-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1/scaffold_1_8020327-8197699

-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_1124-T1
Valid prediction for snap_scaffold_1-snap.1414-T1
Valid prediction for snap_scaffold_1-snap.1420-T1
Valid prediction for GlimmerHMM_glimmerT_1131-T1
Valid prediction for GlimmerHMM_glimmerT_1110-T1
Valid prediction for snap_scaffold_1-snap.1425-T1
Valid prediction for Augustus_model.g849.t1
Valid prediction for GlimmerHMM_glimmerT_1123-T1
Valid prediction for GlimmerHMM_glimmerT_1122-T1
Valid prediction for snap_scaffold_1-snap.1441-T1
Valid prediction for snap_scaffold_1-snap.1422-T1
Valid prediction for Augustus_model.g842.t1
Valid prediction for GlimmerHMM_glimmerT_1117-T1
Valid prediction for snap_scaffold_1-snap.1424-T1
Valid prediction for Augustus_model.g839.t1
Valid prediction for Augustus_model.g833.t1
Valid prediction for snap_scaffold_1-snap.1433-T1
Valid prediction for GlimmerHMM_glimmerT_1125-T1
Valid prediction for Augustus_model.g841.t1
Valid prediction for snap_scaffold_1-snap.1421-T1
Valid prediction for Augustus_model.g845.t1
Valid prediction for snap_scaffold_1-snap.1429-T1
Sorry, intron length (7) is less than minimum required (10)
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_1-snap.1436-T1
Valid prediction for GlimmerHMM_glimmerT_1119-T1
Valid prediction for Augustus_model.g837.t1
Valid prediction for snap_scaffold_1-snap.1423-T1
Couldn't classify 129429, 129572
Sorry, prediction pasa_asmbl_1931.p1 fails validation.
(GTA)	 AG	129429-129572	GT	AGG
(GTG)	 AG	129917-130036	GT	GGG
(ACG)	 AG	131221-131459	GT	AGG
(GTT)	 AG	131657-131782	GT	AGG
(CTT)	 AG	132069-132153	GG	GAG
-recovered pasa_asmbl_1931.p1, terminal, 132069, 132153
-recovered pasa_asmbl_1931.p1, internal, 129429, 129572
-recovered pasa_asmbl_1931.p1, internal, 129917, 130036
-recovered pasa_asmbl_1931.p1, internal, 131221, 131459
-recovered pasa_asmbl_1931.p1, internal, 131657, 131782
Valid prediction for GlimmerHMM_glimmerT_1129-T1
Valid prediction for snap_scaffold_1-snap.1437-T1
Valid prediction for GlimmerHMM_glimmerT_1114-T1
Valid prediction for Augustus_model.g840.t1
Valid prediction for Augustus_model.g835.t1
Valid prediction for snap_scaffold_1-snap.1419-T1
Valid prediction for snap_scaffold_1-snap.1413-T1
Valid prediction for snap_scaffold_1-snap.1417-T1
Valid prediction for Augustus_model.g834.t1
Valid prediction for Augustus_model.g846.t1
Valid prediction for snap_scaffold_1-snap.1428-T1
Valid prediction for GlimmerHMM_glimmerT_1116-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_1130-T1
Valid prediction for GlimmerHMM_glimmerT_1132-T1
Valid prediction for snap_scaffold_1-snap.1443-T1
Valid prediction for snap_scaffold_1-snap.1438-T1
Valid prediction for GlimmerHMM_glimmerT_1115-T1
Valid prediction for GlimmerHMM_glimmerT_1137-T1
Valid prediction for GlimmerHMM_glimmerT_1120-T1
Valid prediction for GlimmerHMM_glimmerT_1126-T1
Valid prediction for GlimmerHMM_glimmerT_1128-T1
Valid prediction for snap_scaffold_1-snap.1435-T1
Valid prediction for Augustus_model.g844.t1
Valid prediction for snap_scaffold_1-snap.1416-T1
Valid prediction for snap_scaffold_1-snap.1415-T1
Valid prediction for snap_scaffold_1-snap.1430-T1
Valid prediction for GlimmerHMM_glimmerT_1118-T1
Valid prediction for snap_scaffold_1-snap.1432-T1
Valid prediction for GlimmerHMM_glimmerT_1135-T1
Valid prediction for Augustus_model.g843.t1
Valid prediction for snap_scaffold_1-snap.1440-T1
Valid prediction for snap_scaffold_1-snap.1434-T1
Valid prediction for GlimmerHMM_glimmerT_1112-T1
Valid prediction for GlimmerHMM_glimmerT_1111-T1
Valid prediction for GlimmerHMM_glimmerT_1133-T1
Valid prediction for GlimmerHMM_glimmerT_1127-T1
Valid prediction for snap_scaffold_1-snap.1427-T1
Valid prediction for GlimmerHMM_glimmerT_1136-T1
Valid prediction for Augustus_model.g836.t1
Valid prediction for snap_scaffold_1-snap.1426-T1
Valid prediction for snap_scaffold_1-snap.1442-T1
Valid prediction for snap_scaffold_1-snap.1444-T1
Valid prediction for Augustus_model.g838.t1
Valid prediction for Augustus_model.g848.t1
Valid prediction for snap_scaffold_1-snap.1445-T1
Valid prediction for snap_scaffold_1-snap.1431-T1
Valid prediction for GlimmerHMM_glimmerT_1113-T1
Valid prediction for snap_scaffold_1-snap.1439-T1
Valid prediction for GlimmerHMM_glimmerT_1134-T1
Valid prediction for GlimmerHMM_glimmerT_1121-T1
Valid prediction for Augustus_model.g847.t1
Valid prediction for snap_scaffold_1-snap.1418-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 25832, rend_intergenic: 22709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63973, rend_intergenic: 56529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102893, rend_intergenic: 96687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111503, rend_intergenic: 102910  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116130, rend_intergenic: 114994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132153, rend_intergenic: 129886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138419, rend_intergenic: 133688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144384, rend_intergenic: 142676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164770, rend_intergenic: 160216  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 177373
-exon list size: 244


building trellis

0.4    
0.8    
1.2    
1.6    
2.0    
2.4    
2.8    
3.3    
3.7    
4.1    
4.5    
4.9    
5.3    
5.7    
6.1    
6.5    
6.9    
7.3    
7.7    
8.1    
8.5    
8.9    
9.3    
9.8    
10.2    
10.6    
11.0    
11.4    
11.8    
12.2    
12.6    
13.0    
13.4    
13.8    
14.2    
14.6    
15.0    
15.4    
15.9    
16.3    
16.7    
17.1    
17.5    
17.9    
18.3    
18.7    
19.1    
19.5    
19.9    
20.3    
20.7    
21.1    
21.5    
22.0    
22.4    
22.8    
23.2    
23.6    
24.0    
24.4    
24.8    
25.2    
25.6    
26.0    
26.4    
26.8    
27.2    
27.6    
28.0    
28.5    
28.9    
29.3    
29.7    
30.1    
30.5    
30.9    
31.3    
31.7    
32.1    
32.5    
32.9    
33.3    
33.7    
34.1    
34.6    
35.0    
35.4    
35.8    
36.2    
36.6    
37.0    
37.4    
37.8    
38.2    
38.6    
39.0    
39.4    
39.8    
40.2    
40.7    
41.1    
41.5    
41.9    
42.3    
42.7    
43.1    
43.5    
43.9    
44.3    
44.7    
45.1    
45.5    
45.9    
46.3    
46.7    
47.2    
47.6    
48.0    
48.4    
48.8    
49.2    
49.6    
50.0    
50.4    
50.8    
51.2    
51.6    
52.0    
52.4    
52.8    
53.3    
53.7    
54.1    
54.5    
54.9    
55.3    
55.7    
56.1    
56.5    
56.9    
57.3    
57.7    
58.1    
58.5    
58.9    
59.3    
59.8    
60.2    
60.6    
61.0    
61.4    
61.8    
62.2    
62.6    
63.0    
63.4    
63.8    
64.2    
64.6    
65.0    
65.4    
65.9    
66.3    
66.7    
67.1    
67.5    
67.9    
68.3    
68.7    
69.1    
69.5    
69.9    
70.3    
70.7    
71.1    
71.5    
72.0    
72.4    
72.8    
73.2    
73.6    
74.0    
74.4    
74.8    
75.2    
75.6    
76.0    
76.4    
76.8    
77.2    
77.6    
78.0    
78.5    
78.9    
79.3    
79.7    
80.1    
80.5    
80.9    
81.3    
81.7    
82.1    
82.5    
82.9    
83.3    
83.7    
84.1    
84.6    
85.0    
85.4    
85.8    
86.2    
86.6    
87.0    
87.4    
87.8    
88.2    
88.6    
89.0    
89.4    
89.8    
90.2    
90.7    
91.1    
91.5    
91.9    
92.3    
92.7    
93.1    
93.5    
93.9    
94.3    
94.7    
95.1    
95.5    
95.9    
96.3    
96.7    
97.2    
97.6    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 25832, rend_intergenic: 22709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63973, rend_intergenic: 56529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102893, rend_intergenic: 96687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111503, rend_intergenic: 102910  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116130, rend_intergenic: 114994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132153, rend_intergenic: 129886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138419, rend_intergenic: 133688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144384, rend_intergenic: 142676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164770, rend_intergenic: 160216  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 19548
-exon list size: 12


building trellis

7.1    
14.3    
21.4    
28.6    
35.7    
42.9    
50.0    
57.1    
64.3    
71.4    
78.6    
85.7    
92.9    
-found 2 predictions from path traversal
GOT 5prime partial gene.

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

-building DP trellis

-building trellis in range 1 - 17920
-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 2 predictions from path traversal
GOT 5prime partial gene.

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

-building DP trellis

-building trellis in range 1 - 17108
-exon list size: 7


building trellis

11.1    
22.2    
33.3    
44.4    
55.6    
66.7    
77.8    
88.9    
-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 1 - 14736
-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

-building DP trellis

-building trellis in range 1 - 14662
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-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 1 - 13407
-exon list size: 3


building trellis

20.0    
40.0    
60.0    
80.0    
-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