-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_7704464-7928624

-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_29621-T1
Valid prediction for snap_scaffold_12-snap.1440-T1
Valid prediction for GlimmerHMM_glimmerT_29625-T1
Valid prediction for GlimmerHMM_glimmerT_29612-T1
Valid prediction for GlimmerHMM_glimmerT_29617-T1
Valid prediction for GlimmerHMM_glimmerT_29610-T1
Valid prediction for Augustus_model.g19551.t1
Valid prediction for GlimmerHMM_glimmerT_29613-T1
Valid prediction for Augustus_model.g19564.t1
Valid prediction for Augustus_model.g19557.t1
Valid prediction for snap_scaffold_12-snap.1437-T1
Valid prediction for snap_scaffold_12-snap.1457-T1
Valid prediction for GlimmerHMM_glimmerT_29618-T1
Valid prediction for Augustus_model.g19563.t1
Valid prediction for Augustus_model.g19554.t1
Valid prediction for Augustus_model.g19552.t1
Valid prediction for GlimmerHMM_glimmerT_29631-T1
Valid prediction for GlimmerHMM_glimmerT_29629-T1
Valid prediction for snap_scaffold_12-snap.1429-T1
Valid prediction for Augustus_model.g19558.t1
Valid prediction for pasa_asmbl_7795.p1
Valid prediction for GlimmerHMM_glimmerT_29611-T1
Valid prediction for Augustus_model.g19559.t1
Valid prediction for Augustus_model.g19556.t1
Valid prediction for snap_scaffold_12-snap.1426-T1
Valid prediction for GlimmerHMM_glimmerT_29619-T1
Valid prediction for snap_scaffold_12-snap.1454-T1
Valid prediction for snap_scaffold_12-snap.1436-T1
Valid prediction for snap_scaffold_12-snap.1428-T1
Valid prediction for snap_scaffold_12-snap.1460-T1
Valid prediction for snap_scaffold_12-snap.1432-T1
Valid prediction for snap_scaffold_12-snap.1443-T1
Valid prediction for GlimmerHMM_glimmerT_29626-T1
Valid prediction for HiQ_model.g19555.t1
Valid prediction for snap_scaffold_12-snap.1424-T1
Valid prediction for snap_scaffold_12-snap.1449-T1
Valid prediction for snap_scaffold_12-snap.1446-T1
Valid prediction for GlimmerHMM_glimmerT_29620-T1
Valid prediction for Augustus_model.g19553.t1
Valid prediction for GlimmerHMM_glimmerT_29615-T1
Valid prediction for snap_scaffold_12-snap.1452-T1
Valid prediction for snap_scaffold_12-snap.1451-T1
Valid prediction for snap_scaffold_12-snap.1441-T1
Valid prediction for CodingQuarry_transcript_10307-T1
Valid prediction for snap_scaffold_12-snap.1438-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 snap_scaffold_12-snap.1425-T1
Valid prediction for snap_scaffold_12-snap.1444-T1
Valid prediction for snap_scaffold_12-snap.1453-T1
Valid prediction for GlimmerHMM_glimmerT_29630-T1
Valid prediction for GlimmerHMM_glimmerT_29624-T1
Valid prediction for snap_scaffold_12-snap.1427-T1
Valid prediction for CodingQuarry_transcript_10308-T1
Valid prediction for snap_scaffold_12-snap.1459-T1
Valid prediction for snap_scaffold_12-snap.1464-T1
Valid prediction for snap_scaffold_12-snap.1463-T1
Valid prediction for snap_scaffold_12-snap.1456-T1
Valid prediction for snap_scaffold_12-snap.1450-T1
Valid prediction for snap_scaffold_12-snap.1431-T1
Valid prediction for snap_scaffold_12-snap.1447-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_29623-T1
Valid prediction for GlimmerHMM_glimmerT_29614-T1
Valid prediction for snap_scaffold_12-snap.1430-T1
Valid prediction for GlimmerHMM_glimmerT_29627-T1
Valid prediction for GlimmerHMM_glimmerT_29616-T1
Valid prediction for snap_scaffold_12-snap.1455-T1
Valid prediction for Augustus_model.g19560.t1
Valid prediction for snap_scaffold_12-snap.1433-T1
Valid prediction for snap_scaffold_12-snap.1445-T1
Valid prediction for snap_scaffold_12-snap.1423-T1
Valid prediction for snap_scaffold_12-snap.1465-T1
Valid prediction for HiQ_model.g19562.t1
Valid prediction for snap_scaffold_12-snap.1466-T1
Valid prediction for snap_scaffold_12-snap.1458-T1
Valid prediction for snap_scaffold_12-snap.1442-T1
Valid prediction for snap_scaffold_12-snap.1439-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.1461-T1
Valid prediction for Augustus_model.g19561.t1
Valid prediction for Augustus_model.g19565.t1
Valid prediction for GlimmerHMM_glimmerT_29622-T1
Valid prediction for snap_scaffold_12-snap.1434-T1
Valid prediction for GlimmerHMM_glimmerT_29628-T1
Valid prediction for snap_scaffold_12-snap.1435-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for pasa_asmbl_8616.p1
Valid prediction for snap_scaffold_12-snap.1448-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 20502, rend_intergenic: 20431  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24608, rend_intergenic: 21153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30968, rend_intergenic: 28400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43154, rend_intergenic: 36964  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51443, rend_intergenic: 43434  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58940, rend_intergenic: 51874  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62338, rend_intergenic: 60134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79608, rend_intergenic: 75514  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87420, rend_intergenic: 85140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98505, rend_intergenic: 88414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99677, rend_intergenic: 98568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102838, rend_intergenic: 100330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109266, rend_intergenic: 107574  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115189, rend_intergenic: 109282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129822, rend_intergenic: 115314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148041, rend_intergenic: 137291  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163881, rend_intergenic: 153134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169104, rend_intergenic: 163947  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176646, rend_intergenic: 169745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 224161
-exon list size: 363


building trellis

0.3    
0.5    
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1.1    
1.4    
1.6    
1.9    
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3.6    
3.8    
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4.4    
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4.9    
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5.5    
5.8    
6.0    
6.3    
6.6    
6.8    
7.1    
7.4    
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7.9    
8.2    
8.5    
8.8    
9.0    
9.3    
9.6    
9.9    
10.1    
10.4    
10.7    
11.0    
11.2    
11.5    
11.8    
12.1    
12.3    
12.6    
12.9    
13.2    
13.4    
13.7    
14.0    
14.2    
14.5    
14.8    
15.1    
15.3    
15.6    
15.9    
16.2    
16.4    
16.7    
17.0    
17.3    
17.5    
17.8    
18.1    
18.4    
18.6    
18.9    
19.2    
19.5    
19.7    
20.0    
20.3    
20.5    
20.8    
21.1    
21.4    
21.6    
21.9    
22.2    
22.5    
22.7    
23.0    
23.3    
23.6    
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24.1    
24.4    
24.7    
24.9    
25.2    
25.5    
25.8    
26.0    
26.3    
26.6    
26.8    
27.1    
27.4    
27.7    
27.9    
28.2    
28.5    
28.8    
29.0    
29.3    
29.6    
29.9    
30.1    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.1    
32.3    
32.6    
32.9    
33.2    
33.4    
33.7    
34.0    
34.2    
34.5    
34.8    
35.1    
35.3    
35.6    
35.9    
36.2    
36.4    
36.7    
37.0    
37.3    
37.5    
37.8    
38.1    
38.4    
38.6    
38.9    
39.2    
39.5    
39.7    
40.0    
40.3    
40.5    
40.8    
41.1    
41.4    
41.6    
41.9    
42.2    
42.5    
42.7    
43.0    
43.3    
43.6    
43.8    
44.1    
44.4    
44.7    
44.9    
45.2    
45.5    
45.8    
46.0    
46.3    
46.6    
46.8    
47.1    
47.4    
47.7    
47.9    
48.2    
48.5    
48.8    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.2    
51.5    
51.8    
52.1    
52.3    
52.6    
52.9    
53.2    
53.4    
53.7    
54.0    
54.2    
54.5    
54.8    
55.1    
55.3    
55.6    
55.9    
56.2    
56.4    
56.7    
57.0    
57.3    
57.5    
57.8    
58.1    
58.4    
58.6    
58.9    
59.2    
59.5    
59.7    
60.0    
60.3    
60.5    
60.8    
61.1    
61.4    
61.6    
61.9    
62.2    
62.5    
62.7    
63.0    
63.3    
63.6    
63.8    
64.1    
64.4    
64.7    
64.9    
65.2    
65.5    
65.8    
66.0    
66.3    
66.6    
66.8    
67.1    
67.4    
67.7    
67.9    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.9    
70.1    
70.4    
70.7    
71.0    
71.2    
71.5    
71.8    
72.1    
72.3    
72.6    
72.9    
73.2    
73.4    
73.7    
74.0    
74.2    
74.5    
74.8    
75.1    
75.3    
75.6    
75.9    
76.2    
76.4    
76.7    
77.0    
77.3    
77.5    
77.8    
78.1    
78.4    
78.6    
78.9    
79.2    
79.5    
79.7    
80.0    
80.3    
80.5    
80.8    
81.1    
81.4    
81.6    
81.9    
82.2    
82.5    
82.7    
83.0    
83.3    
83.6    
83.8    
84.1    
84.4    
84.7    
84.9    
85.2    
85.5    
85.8    
86.0    
86.3    
86.6    
86.8    
87.1    
87.4    
87.7    
87.9    
88.2    
88.5    
88.8    
89.0    
89.3    
89.6    
89.9    
90.1    
90.4    
90.7    
91.0    
91.2    
91.5    
91.8    
92.1    
92.3    
92.6    
92.9    
93.2    
93.4    
93.7    
94.0    
94.2    
94.5    
94.8    
95.1    
95.3    
95.6    
95.9    
96.2    
96.4    
96.7    
97.0    
97.3    
97.5    
97.8    
98.1    
98.4    
98.6    
98.9    
99.2    
99.5    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 20502, rend_intergenic: 20431  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24608, rend_intergenic: 21153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30968, rend_intergenic: 28400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43154, rend_intergenic: 36964  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51443, rend_intergenic: 43434  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58940, rend_intergenic: 51874  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62338, rend_intergenic: 60134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79608, rend_intergenic: 75514  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87420, rend_intergenic: 85140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98505, rend_intergenic: 88414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99677, rend_intergenic: 98568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102838, rend_intergenic: 100330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109266, rend_intergenic: 107574  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115189, rend_intergenic: 109282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129822, rend_intergenic: 115314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148041, rend_intergenic: 137291  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163881, rend_intergenic: 153134  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169104, rend_intergenic: 163947  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176646, rend_intergenic: 169745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 204570 - 224161
-exon list size: 10


building trellis

8.3    
16.7    
25.0    
33.3    
41.7    
50.0    
58.3    
66.7    
75.0    
83.3    
91.7    
-found 1 predictions from path traversal

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

-building DP trellis

-building trellis in range 211016 - 224161
-exon list size: 8


building trellis

10.0    
20.0    
30.0    
40.0    
50.0    
60.0    
70.0    
80.0    
90.0    
-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