-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_18962552-19105721

-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.4114-T1
Couldn't classify 139054, 139425
Sorry, prediction pasa_asmbl_47874.p1 fails validation.
(ATC)	 AG	139054-139425	CG	CCC
Valid prediction for snap_scaffold_6-snap.4099-T1
Valid prediction for snap_scaffold_6-snap.4082-T1
Valid prediction for snap_scaffold_6-snap.4097-T1
Valid prediction for snap_scaffold_6-snap.4085-T1
Valid prediction for snap_scaffold_6-snap.4096-T1
Valid prediction for GlimmerHMM_glimmerT_16663-T1
Valid prediction for GlimmerHMM_glimmerT_16660-T1
Valid prediction for GlimmerHMM_glimmerT_16667-T1
Couldn't classify 70730, 70758
Sorry, prediction pasa_asmbl_47863.p1 fails validation.
(AAA)	 TT	70730-70758	GT	CCG
(GTG)	 AG	70945-71067	GT	AAG
(GTT)	 AG	71988-72156	GT	AGG
(CAC)	 AG	72287-72472	AC	AAA
-recovered pasa_asmbl_47863.p1, terminal, 72287, 72472
-recovered pasa_asmbl_47863.p1, internal, 70945, 71067
-recovered pasa_asmbl_47863.p1, internal, 71988, 72156
Valid prediction for Augustus_model.g11149.t1
Valid prediction for snap_scaffold_6-snap.4111-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_16654-T1
Valid prediction for CodingQuarry_transcript_55454-T1
Valid prediction for snap_scaffold_6-snap.4080-T1
Valid prediction for Augustus_model.g11150.t1
Valid prediction for GlimmerHMM_glimmerT_16655-T1
Valid prediction for CodingQuarry_transcript_55456-T1
Valid prediction for snap_scaffold_6-snap.4112-T1
Valid prediction for GlimmerHMM_glimmerT_16665-T1
Valid prediction for snap_scaffold_6-snap.4106-T1
Valid prediction for CodingQuarry_transcript_55455-T1
Valid prediction for snap_scaffold_6-snap.4108-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_16661-T1
Valid prediction for GlimmerHMM_glimmerT_16668-T1
Valid prediction for snap_scaffold_6-snap.4087-T1
Valid prediction for snap_scaffold_6-snap.4102-T1
Valid prediction for snap_scaffold_6-snap.4075-T1
Valid prediction for snap_scaffold_6-snap.4116-T1
Valid prediction for snap_scaffold_6-snap.4105-T1
Valid prediction for snap_scaffold_6-snap.4083-T1
Valid prediction for snap_scaffold_6-snap.4113-T1
Valid prediction for snap_scaffold_6-snap.4104-T1
Valid prediction for GlimmerHMM_glimmerT_16664-T1
Couldn't classify 106236, 106442
Sorry, prediction pasa_asmbl_47867.p1 fails validation.
(ATC)	 AC	106236-106442	GT	AGG
(GGT)	 AG	106886-107068	GT	TGG
(GCT)	 AG	107203-107352	GT	TGG
(GAG)	 AG	107992-108084	AT	AAA
-recovered pasa_asmbl_47867.p1, terminal, 107992, 108084
-recovered pasa_asmbl_47867.p1, internal, 106886, 107068
-recovered pasa_asmbl_47867.p1, internal, 107203, 107352
Valid prediction for snap_scaffold_6-snap.4109-T1
Valid prediction for snap_scaffold_6-snap.4089-T1
Valid prediction for GlimmerHMM_glimmerT_16662-T1
Valid prediction for GlimmerHMM_glimmerT_16652-T1
Valid prediction for snap_scaffold_6-snap.4090-T1
Valid prediction for snap_scaffold_6-snap.4094-T1
Couldn't classify 104228, 104282
Sorry, prediction pasa_asmbl_47866.p1 fails validation.
(ATG)	 AG	102494-102550	GT	ATG
(GAA)	 AG	102670-102810	GT	AGG
(CCT)	 AG	104049-104137	GT	AGG
(AAA)	 AG	104228-104282	TT	GGT
-recovered pasa_asmbl_47866.p1, initial, 102494, 102550
-recovered pasa_asmbl_47866.p1, internal, 102494, 102550
-recovered pasa_asmbl_47866.p1, internal, 102670, 102810
-recovered pasa_asmbl_47866.p1, internal, 104049, 104137
Valid prediction for pasa_asmbl_47869.p1
Valid prediction for CodingQuarry_transcript_55453-T1
Valid prediction for snap_scaffold_6-snap.4076-T1
Valid prediction for GlimmerHMM_glimmerT_16651-T1
Valid prediction for snap_scaffold_6-snap.4084-T1
Valid prediction for pasa_asmbl_47865.p1
Valid prediction for GlimmerHMM_glimmerT_16666-T1
Valid prediction for GlimmerHMM_glimmerT_16656-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_16658-T1
Valid prediction for snap_scaffold_6-snap.4078-T1
Valid prediction for snap_scaffold_6-snap.4077-T1
Valid prediction for snap_scaffold_6-snap.4091-T1
Valid prediction for snap_scaffold_6-snap.4100-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.4110-T1
Valid prediction for Augustus_model.g11148.t1
Valid prediction for GlimmerHMM_glimmerT_16653-T1
Valid prediction for snap_scaffold_6-snap.4088-T1
Valid prediction for GlimmerHMM_glimmerT_16650-T1
Valid prediction for snap_scaffold_6-snap.4079-T1
Valid prediction for snap_scaffold_6-snap.4086-T1
Valid prediction for Augustus_model.g11146.t1
Valid prediction for Augustus_model.g11147.t1
Valid prediction for snap_scaffold_6-snap.4081-T1
Valid prediction for snap_scaffold_6-snap.4103-T1
Valid prediction for snap_scaffold_6-snap.4107-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.4093-T1
Valid prediction for snap_scaffold_6-snap.4095-T1
Valid prediction for snap_scaffold_6-snap.4101-T1
Valid prediction for snap_scaffold_6-snap.4092-T1
Valid prediction for GlimmerHMM_glimmerT_16649-T1
Valid prediction for GlimmerHMM_glimmerT_16659-T1
Valid prediction for snap_scaffold_6-snap.4074-T1
Valid prediction for snap_scaffold_6-snap.4115-T1
Valid prediction for GlimmerHMM_glimmerT_16657-T1
Valid prediction for snap_scaffold_6-snap.4098-T1
Sorry, intron length (3) is less than minimum required (10)

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9329, rend_intergenic: 2929  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37160, rend_intergenic: 24777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43382, rend_intergenic: 40197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45206, rend_intergenic: 43771  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49374, rend_intergenic: 45385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72864, rend_intergenic: 63684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82524, rend_intergenic: 78599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85355, rend_intergenic: 83118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92704, rend_intergenic: 85884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94991, rend_intergenic: 93448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96469, rend_intergenic: 95130  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108084, rend_intergenic: 104082  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124049, rend_intergenic: 117029  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128908, rend_intergenic: 125046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135274, rend_intergenic: 133145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 143170
-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 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 9329, rend_intergenic: 2929  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37160, rend_intergenic: 24777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43382, rend_intergenic: 40197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45206, rend_intergenic: 43771  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49374, rend_intergenic: 45385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72864, rend_intergenic: 63684  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82524, rend_intergenic: 78599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85355, rend_intergenic: 83118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92704, rend_intergenic: 85884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94991, rend_intergenic: 93448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96469, rend_intergenic: 95130  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108084, rend_intergenic: 104082  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124049, rend_intergenic: 117029  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128908, rend_intergenic: 125046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135274, rend_intergenic: 133145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support