    
48.7    
48.9    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.1    
51.3    
51.6    
51.9    
52.1    
52.4    
52.6    
52.9    
53.2    
53.4    
53.7    
54.0    
54.2    
54.5    
54.8    
55.0    
55.3    
55.6    
55.8    
56.1    
56.3    
56.6    
56.9    
57.1    
57.4    
57.7    
57.9    
58.2    
58.5    
58.7    
59.0    
59.3    
59.5    
59.8    
60.1    
60.3    
60.6    
60.8    
61.1    
61.4    
61.6    
61.9    
62.2    
62.4    
62.7    
63.0    
63.2    
63.5    
63.8    
64.0    
64.3    
64.6    
64.8    
65.1    
65.3    
65.6    
65.9    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.7    
68.0    
68.3    
68.5    
68.8    
69.0    
69.3    
69.6    
69.8    
70.1    
70.4    
70.6    
70.9    
71.2    
71.4    
71.7    
72.0    
72.2    
72.5    
72.8    
73.0    
73.3    
73.5    
73.8    
74.1    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
75.9    
76.2    
76.5    
76.7    
77.0    
77.2    
77.5    
77.8    
78.0    
78.3    
78.6    
78.8    
79.1    
79.4    
79.6    
79.9    
80.2    
80.4    
80.7    
81.0    
81.2    
81.5    
81.7    
82.0    
82.3    
82.5    
82.8    
83.1    
83.3    
83.6    
83.9    
84.1    
84.4    
84.7    
84.9    
85.2    
85.4    
85.7    
86.0    
86.2    
86.5    
86.8    
87.0    
87.3    
87.6    
87.8    
88.1    
88.4    
88.6    
88.9    
89.2    
89.4    
89.7    
89.9    
90.2    
90.5    
90.7    
91.0    
91.3    
91.5    
91.8    
92.1    
92.3    
92.6    
92.9    
93.1    
93.4    
93.7    
93.9    
94.2    
94.4    
94.7    
95.0    
95.2    
95.5    
95.8    
96.0    
96.3    
96.6    
96.8    
97.1    
97.4    
97.6    
97.9    
98.1    
98.4    
98.7    
98.9    
99.2    
99.5    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 23432, rend_intergenic: 16053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35340, rend_intergenic: 26939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80548, rend_intergenic: 77661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97148, rend_intergenic: 85299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103788, rend_intergenic: 97374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129980, rend_intergenic: 126678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131750, rend_intergenic: 131093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135128, rend_intergenic: 131798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148046, rend_intergenic: 144092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support