-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_14633258-14754391

-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 GlimmerHMM_glimmerT_41549-T1
Valid prediction for GlimmerHMM_glimmerT_41546-T1
Valid prediction for GlimmerHMM_glimmerT_41532-T1
Valid prediction for snap_scaffold_17-snap.3057-T1
Valid prediction for snap_scaffold_17-snap.3051-T1
Valid prediction for GlimmerHMM_glimmerT_41537-T1
Valid prediction for GlimmerHMM_glimmerT_41535-T1
Valid prediction for snap_scaffold_17-snap.3073-T1
Valid prediction for GlimmerHMM_glimmerT_41538-T1
Valid prediction for snap_scaffold_17-snap.3061-T1
Valid prediction for pasa_asmbl_19422.p1
Valid prediction for snap_scaffold_17-snap.3062-T1
Valid prediction for GlimmerHMM_glimmerT_41540-T1
Valid prediction for snap_scaffold_17-snap.3060-T1
Valid prediction for GlimmerHMM_glimmerT_41544-T1
Valid prediction for snap_scaffold_17-snap.3053-T1
Valid prediction for snap_scaffold_17-snap.3047-T1
Valid prediction for GlimmerHMM_glimmerT_41547-T1
Valid prediction for snap_scaffold_17-snap.3068-T1
Valid prediction for snap_scaffold_17-snap.3065-T1
Couldn't classify 96218, 97354
Sorry, prediction pasa_asmbl_19423.p1 fails validation.
(ATG)	 AG	95390-95638	GT	AGG
(GTC)	 AG	96218-97354	GG	GAG
-recovered pasa_asmbl_19423.p1, initial, 95390, 95638
-recovered pasa_asmbl_19423.p1, internal, 95390, 95638
Valid prediction for snap_scaffold_17-snap.3063-T1
Valid prediction for snap_scaffold_17-snap.3059-T1
Valid prediction for snap_scaffold_17-snap.3070-T1
Valid prediction for snap_scaffold_17-snap.3048-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: -)Couldn't classify 109800, 109827
Couldn't classify 111025, 111098
Sorry, prediction pasa_asmbl_18470.p1 fails validation.
(AAG)	 CA	109800-109827	GT	TGG
(GCG)	 AG	110369-110481	GT	ACG
(AGG)	 AG	110723-110840	GT	ATG
(TCA)	 AG	111025-111098	GG	TTG
-recovered pasa_asmbl_18470.p1, internal, 110369, 110481
-recovered pasa_asmbl_18470.p1, internal, 110723, 110840
Valid prediction for GlimmerHMM_glimmerT_41543-T1
Valid prediction for snap_scaffold_17-snap.3066-T1
Valid prediction for snap_scaffold_17-snap.3067-T1
Valid prediction for GlimmerHMM_glimmerT_41548-T1
Valid prediction for GlimmerHMM_glimmerT_41545-T1
Couldn't classify 33039, 33148
Couldn't classify 33942, 34044
Sorry, prediction pasa_asmbl_18449.p3 fails validation.
(CAG)	 GG	33039-33148	GT	AAG
(GCT)	 AG	33526-33708	GT	AGG
(GGG)	 AG	33942-34044	CT	ACC
-recovered pasa_asmbl_18449.p3, internal, 33526, 33708
Valid prediction for snap_scaffold_17-snap.3046-T1
Valid prediction for GlimmerHMM_glimmerT_41534-T1
Valid prediction for GlimmerHMM_glimmerT_41536-T1
Valid prediction for snap_scaffold_17-snap.3071-T1
Valid prediction for snap_scaffold_17-snap.3055-T1
Valid prediction for GlimmerHMM_glimmerT_41542-T1
Valid prediction for snap_scaffold_17-snap.3069-T1
Valid prediction for pasa_asmbl_18499.p1
Valid prediction for GlimmerHMM_glimmerT_41539-T1
Couldn't classify 37885, 38409
Sorry, prediction pasa_asmbl_18446.p1 fails validation.
(TCC)	 CT	37885-38409	AC	GAA
Valid prediction for snap_scaffold_17-snap.3050-T1
Valid prediction for snap_scaffold_17-snap.3056-T1
Valid prediction for CodingQuarry_transcript_22271-T1
Valid prediction for snap_scaffold_17-snap.3058-T1
Valid prediction for pasa_asmbl_18444.p1
Valid prediction for snap_scaffold_17-snap.3054-T1
Valid prediction for GlimmerHMM_glimmerT_41533-T1
Valid prediction for snap_scaffold_17-snap.3052-T1
Valid prediction for GlimmerHMM_glimmerT_41550-T1
Valid prediction for GlimmerHMM_glimmerT_41552-T1
Valid prediction for GlimmerHMM_glimmerT_41551-T1
Valid prediction for GlimmerHMM_glimmerT_41541-T1
Valid prediction for snap_scaffold_17-snap.3064-T1
Valid prediction for snap_scaffold_17-snap.3072-T1
Valid prediction for CodingQuarry_transcript_22270-T1
Valid prediction for snap_scaffold_17-snap.3049-T1
Valid prediction for snap_scaffold_17-snap.3074-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12284, rend_intergenic: 2649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20116, rend_intergenic: 15841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27029, rend_intergenic: 22761  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37530, rend_intergenic: 27096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56261, rend_intergenic: 53046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57555, rend_intergenic: 56347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78881, rend_intergenic: 57655  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85242, rend_intergenic: 85074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90308, rend_intergenic: 85269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97534, rend_intergenic: 95390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104358, rend_intergenic: 101949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110051, rend_intergenic: 107733  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119518, rend_intergenic: 110051  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 121134
-exon list size: 231


building trellis

0.4    
0.9    
1.3    
1.7    
2.1    
2.6    
3.0    
3.4    
3.9    
4.3    
4.7    
5.2    
5.6    
6.0    
6.4    
6.9    
7.3    
7.7    
8.2    
8.6    
9.0    
9.4    
9.9    
10.3    
10.7    
11.2    
11.6    
12.0    
12.4    
12.9    
13.3    
13.7    
14.2    
14.6    
15.0    
15.5    
15.9    
16.3    
16.7    
17.2    
17.6    
18.0    
18.5    
18.9    
19.3    
19.7    
20.2    
20.6    
21.0    
21.5    
21.9    
22.3    
22.7    
23.2    
23.6    
24.0    
24.5    
24.9    
25.3    
25.8    
26.2    
26.6    
27.0    
27.5    
27.9    
28.3    
28.8    
29.2    
29.6    
30.0    
30.5    
30.9    
31.3    
31.8    
32.2    
32.6    
33.0    
33.5    
33.9    
34.3    
34.8    
35.2    
35.6    
36.1    
36.5    
36.9    
37.3    
37.8    
38.2    
38.6    
39.1    
39.5    
39.9    
40.3    
40.8    
41.2    
41.6    
42.1    
42.5    
42.9    
43.3    
43.8    
44.2    
44.6    
45.1    
45.5    
45.9    
46.4    
46.8    
47.2    
47.6    
48.1    
48.5    
48.9    
49.4    
49.8    
50.2    
50.6    
51.1    
51.5    
51.9    
52.4    
52.8    
53.2    
53.6    
54.1    
54.5    
54.9    
55.4    
55.8    
56.2    
56.7    
57.1    
57.5    
57.9    
58.4    
58.8    
59.2    
59.7    
60.1    
60.5    
60.9    
61.4    
61.8    
62.2    
62.7    
63.1    
63.5    
63.9    
64.4    
64.8    
65.2    
65.7    
66.1    
66.5    
67.0    
67.4    
67.8    
68.2    
68.7    
69.1    
69.5    
70.0    
70.4    
70.8    
71.2    
71.7    
72.1    
72.5    
73.0    
73.4    
73.8    
74.2    
74.7    
75.1    
75.5    
76.0    
76.4    
76.8    
77.3    
77.7    
78.1    
78.5    
79.0    
79.4    
79.8    
80.3    
80.7    
81.1    
81.5    
82.0    
82.4    
82.8    
83.3    
83.7    
84.1    
84.5    
85.0    
85.4    
85.8    
86.3    
86.7    
87.1    
87.6    
88.0    
88.4    
88.8    
89.3    
89.7    
90.1    
90.6    
91.0    
91.4    
91.8    
92.3    
92.7    
93.1    
93.6    
94.0    
94.4    
94.8    
95.3    
95.7    
96.1    
96.6    
97.0    
97.4    
97.9    
98.3    
98.7    
99.1    
99.6    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 12284, rend_intergenic: 2649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20116, rend_intergenic: 15841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27029, rend_intergenic: 22761  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37530, rend_intergenic: 27096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56261, rend_intergenic: 53046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57555, rend_intergenic: 56347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78881, rend_intergenic: 57655  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85242, rend_intergenic: 85074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90308, rend_intergenic: 85269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97534, rend_intergenic: 95390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104358, rend_intergenic: 101949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110051, rend_intergenic: 107733  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119518, rend_intergenic: 110051  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