-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_8548701-8748705

-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.g19634.t1
Valid prediction for snap_scaffold_12-snap.1604-T1
Valid prediction for GlimmerHMM_glimmerT_29701-T1
Valid prediction for snap_scaffold_12-snap.1601-T1
Valid prediction for snap_scaffold_12-snap.1598-T1
Valid prediction for GlimmerHMM_glimmerT_29703-T1
Valid prediction for GlimmerHMM_glimmerT_29718-T1
Valid prediction for snap_scaffold_12-snap.1620-T1
Valid prediction for GlimmerHMM_glimmerT_29713-T1
Valid prediction for HiQ_model.g19619.t1
Valid prediction for snap_scaffold_12-snap.1602-T1
Valid prediction for snap_scaffold_12-snap.1608-T1
Valid prediction for CodingQuarry_transcript_10315-T1
Valid prediction for snap_scaffold_12-snap.1630-T1
Valid prediction for pasa_asmbl_7819.p1
Valid prediction for snap_scaffold_12-snap.1596-T1
Valid prediction for GlimmerHMM_glimmerT_29705-T1
Valid prediction for snap_scaffold_12-snap.1615-T1
Valid prediction for Augustus_model.g19631.t1
Valid prediction for snap_scaffold_12-snap.1593-T1
Valid prediction for snap_scaffold_12-snap.1614-T1
Valid prediction for snap_scaffold_12-snap.1595-T1
Valid prediction for Augustus_model.g19635.t1
Valid prediction for pasa_asmbl_7820.p1
Valid prediction for GlimmerHMM_glimmerT_29710-T1
Valid prediction for snap_scaffold_12-snap.1599-T1
Valid prediction for GlimmerHMM_glimmerT_29715-T1
Valid prediction for snap_scaffold_12-snap.1626-T1
Valid prediction for snap_scaffold_12-snap.1631-T1
Valid prediction for GlimmerHMM_glimmerT_29716-T1
Valid prediction for GlimmerHMM_glimmerT_29717-T1
Valid prediction for GlimmerHMM_glimmerT_29707-T1
Valid prediction for Augustus_model.g19629.t1
Valid prediction for HiQ_model.g19621.t1
Valid prediction for snap_scaffold_12-snap.1607-T1
Valid prediction for Augustus_model.g19636.t1
Valid prediction for Augustus_model.g19624.t1
Valid prediction for snap_scaffold_12-snap.1612-T1
Valid prediction for snap_scaffold_12-snap.1617-T1
Valid prediction for snap_scaffold_12-snap.1622-T1
Valid prediction for Augustus_model.g19623.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 175733, 175777
Couldn't classify 181583, 181674
Sorry, prediction pasa_asmbl_8628.p1 fails validation.
(AGC)	 TG	175733-175777	GT	AAG
(GGC)	 AG	176017-176196	GT	ATG
(CAA)	 AG	177252-177484	GT	AGG
(TGA)	 AG	178022-178151	GT	AGG
(GGC)	 AG	178421-178552	GT	AGG
(GAC)	 AG	180999-181242	GT	CGG
(GTT)	 AG	181583-181674	GT	AGG
-recovered pasa_asmbl_8628.p1, internal, 176017, 176196
-recovered pasa_asmbl_8628.p1, internal, 177252, 177484
-recovered pasa_asmbl_8628.p1, internal, 178022, 178151
-recovered pasa_asmbl_8628.p1, internal, 178421, 178552
-recovered pasa_asmbl_8628.p1, internal, 180999, 181242
-recovered pasa_asmbl_8628.p1, internal, 181583, 181674
Valid prediction for GlimmerHMM_glimmerT_29706-T1
Valid prediction for snap_scaffold_12-snap.1609-T1
Valid prediction for CodingQuarry_transcript_10314-T1
Valid prediction for snap_scaffold_12-snap.1616-T1
Valid prediction for snap_scaffold_12-snap.1624-T1
Valid prediction for snap_scaffold_12-snap.1606-T1
Valid prediction for snap_scaffold_12-snap.1621-T1
Valid prediction for snap_scaffold_12-snap.1603-T1
Valid prediction for pasa_asmbl_8626.p1
Valid prediction for GlimmerHMM_glimmerT_29704-T1
Valid prediction for snap_scaffold_12-snap.1629-T1
Couldn't classify 153883, 154191
Sorry, prediction pasa_asmbl_9209.p1 fails validation.
(AGG)	 AG	153883-154191	CA	GCC
Valid prediction for GlimmerHMM_glimmerT_29708-T1
Valid prediction for snap_scaffold_12-snap.1597-T1
Valid prediction for Augustus_model.g19622.t1
Valid prediction for snap_scaffold_12-snap.1619-T1
Valid prediction for snap_scaffold_12-snap.1611-T1
Valid prediction for GlimmerHMM_glimmerT_29714-T1
Valid prediction for snap_scaffold_12-snap.1618-T1
Valid prediction for Augustus_model.g19628.t1
Valid prediction for HiQ_model.g19620.t1
Valid prediction for snap_scaffold_12-snap.1605-T1
Valid prediction for snap_scaffold_12-snap.1594-T1
Valid prediction for snap_scaffold_12-snap.1600-T1
Valid prediction for Augustus_model.g19633.t1
Valid prediction for Augustus_model.g19632.t1
Valid prediction for Augustus_model.g19630.t1
Valid prediction for GlimmerHMM_glimmerT_29712-T1
Valid prediction for Augustus_model.g19625.t1
Valid prediction for snap_scaffold_12-snap.1627-T1
Valid prediction for GlimmerHMM_glimmerT_29709-T1
Valid prediction for GlimmerHMM_glimmerT_29702-T1
Valid prediction for snap_scaffold_12-snap.1613-T1
Valid prediction for snap_scaffold_12-snap.1628-T1
Valid prediction for snap_scaffold_12-snap.1625-T1
Valid prediction for snap_scaffold_12-snap.1623-T1
Valid prediction for GlimmerHMM_glimmerT_29711-T1
Valid prediction for snap_scaffold_12-snap.1610-T1
Valid prediction for Augustus_model.g19626.t1
Valid prediction for Augustus_model.g19627.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 32711, rend_intergenic: 19053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46825, rend_intergenic: 38256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66708, rend_intergenic: 62176  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72540, rend_intergenic: 67190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98897, rend_intergenic: 96971  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114460, rend_intergenic: 111311  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121471, rend_intergenic: 118474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131061, rend_intergenic: 125075  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139678, rend_intergenic: 131476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153380, rend_intergenic: 140382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166129, rend_intergenic: 153477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185871, rend_intergenic: 166404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194385, rend_intergenic: 190255  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 200005
-exon list size: 280


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.1    
2.5    
2.8    
3.2    
3.5    
3.9    
4.3    
4.6    
5.0    
5.3    
5.7    
6.0    
6.4    
6.7    
7.1    
7.4    
7.8    
8.2    
8.5    
8.9    
9.2    
9.6    
9.9    
10.3    
10.6    
11.0    
11.3    
11.7    
12.1    
12.4    
12.8    
13.1    
13.5    
13.8    
14.2    
14.5    
14.9    
15.2    
15.6    
16.0    
16.3    
16.7    
17.0    
17.4    
17.7    
18.1    
18.4    
18.8    
19.1    
19.5    
19.9    
20.2    
20.6    
20.9    
21.3    
21.6    
22.0    
22.3    
22.7    
23.0    
23.4    
23.8    
24.1    
24.5    
24.8    
25.2    
25.5    
25.9    
26.2    
26.6    
27.0    
27.3    
27.7    
28.0    
28.4    
28.7    
29.1    
29.4    
29.8    
30.1    
30.5    
30.9    
31.2    
31.6    
31.9    
32.3    
32.6    
33.0    
33.3    
33.7    
34.0    
34.4    
34.8    
35.1    
35.5    
35.8    
36.2    
36.5    
36.9    
37.2    
37.6    
37.9    
38.3    
38.7    
39.0    
39.4    
39.7    
40.1    
40.4    
40.8    
41.1    
41.5    
41.8    
42.2    
42.6    
42.9    
43.3    
43.6    
44.0    
44.3    
44.7    
45.0    
45.4    
45.7    
46.1    
46.5    
46.8    
47.2    
47.5    
47.9    
48.2    
48.6    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.4    
51.8    
52.1    
52.5    
52.8    
53.2    
53.5    
53.9    
54.3    
54.6    
55.0    
55.3    
55.7    
56.0    
56.4    
56.7    
57.1    
57.4    
57.8    
58.2    
58.5    
58.9    
59.2    
59.6    
59.9    
60.3    
60.6    
61.0    
61.3    
61.7    
62.1    
62.4    
62.8    
63.1    
63.5    
63.8    
64.2    
64.5    
64.9    
65.2    
65.6    
66.0    
66.3    
66.7    
67.0    
67.4    
67.7    
68.1    
68.4    
68.8    
69.1    
69.5    
69.9    
70.2    
70.6    
70.9    
71.3    
71.6    
72.0    
72.3    
72.7    
73.0    
73.4    
73.8    
74.1    
74.5    
74.8    
75.2    
75.5    
75.9    
76.2    
76.6    
77.0    
77.3    
77.7    
78.0    
78.4    
78.7    
79.1    
79.4    
79.8    
80.1    
80.5    
80.9    
81.2    
81.6    
81.9    
82.3    
82.6    
83.0    
83.3    
83.7    
84.0    
84.4    
84.8    
85.1    
85.5    
85.8    
86.2    
86.5    
86.9    
87.2    
87.6    
87.9    
88.3    
88.7    
89.0    
89.4    
89.7    
90.1    
90.4    
90.8    
91.1    
91.5    
91.8    
92.2    
92.6    
92.9    
93.3    
93.6    
94.0    
94.3    
94.7    
95.0    
95.4    
95.7    
96.1    
96.5    
96.8    
97.2    
97.5    
97.9    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 32711, rend_intergenic: 19053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46825, rend_intergenic: 38256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66708, rend_intergenic: 62176  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72540, rend_intergenic: 67190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98897, rend_intergenic: 96971  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114460, rend_intergenic: 111311  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121471, rend_intergenic: 118474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131061, rend_intergenic: 125075  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139678, rend_intergenic: 131476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153380, rend_intergenic: 140382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166129, rend_intergenic: 153477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185871, rend_intergenic: 166404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194385, rend_intergenic: 190255  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support