-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_19/scaffold_19_1379331-1589519

-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 Augustus_model.g28972.t1
Valid prediction for pasa_asmbl_21246.p2
Valid prediction for GlimmerHMM_glimmerT_43627-T1
Valid prediction for CodingQuarry_transcript_25595-T1
Valid prediction for snap_scaffold_19-snap.334-T1
Valid prediction for snap_scaffold_19-snap.330-T1
Valid prediction for GlimmerHMM_glimmerT_43630-T1
Valid prediction for Augustus_model.g28970.t1
Valid prediction for snap_scaffold_19-snap.346-T1
Valid prediction for snap_scaffold_19-snap.320-T1
Couldn't classify 83675, 84106
Sorry, prediction pasa_asmbl_21235.p1 fails validation.
(TGC)	 TC	83675-84106	GT	CTG
Valid prediction for pasa_asmbl_21247.p1
Couldn't classify 101082, 101417
Sorry, prediction pasa_asmbl_21236.p2 fails validation.
(CTG)	 GC	101082-101417	CT	AGC
Valid prediction for snap_scaffold_19-snap.325-T1
Valid prediction for snap_scaffold_19-snap.332-T1
Valid prediction for HiQ_model.g28974.t1
Valid prediction for GlimmerHMM_glimmerT_43628-T1
Valid prediction for GlimmerHMM_glimmerT_43617-T1
Valid prediction for Augustus_model.g28977.t1
Valid prediction for Augustus_model.g28973.t1
Valid prediction for GlimmerHMM_glimmerT_43623-T1
Valid prediction for GlimmerHMM_glimmerT_43609-T1
Valid prediction for GlimmerHMM_glimmerT_43621-T1
Valid prediction for snap_scaffold_19-snap.318-T1
Valid prediction for snap_scaffold_19-snap.337-T1
Valid prediction for GlimmerHMM_glimmerT_43622-T1
Valid prediction for snap_scaffold_19-snap.323-T1
Valid prediction for Augustus_model.g28969.t1
Valid prediction for Augustus_model.g28968.t1
Valid prediction for GlimmerHMM_glimmerT_43610-T1
Valid prediction for snap_scaffold_19-snap.309-T1
Valid prediction for snap_scaffold_19-snap.316-T1
Valid prediction for GlimmerHMM_glimmerT_43629-T1
Valid prediction for GlimmerHMM_glimmerT_43611-T1
Valid prediction for GlimmerHMM_glimmerT_43614-T1
Valid prediction for GlimmerHMM_glimmerT_43620-T1
Valid prediction for snap_scaffold_19-snap.310-T1
Valid prediction for snap_scaffold_19-snap.336-T1
Sorry, intron length (4) is less than minimum required (10)
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for snap_scaffold_19-snap.339-T1
Valid prediction for snap_scaffold_19-snap.307-T1
Valid prediction for Augustus_model.g28975.t1
Valid prediction for GlimmerHMM_glimmerT_43616-T1
Valid prediction for snap_scaffold_19-snap.347-T1
Valid prediction for snap_scaffold_19-snap.343-T1
Valid prediction for snap_scaffold_19-snap.331-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_43624-T1
Valid prediction for snap_scaffold_19-snap.317-T1
Valid prediction for GlimmerHMM_glimmerT_43626-T1
Valid prediction for snap_scaffold_19-snap.333-T1
Valid prediction for snap_scaffold_19-snap.335-T1
Valid prediction for Augustus_model.g28976.t1
Valid prediction for snap_scaffold_19-snap.341-T1
Valid prediction for snap_scaffold_19-snap.344-T1
Valid prediction for snap_scaffold_19-snap.311-T1
Valid prediction for GlimmerHMM_glimmerT_43613-T1
Valid prediction for GlimmerHMM_glimmerT_43631-T1
Valid prediction for snap_scaffold_19-snap.342-T1
Valid prediction for snap_scaffold_19-snap.306-T1
Valid prediction for snap_scaffold_19-snap.328-T1
Valid prediction for snap_scaffold_19-snap.327-T1
Valid prediction for snap_scaffold_19-snap.326-T1
Valid prediction for GlimmerHMM_glimmerT_43606-T1
Valid prediction for snap_scaffold_19-snap.319-T1
Valid prediction for snap_scaffold_19-snap.312-T1
Valid prediction for snap_scaffold_19-snap.308-T1
Valid prediction for snap_scaffold_19-snap.321-T1
Valid prediction for snap_scaffold_19-snap.345-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_19-snap.338-T1
Valid prediction for GlimmerHMM_glimmerT_43615-T1
Valid prediction for snap_scaffold_19-snap.305-T1
Valid prediction for snap_scaffold_19-snap.340-T1
Valid prediction for Augustus_model.g28967.t1
Valid prediction for snap_scaffold_19-snap.313-T1
Valid prediction for GlimmerHMM_glimmerT_43625-T1
Valid prediction for GlimmerHMM_glimmerT_43607-T1
Valid prediction for GlimmerHMM_glimmerT_43619-T1
Valid prediction for snap_scaffold_19-snap.322-T1
Valid prediction for GlimmerHMM_glimmerT_43608-T1
Valid prediction for Augustus_model.g28971.t1
Valid prediction for snap_scaffold_19-snap.314-T1
Valid prediction for snap_scaffold_19-snap.329-T1
Valid prediction for GlimmerHMM_glimmerT_43618-T1
Valid prediction for GlimmerHMM_glimmerT_43612-T1
Valid prediction for snap_scaffold_19-snap.324-T1
Valid prediction for snap_scaffold_19-snap.315-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16765, rend_intergenic: 11082  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43555, rend_intergenic: 21870  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45560, rend_intergenic: 43573  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69327, rend_intergenic: 62156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78988, rend_intergenic: 73369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84136, rend_intergenic: 81695  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89164, rend_intergenic: 87213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96753, rend_intergenic: 91697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109673, rend_intergenic: 97142  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116348, rend_intergenic: 114151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145583, rend_intergenic: 142752  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148687, rend_intergenic: 147057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153553, rend_intergenic: 149558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163518, rend_intergenic: 158879  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194772, rend_intergenic: 186994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198409, rend_intergenic: 197865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 210189
-exon list size: 328


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    
5.2    
5.5    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
7.9    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.3    
13.6    
13.9    
14.2    
14.5    
14.8    
15.2    
15.5    
15.8    
16.1    
16.4    
16.7    
17.0    
17.3    
17.6    
17.9    
18.2    
18.5    
18.8    
19.1    
19.4    
19.7    
20.0    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
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    
35.2    
35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.7    
40.0    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
60.0    
60.3    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
64.8    
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    
75.2    
75.5    
75.8    
76.1    
76.4    
76.7    
77.0    
77.3    
77.6    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
80.0    
80.3    
80.6    
80.9    
81.2    
81.5    
81.8    
82.1    
82.4    
82.7    
83.0    
83.3    
83.6    
83.9    
84.2    
84.5    
84.8    
85.2    
85.5    
85.8    
86.1    
86.4    
86.7    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
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 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 16765, rend_intergenic: 11082  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43555, rend_intergenic: 21870  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45560, rend_intergenic: 43573  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69327, rend_intergenic: 62156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78988, rend_intergenic: 73369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84136, rend_intergenic: 81695  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89164, rend_intergenic: 87213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96753, rend_intergenic: 91697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109673, rend_intergenic: 97142  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116348, rend_intergenic: 114151  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145583, rend_intergenic: 142752  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148687, rend_intergenic: 147057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153553, rend_intergenic: 149558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163518, rend_intergenic: 158879  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194772, rend_intergenic: 186994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198409, rend_intergenic: 197865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 199517 - 210189
-exon list size: 7


building trellis

11.1    
22.2    
33.3    
44.4    
55.6    
66.7    
77.8    
88.9    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 199777 - 210189
-exon list size: 5


building trellis

14.3    
28.6    
42.9    
57.1    
71.4    
85.7    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support