-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_3305735-3464293

-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_27-snap.802-T1
Valid prediction for GlimmerHMM_glimmerT_57029-T1
Valid prediction for snap_scaffold_27-snap.811-T1
Valid prediction for Augustus_model.g37790.t1
Valid prediction for GlimmerHMM_glimmerT_57020-T1
Valid prediction for snap_scaffold_27-snap.782-T1
Valid prediction for Augustus_model.g37785.t1
Valid prediction for pasa_asmbl_36195.p1
Couldn't classify 103392, 104384
Sorry, prediction pasa_asmbl_36201.p1 fails validation.
(CCG)	 CT	103392-104384	GC	AGG
Valid prediction for Augustus_model.g37779.t1
Couldn't classify 101166, 101274
Sorry, prediction pasa_asmbl_36200.p1 fails validation.
(CGG)	 AC	101166-101274	GT	CGG
(TGT)	 AG	101366-101466	GT	ACG
(ATG)	 AG	101588-101701	GT	AGG
(ATC)	 AG	101952-102108	GT	TGG
(AGT)	 AG	102214-102329	GT	AGG
(GTC)	 AG	102480-102633	GT	AGG
(GGT)	 AG	102738-102967	TT	AGT
-recovered pasa_asmbl_36200.p1, initial, 101588, 101701
-recovered pasa_asmbl_36200.p1, terminal, 102738, 102967
-recovered pasa_asmbl_36200.p1, internal, 101366, 101466
-recovered pasa_asmbl_36200.p1, internal, 101588, 101701
-recovered pasa_asmbl_36200.p1, internal, 101952, 102108
-recovered pasa_asmbl_36200.p1, internal, 102214, 102329
-recovered pasa_asmbl_36200.p1, internal, 102480, 102633
Valid prediction for CodingQuarry_transcript_41851-T1
Valid prediction for Augustus_model.g37792.t1
Couldn't classify 97657, 97704
Couldn't classify 99586, 99606
Sorry, prediction pasa_asmbl_36198.p1 fails validation.
(CGA)	 CT	97657-97704	GT	AAG
(TTG)	 AG	97907-97951	GT	AGG
(TGC)	 AG	98091-98252	GT	GGG
(AGT)	 AG	98365-98500	GT	AGG
(GTT)	 AG	98602-98738	GT	AGG
(CTT)	 AG	99586-99606	TT	CGT
-recovered pasa_asmbl_36198.p1, internal, 97907, 97951
-recovered pasa_asmbl_36198.p1, internal, 98091, 98252
-recovered pasa_asmbl_36198.p1, internal, 98365, 98500
-recovered pasa_asmbl_36198.p1, internal, 98602, 98738
Valid prediction for GlimmerHMM_glimmerT_57009-T1
Valid prediction for GlimmerHMM_glimmerT_57005-T1
Valid prediction for Augustus_model.g37784.t1
Valid prediction for GlimmerHMM_glimmerT_57022-T1
Valid prediction for Augustus_model.g37783.t1
Valid prediction for GlimmerHMM_glimmerT_57017-T1
Valid prediction for snap_scaffold_27-snap.813-T1
Valid prediction for pasa_asmbl_36202.p1
Valid prediction for GlimmerHMM_glimmerT_57004-T1
Valid prediction for snap_scaffold_27-snap.790-T1
Valid prediction for HiQ_model.g37788.t1
Valid prediction for GlimmerHMM_glimmerT_57011-T1
Valid prediction for Augustus_model.g37780.t1
Valid prediction for Augustus_model.g37778.t1
Valid prediction for Augustus_model.g37774.t1
Valid prediction for GlimmerHMM_glimmerT_57032-T1
Valid prediction for GlimmerHMM_glimmerT_57024-T1
Valid prediction for snap_scaffold_27-snap.781-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_57027-T1
Valid prediction for snap_scaffold_27-snap.799-T1
Valid prediction for snap_scaffold_27-snap.792-T1
Valid prediction for GlimmerHMM_glimmerT_57012-T1
Valid prediction for GlimmerHMM_glimmerT_57018-T1
Valid prediction for snap_scaffold_27-snap.812-T1
Valid prediction for GlimmerHMM_glimmerT_57028-T1
Valid prediction for snap_scaffold_27-snap.810-T1
Valid prediction for pasa_asmbl_36566.p1
Valid prediction for GlimmerHMM_glimmerT_57034-T1
Valid prediction for HiQ_model.g37782.t1
Valid prediction for snap_scaffold_27-snap.808-T1
Valid prediction for CodingQuarry_transcript_41853-T1
Valid prediction for GlimmerHMM_glimmerT_57026-T1
Valid prediction for CodingQuarry_transcript_41852-T1
Valid prediction for snap_scaffold_27-snap.807-T1
Valid prediction for GlimmerHMM_glimmerT_57033-T1
Valid prediction for snap_scaffold_27-snap.800-T1
Valid prediction for GlimmerHMM_glimmerT_57023-T1
Valid prediction for Augustus_model.g37787.t1
Valid prediction for snap_scaffold_27-snap.803-T1
Valid prediction for snap_scaffold_27-snap.786-T1
Valid prediction for GlimmerHMM_glimmerT_57021-T1
Valid prediction for Augustus_model.g37793.t1
Valid prediction for Augustus_model.g37789.t1
Valid prediction for snap_scaffold_27-snap.805-T1
Valid prediction for GlimmerHMM_glimmerT_57019-T1
Valid prediction for snap_scaffold_27-snap.791-T1
Valid prediction for Augustus_model.g37775.t1
Valid prediction for snap_scaffold_27-snap.797-T1
Valid prediction for snap_scaffold_27-snap.798-T1
Valid prediction for snap_scaffold_27-snap.787-T1
Valid prediction for GlimmerHMM_glimmerT_57010-T1
Valid prediction for HiQ_model.g37786.t1
Valid prediction for snap_scaffold_27-snap.809-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_57015-T1
Valid prediction for GlimmerHMM_glimmerT_57007-T1
Valid prediction for GlimmerHMM_glimmerT_57025-T1
Valid prediction for snap_scaffold_27-snap.804-T1
Valid prediction for GlimmerHMM_glimmerT_57035-T1
Valid prediction for GlimmerHMM_glimmerT_57013-T1
Valid prediction for Augustus_model.g37791.t1
Valid prediction for Augustus_model.g37777.t1
Valid prediction for snap_scaffold_27-snap.777-T1
Valid prediction for snap_scaffold_27-snap.793-T1
Valid prediction for Augustus_model.g37781.t1
Valid prediction for snap_scaffold_27-snap.780-T1
Valid prediction for GlimmerHMM_glimmerT_57006-T1
Valid prediction for snap_scaffold_27-snap.784-T1
Valid prediction for snap_scaffold_27-snap.779-T1
Valid prediction for snap_scaffold_27-snap.789-T1
Valid prediction for snap_scaffold_27-snap.796-T1
Valid prediction for snap_scaffold_27-snap.806-T1
Valid prediction for Augustus_model.g37776.t1
Valid prediction for snap_scaffold_27-snap.785-T1
Valid prediction for GlimmerHMM_glimmerT_57008-T1
Valid prediction for snap_scaffold_27-snap.801-T1
Valid prediction for snap_scaffold_27-snap.795-T1
Valid prediction for snap_scaffold_27-snap.794-T1
Valid prediction for GlimmerHMM_glimmerT_57031-T1
Valid prediction for snap_scaffold_27-snap.788-T1
Valid prediction for GlimmerHMM_glimmerT_57016-T1
Valid prediction for snap_scaffold_27-snap.778-T1
Valid prediction for GlimmerHMM_glimmerT_57014-T1
Valid prediction for snap_scaffold_27-snap.783-T1
Valid prediction for GlimmerHMM_glimmerT_57030-T1
Valid prediction for GlimmerHMM_glimmerT_57003-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13256, rend_intergenic: 4286  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104384, rend_intergenic: 97617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122592, rend_intergenic: 109422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127669, rend_intergenic: 123446  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 158559
-exon list size: 389


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
1.8    
2.0    
2.3    
2.6    
2.8    
3.1    
3.3    
3.6    
3.8    
4.1    
4.3    
4.6    
4.9    
5.1    
5.4    
5.6    
5.9    
6.1    
6.4    
6.6    
6.9    
7.2    
7.4    
7.7    
7.9    
8.2    
8.4    
8.7    
9.0    
9.2    
9.5    
9.7    
10.0    
10.2    
10.5    
10.7    
11.0    
11.3    
11.5    
11.8    
12.0    
12.3    
12.5    
12.8    
13.0    
13.3    
13.6    
13.8    
14.1    
14.3    
14.6    
14.8    
15.1    
15.3    
15.6    
15.9    
16.1    
16.4    
16.6    
16.9    
17.1    
17.4    
17.6    
17.9    
18.2    
18.4    
18.7    
18.9    
19.2    
19.4    
19.7    
19.9    
20.2    
20.5    
20.7    
21.0    
21.2    
21.5    
21.7    
22.0    
22.3    
22.5    
22.8    
23.0    
23.3    
23.5    
23.8    
24.0    
24.3    
24.6    
24.8    
25.1    
25.3    
25.6    
25.8    
26.1    
26.3    
26.6    
26.9    
27.1    
27.4    
27.6    
27.9    
28.1    
28.4    
28.6    
28.9    
29.2    
29.4    
29.7    
29.9    
30.2    
30.4    
30.7    
30.9    
31.2    
31.5    
31.7    
32.0    
32.2    
32.5    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.5    
34.8    
35.0    
35.3    
35.5    
35.8    
36.1    
36.3    
36.6    
36.8    
37.1    
37.3    
37.6    
37.9    
38.1    
38.4    
38.6    
38.9    
39.1    
39.4    
39.6    
39.9    
40.2    
40.4    
40.7    
40.9    
41.2    
41.4    
41.7    
41.9    
42.2    
42.5    
42.7    
43.0    
43.2    
43.5    
43.7    
44.0    
44.2    
44.5    
44.8    
45.0    
45.3    
45.5    
45.8    
46.0    
46.3    
46.5    
46.8    
47.1    
47.3    
47.6    
47.8    
48.1    
48.3    
48.6    
48.8    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.2    
51.4    
51.7    
51.9    
52.2    
52.4    
52.7    
52.9    
53.2    
53.5    
53.7    
54.0    
54.2    
54.5    
54.7    
55.0    
55.2    
55.5    
55.8    
56.0    
56.3    
56.5    
56.8    
57.0    
57.3    
57.5    
57.8    
58.1    
58.3    
58.6    
58.8    
59.1    
59.3    
59.6    
59.8    
60.1    
60.4    
60.6    
60.9    
61.1    
61.4    
61.6    
61.9    
62.1    
62.4    
62.7    
62.9    
63.2    
63.4    
63.7    
63.9    
64.2    
64.5    
64.7    
65.0    
65.2    
65.5    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.5    
67.8    
68.0    
68.3    
68.5    
68.8    
69.1    
69.3    
69.6    
69.8    
70.1    
70.3    
70.6    
70.8    
71.1    
71.4    
71.6    
71.9    
72.1    
72.4    
72.6    
72.9    
73.1    
73.4    
73.7    
73.9    
74.2    
74.4    
74.7    
74.9    
75.2    
75.4    
75.7    
76.0    
76.2    
76.5    
76.7    
77.0    
77.2    
77.5    
77.7    
78.0    
78.3    
78.5    
78.8    
79.0    
79.3    
79.5    
79.8    
80.1    
80.3    
80.6    
80.8    
81.1    
81.3    
81.6    
81.8    
82.1    
82.4    
82.6    
82.9    
83.1    
83.4    
83.6    
83.9    
84.1    
84.4    
84.7    
84.9    
85.2    
85.4    
85.7    
85.9    
86.2    
86.4    
86.7    
87.0    
87.2    
87.5    
87.7    
88.0    
88.2    
88.5    
88.7    
89.0    
89.3    
89.5    
89.8    
90.0    
90.3    
90.5    
90.8    
91.0    
91.3    
91.6    
91.8    
92.1    
92.3    
92.6    
92.8    
93.1    
93.4    
93.6    
93.9    
94.1    
94.4    
94.6    
94.9    
95.1    
95.4    
95.7    
95.9    
96.2    
96.4    
96.7    
96.9    
97.2    
97.4    
97.7    
98.0    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 13256, rend_intergenic: 4286  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104384, rend_intergenic: 97617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122592, rend_intergenic: 109422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127669, rend_intergenic: 123446  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support