-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_14446049-14575133

-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.g10716.t1
Valid prediction for GlimmerHMM_glimmerT_15952-T1
Valid prediction for snap_scaffold_6-snap.3023-T1
Valid prediction for snap_scaffold_6-snap.3050-T1
Valid prediction for snap_scaffold_6-snap.3019-T1
Valid prediction for GlimmerHMM_glimmerT_15948-T1
Valid prediction for snap_scaffold_6-snap.3031-T1
Valid prediction for snap_scaffold_6-snap.3022-T1
Valid prediction for snap_scaffold_6-snap.3045-T1
Valid prediction for CodingQuarry_transcript_55342-T1
Valid prediction for GlimmerHMM_glimmerT_15958-T1
Valid prediction for GlimmerHMM_glimmerT_15956-T1
Valid prediction for snap_scaffold_6-snap.3025-T1
Couldn't classify 98070, 98498
Sorry, prediction pasa_asmbl_47624.p1 fails validation.
(CAC)	 CA	98070-98498	CT	AGC
Valid prediction for GlimmerHMM_glimmerT_15965-T1
Valid prediction for snap_scaffold_6-snap.3047-T1
Valid prediction for CodingQuarry_transcript_55341-T1
Valid prediction for GlimmerHMM_glimmerT_15944-T1
Valid prediction for snap_scaffold_6-snap.3024-T1
Valid prediction for snap_scaffold_6-snap.3027-T1
Valid prediction for GlimmerHMM_glimmerT_15962-T1
Couldn't classify 64488, 64904
Sorry, prediction pasa_asmbl_47620.p3 fails validation.
(ATG)	 GG	64488-64904	GG	CAG
Valid prediction for snap_scaffold_6-snap.3043-T1
Valid prediction for snap_scaffold_6-snap.3029-T1
Valid prediction for Augustus_model.g10718.t1
Valid prediction for snap_scaffold_6-snap.3048-T1
Valid prediction for GlimmerHMM_glimmerT_15955-T1
Valid prediction for snap_scaffold_6-snap.3033-T1
Valid prediction for snap_scaffold_6-snap.3032-T1
Valid prediction for GlimmerHMM_glimmerT_15951-T1
Valid prediction for GlimmerHMM_glimmerT_15950-T1
Valid prediction for Augustus_model.g10719.t1
Valid prediction for GlimmerHMM_glimmerT_15946-T1
Valid prediction for Augustus_model.g10725.t1
Valid prediction for GlimmerHMM_glimmerT_15961-T1
Valid prediction for snap_scaffold_6-snap.3039-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_6-snap.3052-T1
Valid prediction for Augustus_model.g10721.t1
Valid prediction for snap_scaffold_6-snap.3035-T1
Valid prediction for snap_scaffold_6-snap.3034-T1
Valid prediction for Augustus_model.g10720.t1
Valid prediction for Augustus_model.g10714.t1
Valid prediction for Augustus_model.g10715.t1
Valid prediction for snap_scaffold_6-snap.3044-T1
Valid prediction for Augustus_model.g10723.t1
Valid prediction for snap_scaffold_6-snap.3028-T1
Valid prediction for GlimmerHMM_glimmerT_15941-T1
Valid prediction for GlimmerHMM_glimmerT_15945-T1
Valid prediction for GlimmerHMM_glimmerT_15947-T1
Valid prediction for GlimmerHMM_glimmerT_15953-T1
Valid prediction for snap_scaffold_6-snap.3026-T1
Valid prediction for snap_scaffold_6-snap.3037-T1
Valid prediction for GlimmerHMM_glimmerT_15964-T1
Valid prediction for snap_scaffold_6-snap.3042-T1
Valid prediction for Augustus_model.g10713.t1
Valid prediction for snap_scaffold_6-snap.3020-T1
Valid prediction for Augustus_model.g10722.t1
Valid prediction for Augustus_model.g10717.t1
Valid prediction for GlimmerHMM_glimmerT_15942-T1
Valid prediction for GlimmerHMM_glimmerT_15943-T1
Valid prediction for snap_scaffold_6-snap.3038-T1
Valid prediction for snap_scaffold_6-snap.3030-T1
Valid prediction for snap_scaffold_6-snap.3036-T1
Valid prediction for GlimmerHMM_glimmerT_15959-T1
Valid prediction for GlimmerHMM_glimmerT_15949-T1
Valid prediction for snap_scaffold_6-snap.3040-T1
Valid prediction for GlimmerHMM_glimmerT_15963-T1
Valid prediction for GlimmerHMM_glimmerT_15954-T1
Valid prediction for snap_scaffold_6-snap.3051-T1
Valid prediction for Augustus_model.g10726.t1
Valid prediction for Augustus_model.g10727.t1
Valid prediction for GlimmerHMM_glimmerT_15957-T1
Couldn't classify 125041, 125456
Sorry, prediction pasa_asmbl_49007.p1 fails validation.
(TGT)	 AC	125041-125456	GT	AAG
(AGA)	 AG	125627-125936	CC	AAC
-recovered pasa_asmbl_49007.p1, terminal, 125627, 125936
Valid prediction for GlimmerHMM_glimmerT_15960-T1
Valid prediction for snap_scaffold_6-snap.3046-T1
Sorry, intron length (4) is less than minimum required (10)
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.3021-T1
Valid prediction for Augustus_model.g10724.t1
Valid prediction for snap_scaffold_6-snap.3041-T1
Valid prediction for snap_scaffold_6-snap.3049-T1
Sorry, intron length (6) is less than minimum required (10)

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9910, rend_intergenic: 5996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22306, rend_intergenic: 19199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34901, rend_intergenic: 28506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41672, rend_intergenic: 40422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46734, rend_intergenic: 41858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57843, rend_intergenic: 47912  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77339, rend_intergenic: 74625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95456, rend_intergenic: 86143  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103488, rend_intergenic: 95691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110131, rend_intergenic: 104167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 129085
-exon list size: 241


building trellis

0.4    
0.8    
1.2    
1.6    
2.1    
2.5    
2.9    
3.3    
3.7    
4.1    
4.5    
4.9    
5.3    
5.8    
6.2    
6.6    
7.0    
7.4    
7.8    
8.2    
8.6    
9.1    
9.5    
9.9    
10.3    
10.7    
11.1    
11.5    
11.9    
12.3    
12.8    
13.2    
13.6    
14.0    
14.4    
14.8    
15.2    
15.6    
16.0    
16.5    
16.9    
17.3    
17.7    
18.1    
18.5    
18.9    
19.3    
19.8    
20.2    
20.6    
21.0    
21.4    
21.8    
22.2    
22.6    
23.0    
23.5    
23.9    
24.3    
24.7    
25.1    
25.5    
25.9    
26.3    
26.7    
27.2    
27.6    
28.0    
28.4    
28.8    
29.2    
29.6    
30.0    
30.5    
30.9    
31.3    
31.7    
32.1    
32.5    
32.9    
33.3    
33.7    
34.2    
34.6    
35.0    
35.4    
35.8    
36.2    
36.6    
37.0    
37.4    
37.9    
38.3    
38.7    
39.1    
39.5    
39.9    
40.3    
40.7    
41.2    
41.6    
42.0    
42.4    
42.8    
43.2    
43.6    
44.0    
44.4    
44.9    
45.3    
45.7    
46.1    
46.5    
46.9    
47.3    
47.7    
48.1    
48.6    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.4    
51.9    
52.3    
52.7    
53.1    
53.5    
53.9    
54.3    
54.7    
55.1    
55.6    
56.0    
56.4    
56.8    
57.2    
57.6    
58.0    
58.4    
58.8    
59.3    
59.7    
60.1    
60.5    
60.9    
61.3    
61.7    
62.1    
62.6    
63.0    
63.4    
63.8    
64.2    
64.6    
65.0    
65.4    
65.8    
66.3    
66.7    
67.1    
67.5    
67.9    
68.3    
68.7    
69.1    
69.5    
70.0    
70.4    
70.8    
71.2    
71.6    
72.0    
72.4    
72.8    
73.3    
73.7    
74.1    
74.5    
74.9    
75.3    
75.7    
76.1    
76.5    
77.0    
77.4    
77.8    
78.2    
78.6    
79.0    
79.4    
79.8    
80.2    
80.7    
81.1    
81.5    
81.9    
82.3    
82.7    
83.1    
83.5    
84.0    
84.4    
84.8    
85.2    
85.6    
86.0    
86.4    
86.8    
87.2    
87.7    
88.1    
88.5    
88.9    
89.3    
89.7    
90.1    
90.5    
90.9    
91.4    
91.8    
92.2    
92.6    
93.0    
93.4    
93.8    
94.2    
94.7    
95.1    
95.5    
95.9    
96.3    
96.7    
97.1    
97.5    
97.9    
98.4    
98.8    
99.2    
99.6    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 9910, rend_intergenic: 5996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22306, rend_intergenic: 19199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34901, rend_intergenic: 28506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41672, rend_intergenic: 40422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46734, rend_intergenic: 41858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57843, rend_intergenic: 47912  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77339, rend_intergenic: 74625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95456, rend_intergenic: 86143  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103488, rend_intergenic: 95691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110131, rend_intergenic: 104167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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

-building DP trellis

-building trellis in range 110572 - 129085
-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

-building DP trellis

-building trellis in range 113177 - 129085
-exon list size: 2


building trellis

25.0    
50.0    
75.0    
-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