-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_7839843-8022400

-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_25030-T1
Valid prediction for GlimmerHMM_glimmerT_25048-T1
Valid prediction for Augustus_model.g16683.t1
Valid prediction for GlimmerHMM_glimmerT_25040-T1
Valid prediction for snap_scaffold_10-snap.1585-T1
Valid prediction for snap_scaffold_10-snap.1576-T1
Valid prediction for snap_scaffold_10-snap.1561-T1
Valid prediction for snap_scaffold_10-snap.1586-T1
Valid prediction for GlimmerHMM_glimmerT_25037-T1
Valid prediction for snap_scaffold_10-snap.1573-T1
Valid prediction for snap_scaffold_10-snap.1578-T1
Valid prediction for Augustus_model.g16684.t1
Couldn't classify 110508, 110747
Sorry, prediction pasa_asmbl_3309.p1 fails validation.
(ATG)	 CC	106882-106980	GT	TTG
(GTT)	 AG	108424-108543	GT	AGG
(GAG)	 AG	110508-110747	CT	AGC
-recovered pasa_asmbl_3309.p1, initial, 106882, 106980
-recovered pasa_asmbl_3309.p1, internal, 108424, 108543
Valid prediction for snap_scaffold_10-snap.1581-T1
Valid prediction for snap_scaffold_10-snap.1575-T1
Valid prediction for GlimmerHMM_glimmerT_25049-T1
Valid prediction for GlimmerHMM_glimmerT_25031-T1
Valid prediction for snap_scaffold_10-snap.1560-T1
Valid prediction for GlimmerHMM_glimmerT_25044-T1
Valid prediction for snap_scaffold_10-snap.1559-T1
Valid prediction for GlimmerHMM_glimmerT_25035-T1
Valid prediction for snap_scaffold_10-snap.1572-T1
Valid prediction for GlimmerHMM_glimmerT_25042-T1
Valid prediction for GlimmerHMM_glimmerT_25033-T1
Valid prediction for Augustus_model.g16686.t1
Valid prediction for snap_scaffold_10-snap.1570-T1
Valid prediction for snap_scaffold_10-snap.1569-T1
Valid prediction for snap_scaffold_10-snap.1564-T1
Valid prediction for Augustus_model.g16680.t1
Valid prediction for snap_scaffold_10-snap.1568-T1
Valid prediction for GlimmerHMM_glimmerT_25047-T1
Valid prediction for Augustus_model.g16688.t1
Valid prediction for snap_scaffold_10-snap.1565-T1
Valid prediction for Augustus_model.g16679.t1
Valid prediction for snap_scaffold_10-snap.1588-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_10-snap.1587-T1
Valid prediction for Augustus_model.g16689.t1
Valid prediction for snap_scaffold_10-snap.1579-T1
Valid prediction for CodingQuarry_transcript_5478-T1
Valid prediction for Augustus_model.g16685.t1
Valid prediction for snap_scaffold_10-snap.1583-T1
Valid prediction for GlimmerHMM_glimmerT_25046-T1
Valid prediction for snap_scaffold_10-snap.1574-T1
Valid prediction for GlimmerHMM_glimmerT_25050-T1
Valid prediction for snap_scaffold_10-snap.1567-T1
Valid prediction for snap_scaffold_10-snap.1571-T1
Valid prediction for snap_scaffold_10-snap.1591-T1
Valid prediction for GlimmerHMM_glimmerT_25032-T1
Valid prediction for snap_scaffold_10-snap.1593-T1
Valid prediction for Augustus_model.g16687.t1
Valid prediction for HiQ_model.g16681.t1
Valid prediction for snap_scaffold_10-snap.1584-T1
Valid prediction for snap_scaffold_10-snap.1580-T1
Valid prediction for snap_scaffold_10-snap.1566-T1
Valid prediction for Augustus_model.g16682.t1
Valid prediction for GlimmerHMM_glimmerT_25041-T1
Valid prediction for GlimmerHMM_glimmerT_25043-T1
Valid prediction for GlimmerHMM_glimmerT_25034-T1
Valid prediction for snap_scaffold_10-snap.1590-T1
Valid prediction for GlimmerHMM_glimmerT_25038-T1
Valid prediction for pasa_asmbl_4566.p1
Valid prediction for snap_scaffold_10-snap.1577-T1
Valid prediction for snap_scaffold_10-snap.1563-T1
Valid prediction for GlimmerHMM_glimmerT_25039-T1
Valid prediction for GlimmerHMM_glimmerT_25036-T1
Valid prediction for snap_scaffold_10-snap.1592-T1
Valid prediction for snap_scaffold_10-snap.1582-T1
Valid prediction for snap_scaffold_10-snap.1562-T1
Valid prediction for snap_scaffold_10-snap.1589-T1
Valid prediction for GlimmerHMM_glimmerT_25045-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19104, rend_intergenic: 6063  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19534, rend_intergenic: 19402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37158, rend_intergenic: 33390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62714, rend_intergenic: 62598  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77059, rend_intergenic: 75841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79440, rend_intergenic: 77787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99771, rend_intergenic: 96693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109240, rend_intergenic: 101053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116491, rend_intergenic: 110499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120626, rend_intergenic: 116495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130525, rend_intergenic: 122858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145836, rend_intergenic: 133224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 182558
-exon list size: 266


building trellis

0.4    
0.7    
1.1    
1.5    
1.9    
2.2    
2.6    
3.0    
3.4    
3.7    
4.1    
4.5    
4.9    
5.2    
5.6    
6.0    
6.3    
6.7    
7.1    
7.5    
7.8    
8.2    
8.6    
9.0    
9.3    
9.7    
10.1    
10.4    
10.8    
11.2    
11.6    
11.9    
12.3    
12.7    
13.1    
13.4    
13.8    
14.2    
14.6    
14.9    
15.3    
15.7    
16.0    
16.4    
16.8    
17.2    
17.5    
17.9    
18.3    
18.7    
19.0    
19.4    
19.8    
20.1    
20.5    
20.9    
21.3    
21.6    
22.0    
22.4    
22.8    
23.1    
23.5    
23.9    
24.3    
24.6    
25.0    
25.4    
25.7    
26.1    
26.5    
26.9    
27.2    
27.6    
28.0    
28.4    
28.7    
29.1    
29.5    
29.9    
30.2    
30.6    
31.0    
31.3    
31.7    
32.1    
32.5    
32.8    
33.2    
33.6    
34.0    
34.3    
34.7    
35.1    
35.4    
35.8    
36.2    
36.6    
36.9    
37.3    
37.7    
38.1    
38.4    
38.8    
39.2    
39.6    
39.9    
40.3    
40.7    
41.0    
41.4    
41.8    
42.2    
42.5    
42.9    
43.3    
43.7    
44.0    
44.4    
44.8    
45.1    
45.5    
45.9    
46.3    
46.6    
47.0    
47.4    
47.8    
48.1    
48.5    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.5    
51.9    
52.2    
52.6    
53.0    
53.4    
53.7    
54.1    
54.5    
54.9    
55.2    
55.6    
56.0    
56.3    
56.7    
57.1    
57.5    
57.8    
58.2    
58.6    
59.0    
59.3    
59.7    
60.1    
60.4    
60.8    
61.2    
61.6    
61.9    
62.3    
62.7    
63.1    
63.4    
63.8    
64.2    
64.6    
64.9    
65.3    
65.7    
66.0    
66.4    
66.8    
67.2    
67.5    
67.9    
68.3    
68.7    
69.0    
69.4    
69.8    
70.1    
70.5    
70.9    
71.3    
71.6    
72.0    
72.4    
72.8    
73.1    
73.5    
73.9    
74.3    
74.6    
75.0    
75.4    
75.7    
76.1    
76.5    
76.9    
77.2    
77.6    
78.0    
78.4    
78.7    
79.1    
79.5    
79.9    
80.2    
80.6    
81.0    
81.3    
81.7    
82.1    
82.5    
82.8    
83.2    
83.6    
84.0    
84.3    
84.7    
85.1    
85.4    
85.8    
86.2    
86.6    
86.9    
87.3    
87.7    
88.1    
88.4    
88.8    
89.2    
89.6    
89.9    
90.3    
90.7    
91.0    
91.4    
91.8    
92.2    
92.5    
92.9    
93.3    
93.7    
94.0    
94.4    
94.8    
95.1    
95.5    
95.9    
96.3    
96.6    
97.0    
97.4    
97.8    
98.1    
98.5    
98.9    
99.3    
99.6    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 19104, rend_intergenic: 6063  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19534, rend_intergenic: 19402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37158, rend_intergenic: 33390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62714, rend_intergenic: 62598  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77059, rend_intergenic: 75841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79440, rend_intergenic: 77787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99771, rend_intergenic: 96693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109240, rend_intergenic: 101053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116491, rend_intergenic: 110499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120626, rend_intergenic: 116495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130525, rend_intergenic: 122858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145836, rend_intergenic: 133224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 164934 - 182558
-exon list size: 5


building trellis

14.3    
28.6    
42.9    
57.1    
71.4    
85.7    
-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