-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_6391670-6587328

-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 snap_scaffold_18-snap.1375-T1
Valid prediction for snap_scaffold_18-snap.1344-T1
Valid prediction for snap_scaffold_18-snap.1368-T1
Valid prediction for snap_scaffold_18-snap.1359-T1
Valid prediction for GlimmerHMM_glimmerT_42506-T1
Valid prediction for Augustus_model.g28325.t1
Valid prediction for GlimmerHMM_glimmerT_42509-T1
Valid prediction for Augustus_model.g28321.t1
Valid prediction for snap_scaffold_18-snap.1340-T1
Couldn't classify 31812, 32129
Sorry, prediction pasa_asmbl_20675.p1 fails validation.
(CCC)	 TC	31812-32129	GT	AGG
(GGT)	 AG	32621-33346	GT	AGG
(GTG)	 AG	33611-34255	GT	GGG
(GTC)	 AG	35284-35310	TA	AAT
-recovered pasa_asmbl_20675.p1, terminal, 35284, 35310
-recovered pasa_asmbl_20675.p1, internal, 32621, 33346
-recovered pasa_asmbl_20675.p1, internal, 33611, 34255
Valid prediction for snap_scaffold_18-snap.1354-T1
Valid prediction for GlimmerHMM_glimmerT_42508-T1
Valid prediction for GlimmerHMM_glimmerT_42515-T1
Valid prediction for GlimmerHMM_glimmerT_42514-T1
Valid prediction for snap_scaffold_18-snap.1349-T1
Valid prediction for snap_scaffold_18-snap.1337-T1
Valid prediction for Augustus_model.g28320.t1
Valid prediction for Augustus_model.g28310.t1
Valid prediction for snap_scaffold_18-snap.1356-T1
Valid prediction for GlimmerHMM_glimmerT_42498-T1
Valid prediction for GlimmerHMM_glimmerT_42499-T1
Valid prediction for GlimmerHMM_glimmerT_42511-T1
Valid prediction for GlimmerHMM_glimmerT_42497-T1
Valid prediction for snap_scaffold_18-snap.1373-T1
Valid prediction for snap_scaffold_18-snap.1357-T1
Valid prediction for GlimmerHMM_glimmerT_42503-T1
Valid prediction for snap_scaffold_18-snap.1365-T1
Valid prediction for snap_scaffold_18-snap.1338-T1
Valid prediction for snap_scaffold_18-snap.1360-T1
Valid prediction for Augustus_model.g28322.t1
Valid prediction for snap_scaffold_18-snap.1372-T1
Valid prediction for snap_scaffold_18-snap.1361-T1
Valid prediction for snap_scaffold_18-snap.1351-T1
Valid prediction for snap_scaffold_18-snap.1370-T1
Valid prediction for snap_scaffold_18-snap.1363-T1
Valid prediction for GlimmerHMM_glimmerT_42495-T1
Valid prediction for snap_scaffold_18-snap.1341-T1
Valid prediction for GlimmerHMM_glimmerT_42510-T1
Valid prediction for GlimmerHMM_glimmerT_42504-T1
Valid prediction for snap_scaffold_18-snap.1348-T1
Valid prediction for CodingQuarry_transcript_23786-T1
Valid prediction for GlimmerHMM_glimmerT_42513-T1
Valid prediction for snap_scaffold_18-snap.1342-T1
Valid prediction for HiQ_model.g28312.t1
Valid prediction for snap_scaffold_18-snap.1376-T1
Valid prediction for Augustus_model.g28311.t1
Valid prediction for Augustus_model.g28316.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_18-snap.1374-T1
Valid prediction for Augustus_model.g28315.t1
Valid prediction for snap_scaffold_18-snap.1352-T1
Valid prediction for Augustus_model.g28324.t1
Valid prediction for GlimmerHMM_glimmerT_42517-T1
Valid prediction for Augustus_model.g28308.t1
Valid prediction for Augustus_model.g28309.t1
Valid prediction for snap_scaffold_18-snap.1343-T1
Valid prediction for Augustus_model.g28317.t1
Valid prediction for snap_scaffold_18-snap.1346-T1
Valid prediction for snap_scaffold_18-snap.1339-T1
Valid prediction for snap_scaffold_18-snap.1367-T1
Valid prediction for GlimmerHMM_glimmerT_42501-T1
Valid prediction for snap_scaffold_18-snap.1353-T1
Valid prediction for Augustus_model.g28319.t1
Valid prediction for GlimmerHMM_glimmerT_42512-T1
Valid prediction for snap_scaffold_18-snap.1345-T1
Valid prediction for snap_scaffold_18-snap.1355-T1
Valid prediction for snap_scaffold_18-snap.1364-T1
Valid prediction for GlimmerHMM_glimmerT_42507-T1
Valid prediction for snap_scaffold_18-snap.1369-T1
Valid prediction for snap_scaffold_18-snap.1350-T1
Valid prediction for CodingQuarry_transcript_23787-T1
Valid prediction for snap_scaffold_18-snap.1377-T1
Valid prediction for snap_scaffold_18-snap.1347-T1
Valid prediction for GlimmerHMM_glimmerT_42502-T1
Couldn't classify 147310, 147444
Couldn't classify 147938, 148093
Sorry, prediction pasa_asmbl_19901.p1 fails validation.
(TCG)	 AG	147310-147444	GT	AGG
(GAC)	 AG	147554-147640	GT	ACG
(ACA)	 AG	147938-148093	CT	TCC
-recovered pasa_asmbl_19901.p1, internal, 147310, 147444
-recovered pasa_asmbl_19901.p1, internal, 147554, 147640
Valid prediction for Augustus_model.g28313.t1
Valid prediction for snap_scaffold_18-snap.1366-T1
Valid prediction for snap_scaffold_18-snap.1336-T1
Valid prediction for snap_scaffold_18-snap.1362-T1
Valid prediction for Augustus_model.g28318.t1
Valid prediction for GlimmerHMM_glimmerT_42505-T1
Valid prediction for GlimmerHMM_glimmerT_42496-T1
Couldn't classify 90127, 90927
Sorry, prediction pasa_asmbl_19905.p1 fails validation.
(ATG)	 GG	90127-90927	GA	ACG
Couldn't classify 155034, 155240
Sorry, prediction pasa_asmbl_19897.p1 fails validation.
(CCT)	 CA	155034-155240	GT	ATG
(GTG)	 AG	155463-155571	GT	AGG
(ATG)	 AG	155671-155732	GT	AGG
-recovered pasa_asmbl_19897.p1, initial, 155671, 155732
-recovered pasa_asmbl_19897.p1, terminal, 155671, 155732
-recovered pasa_asmbl_19897.p1, internal, 155463, 155571
-recovered pasa_asmbl_19897.p1, internal, 155671, 155732
Couldn't classify 148240, 148264
Sorry, prediction pasa_asmbl_19902.p2 fails validation.
(CAA)	 CC	148240-148264	GT	TGG
(ACA)	 AG	148903-148926	GT	TGG
(GTC)	 AG	151888-152071	GT	CAG
(GCA)	 AG	152373-152415	GT	ATG
(TTG)	 AG	153298-153465	TG	AGT
-recovered pasa_asmbl_19902.p2, terminal, 153298, 153465
-recovered pasa_asmbl_19902.p2, internal, 148903, 148926
-recovered pasa_asmbl_19902.p2, internal, 151888, 152071
-recovered pasa_asmbl_19902.p2, internal, 152373, 152415
Valid prediction for snap_scaffold_18-snap.1371-T1
Valid prediction for GlimmerHMM_glimmerT_42500-T1
Valid prediction for GlimmerHMM_glimmerT_42516-T1
Valid prediction for Augustus_model.g28323.t1
Valid prediction for snap_scaffold_18-snap.1358-T1
Valid prediction for Augustus_model.g28314.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6675, rend_intergenic: 2275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13625, rend_intergenic: 11616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44869, rend_intergenic: 44093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49136, rend_intergenic: 44871  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90484, rend_intergenic: 84915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129307, rend_intergenic: 120482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136280, rend_intergenic: 132154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142961, rend_intergenic: 137678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167999, rend_intergenic: 163323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 195659
-exon list size: 291


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.0    
2.4    
2.7    
3.1    
3.4    
3.8    
4.1    
4.4    
4.8    
5.1    
5.5    
5.8    
6.1    
6.5    
6.8    
7.2    
7.5    
7.8    
8.2    
8.5    
8.9    
9.2    
9.6    
9.9    
10.2    
10.6    
10.9    
11.3    
11.6    
11.9    
12.3    
12.6    
13.0    
13.3    
13.7    
14.0    
14.3    
14.7    
15.0    
15.4    
15.7    
16.0    
16.4    
16.7    
17.1    
17.4    
17.7    
18.1    
18.4    
18.8    
19.1    
19.5    
19.8    
20.1    
20.5    
20.8    
21.2    
21.5    
21.8    
22.2    
22.5    
22.9    
23.2    
23.5    
23.9    
24.2    
24.6    
24.9    
25.3    
25.6    
25.9    
26.3    
26.6    
27.0    
27.3    
27.6    
28.0    
28.3    
28.7    
29.0    
29.4    
29.7    
30.0    
30.4    
30.7    
31.1    
31.4    
31.7    
32.1    
32.4    
32.8    
33.1    
33.4    
33.8    
34.1    
34.5    
34.8    
35.2    
35.5    
35.8    
36.2    
36.5    
36.9    
37.2    
37.5    
37.9    
38.2    
38.6    
38.9    
39.2    
39.6    
39.9    
40.3    
40.6    
41.0    
41.3    
41.6    
42.0    
42.3    
42.7    
43.0    
43.3    
43.7    
44.0    
44.4    
44.7    
45.1    
45.4    
45.7    
46.1    
46.4    
46.8    
47.1    
47.4    
47.8    
48.1    
48.5    
48.8    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.2    
51.5    
51.9    
52.2    
52.6    
52.9    
53.2    
53.6    
53.9    
54.3    
54.6    
54.9    
55.3    
55.6    
56.0    
56.3    
56.7    
57.0    
57.3    
57.7    
58.0    
58.4    
58.7    
59.0    
59.4    
59.7    
60.1    
60.4    
60.8    
61.1    
61.4    
61.8    
62.1    
62.5    
62.8    
63.1    
63.5    
63.8    
64.2    
64.5    
64.8    
65.2    
65.5    
65.9    
66.2    
66.6    
66.9    
67.2    
67.6    
67.9    
68.3    
68.6    
68.9    
69.3    
69.6    
70.0    
70.3    
70.6    
71.0    
71.3    
71.7    
72.0    
72.4    
72.7    
73.0    
73.4    
73.7    
74.1    
74.4    
74.7    
75.1    
75.4    
75.8    
76.1    
76.5    
76.8    
77.1    
77.5    
77.8    
78.2    
78.5    
78.8    
79.2    
79.5    
79.9    
80.2    
80.5    
80.9    
81.2    
81.6    
81.9    
82.3    
82.6    
82.9    
83.3    
83.6    
84.0    
84.3    
84.6    
85.0    
85.3    
85.7    
86.0    
86.3    
86.7    
87.0    
87.4    
87.7    
88.1    
88.4    
88.7    
89.1    
89.4    
89.8    
90.1    
90.4    
90.8    
91.1    
91.5    
91.8    
92.2    
92.5    
92.8    
93.2    
93.5    
93.9    
94.2    
94.5    
94.9    
95.2    
95.6    
95.9    
96.2    
96.6    
96.9    
97.3    
97.6    
98.0    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 6675, rend_intergenic: 2275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13625, rend_intergenic: 11616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44869, rend_intergenic: 44093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49136, rend_intergenic: 44871  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90484, rend_intergenic: 84915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129307, rend_intergenic: 120482  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136280, rend_intergenic: 132154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142961, rend_intergenic: 137678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167999, rend_intergenic: 163323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support