-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_7927018-8182473

-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_29654-T1
Valid prediction for GlimmerHMM_glimmerT_29650-T1
Valid prediction for GlimmerHMM_glimmerT_29659-T1
Valid prediction for GlimmerHMM_glimmerT_29641-T1
Valid prediction for snap_scaffold_12-snap.1471-T1
Valid prediction for CodingQuarry_transcript_10309-T1
Valid prediction for Augustus_model.g19584.t1
Valid prediction for snap_scaffold_12-snap.1509-T1
Valid prediction for CodingQuarry_transcript_10310-T1
Valid prediction for pasa_asmbl_7804.p1
Valid prediction for snap_scaffold_12-snap.1506-T1
Valid prediction for GlimmerHMM_glimmerT_29644-T1
Valid prediction for snap_scaffold_12-snap.1482-T1
Valid prediction for GlimmerHMM_glimmerT_29648-T1
Valid prediction for GlimmerHMM_glimmerT_29647-T1
Valid prediction for snap_scaffold_12-snap.1495-T1
Valid prediction for snap_scaffold_12-snap.1501-T1
Valid prediction for snap_scaffold_12-snap.1508-T1
Valid prediction for pasa_asmbl_7811.p1
Valid prediction for snap_scaffold_12-snap.1497-T1
Valid prediction for snap_scaffold_12-snap.1473-T1
Valid prediction for snap_scaffold_12-snap.1491-T1
Valid prediction for GlimmerHMM_glimmerT_29651-T1
Valid prediction for snap_scaffold_12-snap.1505-T1
Valid prediction for Augustus_model.g19575.t1
Valid prediction for GlimmerHMM_glimmerT_29636-T1
Valid prediction for Augustus_model.g19582.t1
Valid prediction for Augustus_model.g19572.t1
Valid prediction for snap_scaffold_12-snap.1485-T1
Valid prediction for Augustus_model.g19588.t1
Valid prediction for GlimmerHMM_glimmerT_29645-T1
Valid prediction for snap_scaffold_12-snap.1484-T1
Valid prediction for GlimmerHMM_glimmerT_29658-T1
Valid prediction for snap_scaffold_12-snap.1472-T1
Valid prediction for snap_scaffold_12-snap.1511-T1
Valid prediction for Augustus_model.g19578.t1
Valid prediction for snap_scaffold_12-snap.1513-T1
Valid prediction for Augustus_model.g19571.t1
Valid prediction for snap_scaffold_12-snap.1489-T1
Valid prediction for GlimmerHMM_glimmerT_29660-T1
Valid prediction for HiQ_model.g19568.t1
Valid prediction for snap_scaffold_12-snap.1490-T1
Valid prediction for Augustus_model.g19586.t1
Valid prediction for snap_scaffold_12-snap.1504-T1
Valid prediction for Augustus_model.g19574.t1
Valid prediction for snap_scaffold_12-snap.1493-T1
Valid prediction for snap_scaffold_12-snap.1478-T1
Valid prediction for Augustus_model.g19580.t1
Valid prediction for snap_scaffold_12-snap.1486-T1
Valid prediction for GlimmerHMM_glimmerT_29634-T1
Valid prediction for GlimmerHMM_glimmerT_29657-T1
Valid prediction for Augustus_model.g19577.t1
Couldn't classify 46658, 46734
Couldn't classify 46918, 47084
Sorry, prediction CodingQuarry_transcript_10311-T1 fails validation.
(ATG)	 TG	45859-46020	GT	AGG
(GTG)	 AG	46203-46321	GT	CGG
(GTT)	 AG	46423-46533	GT	GGG
(GAA)	 AG	46658-46734	TG	GGT
(TGC)	 GT	46918-47084	CA	AGC
-recovered CodingQuarry_transcript_10311-T1, initial, 45859, 46020
-recovered CodingQuarry_transcript_10311-T1, internal, 46203, 46321
-recovered CodingQuarry_transcript_10311-T1, internal, 46423, 46533
Valid prediction for snap_scaffold_12-snap.1492-T1
Valid prediction for GlimmerHMM_glimmerT_29633-T1
Valid prediction for Augustus_model.g19576.t1
Valid prediction for snap_scaffold_12-snap.1476-T1
Valid prediction for pasa_asmbl_7798.p1
Valid prediction for snap_scaffold_12-snap.1496-T1
Valid prediction for HiQ_model.g19569.t1
Valid prediction for GlimmerHMM_glimmerT_29661-T1
Valid prediction for snap_scaffold_12-snap.1510-T1
Valid prediction for Augustus_model.g19585.t1
Valid prediction for GlimmerHMM_glimmerT_29649-T1
Valid prediction for GlimmerHMM_glimmerT_29655-T1
Valid prediction for Augustus_model.g19573.t1
Valid prediction for snap_scaffold_12-snap.1503-T1
Valid prediction for snap_scaffold_12-snap.1515-T1
Valid prediction for GlimmerHMM_glimmerT_29638-T1
Valid prediction for snap_scaffold_12-snap.1502-T1
Valid prediction for snap_scaffold_12-snap.1481-T1
Valid prediction for snap_scaffold_12-snap.1483-T1
Valid prediction for Augustus_model.g19579.t1
Valid prediction for snap_scaffold_12-snap.1498-T1
Valid prediction for Augustus_model.g19583.t1
Valid prediction for GlimmerHMM_glimmerT_29639-T1
Valid prediction for GlimmerHMM_glimmerT_29653-T1
Valid prediction for GlimmerHMM_glimmerT_29652-T1
Valid prediction for Augustus_model.g19567.t1
Valid prediction for snap_scaffold_12-snap.1488-T1
Valid prediction for GlimmerHMM_glimmerT_29646-T1
Valid prediction for Augustus_model.g19566.t1
Valid prediction for snap_scaffold_12-snap.1469-T1
Valid prediction for snap_scaffold_12-snap.1494-T1
Valid prediction for snap_scaffold_12-snap.1507-T1
Valid prediction for snap_scaffold_12-snap.1477-T1
Valid prediction for snap_scaffold_12-snap.1487-T1
Valid prediction for GlimmerHMM_glimmerT_29656-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_29637-T1
Valid prediction for snap_scaffold_12-snap.1512-T1
Valid prediction for snap_scaffold_12-snap.1480-T1
Valid prediction for snap_scaffold_12-snap.1475-T1
Valid prediction for snap_scaffold_12-snap.1514-T1
Valid prediction for snap_scaffold_12-snap.1470-T1
Valid prediction for snap_scaffold_12-snap.1468-T1
Valid prediction for snap_scaffold_12-snap.1474-T1
Valid prediction for GlimmerHMM_glimmerT_29643-T1
Valid prediction for Augustus_model.g19570.t1
Valid prediction for GlimmerHMM_glimmerT_29642-T1
Valid prediction for GlimmerHMM_glimmerT_29635-T1
Valid prediction for snap_scaffold_12-snap.1479-T1
Valid prediction for snap_scaffold_12-snap.1499-T1
Valid prediction for snap_scaffold_12-snap.1467-T1
Valid prediction for Augustus_model.g19581.t1
Valid prediction for GlimmerHMM_glimmerT_29640-T1
Valid prediction for Augustus_model.g19587.t1
Valid prediction for snap_scaffold_12-snap.1500-T1
Valid prediction for snap_scaffold_12-snap.1516-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 28582, rend_intergenic: 14121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50106, rend_intergenic: 40144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60060, rend_intergenic: 52530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83569, rend_intergenic: 66576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181807, rend_intergenic: 180522  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185965, rend_intergenic: 183036  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 229196, rend_intergenic: 224576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245222, rend_intergenic: 238169  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 249213, rend_intergenic: 245655  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251959, rend_intergenic: 250121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 255456
-exon list size: 378


building trellis

0.3    
0.5    
0.8    
1.1    
1.3    
1.6    
1.8    
2.1    
2.4    
2.6    
2.9    
3.2    
3.4    
3.7    
3.9    
4.2    
4.5    
4.7    
5.0    
5.3    
5.5    
5.8    
6.1    
6.3    
6.6    
6.8    
7.1    
7.4    
7.6    
7.9    
8.2    
8.4    
8.7    
8.9    
9.2    
9.5    
9.7    
10.0    
10.3    
10.5    
10.8    
11.1    
11.3    
11.6    
11.8    
12.1    
12.4    
12.6    
12.9    
13.2    
13.4    
13.7    
13.9    
14.2    
14.5    
14.7    
15.0    
15.3    
15.5    
15.8    
16.1    
16.3    
16.6    
16.8    
17.1    
17.4    
17.6    
17.9    
18.2    
18.4    
18.7    
18.9    
19.2    
19.5    
19.7    
20.0    
20.3    
20.5    
20.8    
21.1    
21.3    
21.6    
21.8    
22.1    
22.4    
22.6    
22.9    
23.2    
23.4    
23.7    
23.9    
24.2    
24.5    
24.7    
25.0    
25.3    
25.5    
25.8    
26.1    
26.3    
26.6    
26.8    
27.1    
27.4    
27.6    
27.9    
28.2    
28.4    
28.7    
28.9    
29.2    
29.5    
29.7    
30.0    
30.3    
30.5    
30.8    
31.1    
31.3    
31.6    
31.8    
32.1    
32.4    
32.6    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.5    
34.7    
35.0    
35.3    
35.5    
35.8    
36.1    
36.3    
36.6    
36.8    
37.1    
37.4    
37.6    
37.9    
38.2    
38.4    
38.7    
38.9    
39.2    
39.5    
39.7    
40.0    
40.3    
40.5    
40.8    
41.1    
41.3    
41.6    
41.8    
42.1    
42.4    
42.6    
42.9    
43.2    
43.4    
43.7    
43.9    
44.2    
44.5    
44.7    
45.0    
45.3    
45.5    
45.8    
46.1    
46.3    
46.6    
46.8    
47.1    
47.4    
47.6    
47.9    
48.2    
48.4    
48.7    
48.9    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.1    
51.3    
51.6    
51.8    
52.1    
52.4    
52.6    
52.9    
53.2    
53.4    
53.7    
53.9    
54.2    
54.5    
54.7    
55.0    
55.3    
55.5    
55.8    
56.1    
56.3    
56.6    
56.8    
57.1    
57.4    
57.6    
57.9    
58.2    
58.4    
58.7    
58.9    
59.2    
59.5    
59.7    
60.0    
60.3    
60.5    
60.8    
61.1    
61.3    
61.6    
61.8    
62.1    
62.4    
62.6    
62.9    
63.2    
63.4    
63.7    
63.9    
64.2    
64.5    
64.7    
65.0    
65.3    
65.5    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.4    
67.6    
67.9    
68.2    
68.4    
68.7    
68.9    
69.2    
69.5    
69.7    
70.0    
70.3    
70.5    
70.8    
71.1    
71.3    
71.6    
71.8    
72.1    
72.4    
72.6    
72.9    
73.2    
73.4    
73.7    
73.9    
74.2    
74.5    
74.7    
75.0    
75.3    
75.5    
75.8    
76.1    
76.3    
76.6    
76.8    
77.1    
77.4    
77.6    
77.9    
78.2    
78.4    
78.7    
78.9    
79.2    
79.5    
79.7    
80.0    
80.3    
80.5    
80.8    
81.1    
81.3    
81.6    
81.8    
82.1    
82.4    
82.6    
82.9    
83.2    
83.4    
83.7    
83.9    
84.2    
84.5    
84.7    
85.0    
85.3    
85.5    
85.8    
86.1    
86.3    
86.6    
86.8    
87.1    
87.4    
87.6    
87.9    
88.2    
88.4    
88.7    
88.9    
89.2    
89.5    
89.7    
90.0    
90.3    
90.5    
90.8    
91.1    
91.3    
91.6    
91.8    
92.1    
92.4    
92.6    
92.9    
93.2    
93.4    
93.7    
93.9    
94.2    
94.5    
94.7    
95.0    
95.3    
95.5    
95.8    
96.1    
96.3    
96.6    
96.8    
97.1    
97.4    
97.6    
97.9    
98.2    
98.4    
98.7    
98.9    
99.2    
99.5    
99.7    
-found 40 predictions from path traversal
Error with prediction: snap lend_intergenic: 28582, rend_intergenic: 14121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50106, rend_intergenic: 40144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60060, rend_intergenic: 52530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83569, rend_intergenic: 66576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181807, rend_intergenic: 180522  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185965, rend_intergenic: 183036  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 229196, rend_intergenic: 224576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245222, rend_intergenic: 238169  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 249213, rend_intergenic: 245655  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251959, rend_intergenic: 250121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 30 predictions persist after filtering for low support