-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_4755212-4976176

-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 pasa_asmbl_18797.p1
Valid prediction for snap_scaffold_17-snap.1008-T1
Valid prediction for Augustus_model.g26786.t1
Valid prediction for pasa_asmbl_18799.p1
Valid prediction for GlimmerHMM_glimmerT_40230-T1
Valid prediction for GlimmerHMM_glimmerT_40244-T1
Valid prediction for GlimmerHMM_glimmerT_40240-T1
Valid prediction for snap_scaffold_17-snap.1011-T1
Valid prediction for CodingQuarry_transcript_21965-T1
Valid prediction for GlimmerHMM_glimmerT_40225-T1
Valid prediction for GlimmerHMM_glimmerT_40245-T1
Valid prediction for CodingQuarry_transcript_21964-T1
Valid prediction for snap_scaffold_17-snap.1031-T1
Valid prediction for GlimmerHMM_glimmerT_40243-T1
Couldn't classify 95390, 95539
Sorry, prediction pasa_asmbl_19492.p1 fails validation.
(GGG)	 AG	95390-95539	GT	AGG
(ACC)	 AG	96251-96442	GT	GTG
(GAC)	 AG	96524-96593	GT	AGG
(ACG)	 AG	96688-96786	GT	TGG
(AGC)	 AG	98045-98102	GT	CTG
(GTA)	 AG	98826-98898	GT	AGG
(GCA)	 AG	99632-99827	GT	AGG
(AGC)	 AG	100777-100898	GT	AGG
(GTC)	 AG	101161-101294	GT	AGG
(CTA)	 AG	101419-101538	GT	TTG
(TCA)	 AG	102133-102301	GA	AGG
-recovered pasa_asmbl_19492.p1, terminal, 102133, 102301
-recovered pasa_asmbl_19492.p1, internal, 95390, 95539
-recovered pasa_asmbl_19492.p1, internal, 96251, 96442
-recovered pasa_asmbl_19492.p1, internal, 96524, 96593
-recovered pasa_asmbl_19492.p1, internal, 96688, 96786
-recovered pasa_asmbl_19492.p1, internal, 98045, 98102
-recovered pasa_asmbl_19492.p1, internal, 98826, 98898
-recovered pasa_asmbl_19492.p1, internal, 99632, 99827
-recovered pasa_asmbl_19492.p1, internal, 100777, 100898
-recovered pasa_asmbl_19492.p1, internal, 101161, 101294
-recovered pasa_asmbl_19492.p1, internal, 101419, 101538
Valid prediction for GlimmerHMM_glimmerT_40236-T1
Valid prediction for snap_scaffold_17-snap.992-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_17-snap.1021-T1
Valid prediction for GlimmerHMM_glimmerT_40226-T1
Valid prediction for GlimmerHMM_glimmerT_40234-T1
Valid prediction for snap_scaffold_17-snap.1028-T1
Couldn't classify 87179, 87209
Couldn't classify 90541, 90638
Sorry, prediction pasa_asmbl_18801.p1 fails validation.
(TCT)	 AT	87179-87209	GT	TGG
(ATG)	 AG	87347-87417	GT	AGG
(TTT)	 AG	87507-87648	GT	AGG
(CTG)	 AG	88747-88824	GT	AGG
(TTC)	 AG	89147-89211	GT	AAG
(TTT)	 AG	89344-89413	GT	AGG
(AGG)	 AG	89874-90020	GT	AGG
(ATG)	 AG	90244-90339	GT	AGG
(GTG)	 AG	90541-90638	GT	AGG
-recovered pasa_asmbl_18801.p1, initial, 87347, 87417
-recovered pasa_asmbl_18801.p1, initial, 90244, 90339
-recovered pasa_asmbl_18801.p1, internal, 87347, 87417
-recovered pasa_asmbl_18801.p1, internal, 87507, 87648
-recovered pasa_asmbl_18801.p1, internal, 88747, 88824
-recovered pasa_asmbl_18801.p1, internal, 89147, 89211
-recovered pasa_asmbl_18801.p1, internal, 89344, 89413
-recovered pasa_asmbl_18801.p1, internal, 89874, 90020
-recovered pasa_asmbl_18801.p1, internal, 90244, 90339
-recovered pasa_asmbl_18801.p1, internal, 90541, 90638
Valid prediction for snap_scaffold_17-snap.1003-T1
Valid prediction for Augustus_model.g26796.t1
Valid prediction for snap_scaffold_17-snap.1001-T1
Valid prediction for GlimmerHMM_glimmerT_40237-T1
Valid prediction for snap_scaffold_17-snap.1029-T1
Valid prediction for HiQ_model.g26790.t1
Valid prediction for GlimmerHMM_glimmerT_40246-T1
Valid prediction for snap_scaffold_17-snap.1016-T1
Valid prediction for snap_scaffold_17-snap.1006-T1
Valid prediction for snap_scaffold_17-snap.995-T1
Valid prediction for snap_scaffold_17-snap.1010-T1
Valid prediction for snap_scaffold_17-snap.1014-T1
Valid prediction for Augustus_model.g26793.t1
Valid prediction for pasa_asmbl_18800.p1
Valid prediction for snap_scaffold_17-snap.993-T1
Valid prediction for GlimmerHMM_glimmerT_40222-T1
Valid prediction for snap_scaffold_17-snap.1023-T1
Valid prediction for GlimmerHMM_glimmerT_40223-T1
Valid prediction for GlimmerHMM_glimmerT_40232-T1
Valid prediction for snap_scaffold_17-snap.1020-T1
Valid prediction for snap_scaffold_17-snap.1005-T1
Valid prediction for CodingQuarry_transcript_21966-T1
Valid prediction for snap_scaffold_17-snap.1004-T1
Valid prediction for Augustus_model.g26794.t1
Valid prediction for HiQ_model.g26789.t1
Valid prediction for snap_scaffold_17-snap.1000-T1
Valid prediction for HiQ_model.g26787.t1
Valid prediction for snap_scaffold_17-snap.1019-T1
Valid prediction for GlimmerHMM_glimmerT_40231-T1
Valid prediction for snap_scaffold_17-snap.998-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_40233-T1
Valid prediction for snap_scaffold_17-snap.994-T1
Valid prediction for GlimmerHMM_glimmerT_40247-T1
Valid prediction for snap_scaffold_17-snap.999-T1
Valid prediction for snap_scaffold_17-snap.1018-T1
Valid prediction for snap_scaffold_17-snap.1015-T1
Valid prediction for Augustus_model.g26792.t1
Valid prediction for CodingQuarry_transcript_21963-T1
Valid prediction for snap_scaffold_17-snap.1025-T1
Valid prediction for GlimmerHMM_glimmerT_40241-T1
Valid prediction for Augustus_model.g26800.t1
Valid prediction for GlimmerHMM_glimmerT_40228-T1
Valid prediction for snap_scaffold_17-snap.1002-T1
Valid prediction for GlimmerHMM_glimmerT_40227-T1
Valid prediction for snap_scaffold_17-snap.996-T1
Valid prediction for GlimmerHMM_glimmerT_40229-T1
Valid prediction for snap_scaffold_17-snap.1027-T1
Valid prediction for Augustus_model.g26798.t1
Valid prediction for snap_scaffold_17-snap.1007-T1
Valid prediction for Augustus_model.g26797.t1
Valid prediction for Augustus_model.g26795.t1
Valid prediction for Augustus_model.g26791.t1
Valid prediction for GlimmerHMM_glimmerT_40224-T1
Valid prediction for GlimmerHMM_glimmerT_40242-T1
Valid prediction for snap_scaffold_17-snap.997-T1
Valid prediction for snap_scaffold_17-snap.1013-T1
Valid prediction for snap_scaffold_17-snap.1024-T1
Valid prediction for snap_scaffold_17-snap.1026-T1
Valid prediction for snap_scaffold_17-snap.1022-T1
Valid prediction for snap_scaffold_17-snap.1017-T1
Valid prediction for snap_scaffold_17-snap.1009-T1
Valid prediction for GlimmerHMM_glimmerT_40239-T1
Valid prediction for Augustus_model.g26799.t1
Valid prediction for GlimmerHMM_glimmerT_40238-T1
Valid prediction for snap_scaffold_17-snap.1030-T1
Valid prediction for pasa_asmbl_17890.p1
Valid prediction for pasa_asmbl_17892.p1
Valid prediction for HiQ_model.g26788.t1
Valid prediction for GlimmerHMM_glimmerT_40235-T1
Valid prediction for Augustus_model.g26801.t1
Valid prediction for snap_scaffold_17-snap.1012-T1
Sorry, intron length (9) 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: 70219, rend_intergenic: 53392  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102301, rend_intergenic: 98740  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114694, rend_intergenic: 108967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121506, rend_intergenic: 115208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134490, rend_intergenic: 124814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139356, rend_intergenic: 134518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153200, rend_intergenic: 143183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160000, rend_intergenic: 154565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163155, rend_intergenic: 161510  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176906, rend_intergenic: 175548  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177945, rend_intergenic: 176956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204096, rend_intergenic: 201482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218387, rend_intergenic: 211689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 220965
-exon list size: 349


building trellis

0.3    
0.6    
0.9    
1.1    
1.4    
1.7    
2.0    
2.3    
2.6    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.6    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.6    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.5    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.5    
12.8    
13.1    
13.4    
13.7    
14.0    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.2    
16.5    
16.8    
17.1    
17.4    
17.7    
17.9    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.6    
23.9    
24.2    
24.5    
24.8    
25.1    
25.4    
25.6    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.3    
29.6    
29.9    
30.2    
30.5    
30.8    
31.1    
31.3    
31.6    
31.9    
32.2    
32.5    
32.8    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.4    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.1    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.9    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.2    
67.5    
67.8    
68.1    
68.4    
68.7    
68.9    
69.2    
69.5    
69.8    
70.1    
70.4    
70.7    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.4    
74.6    
74.9    
75.2    
75.5    
75.8    
76.1    
76.4    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.1    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.0    
86.3    
86.6    
86.9    
87.2    
87.5    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.5    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.4    
93.7    
94.0    
94.3    
94.6    
94.9    
95.2    
95.4    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.4    
97.7    
98.0    
98.3    
98.6    
98.9    
99.1    
99.4    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 70219, rend_intergenic: 53392  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102301, rend_intergenic: 98740  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114694, rend_intergenic: 108967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121506, rend_intergenic: 115208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134490, rend_intergenic: 124814  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139356, rend_intergenic: 134518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153200, rend_intergenic: 143183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160000, rend_intergenic: 154565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163155, rend_intergenic: 161510  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176906, rend_intergenic: 175548  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177945, rend_intergenic: 176956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204096, rend_intergenic: 201482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218387, rend_intergenic: 211689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support