-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_13778713-13917296

-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_6-snap.2868-T1
Valid prediction for GlimmerHMM_glimmerT_15841-T1
Valid prediction for CodingQuarry_transcript_55313-T1
Valid prediction for GlimmerHMM_glimmerT_15839-T1
Valid prediction for Augustus_model.g10634.t1
Valid prediction for snap_scaffold_6-snap.2874-T1
Valid prediction for GlimmerHMM_glimmerT_15833-T1
Valid prediction for snap_scaffold_6-snap.2893-T1
Valid prediction for snap_scaffold_6-snap.2872-T1
Valid prediction for GlimmerHMM_glimmerT_15823-T1
Valid prediction for GlimmerHMM_glimmerT_15825-T1
Valid prediction for snap_scaffold_6-snap.2883-T1
Valid prediction for snap_scaffold_6-snap.2879-T1
Valid prediction for snap_scaffold_6-snap.2882-T1
Valid prediction for pasa_asmbl_47544.p1
Valid prediction for pasa_asmbl_47541.p1
Valid prediction for Augustus_model.g10636.t1
Valid prediction for Augustus_model.g10629.t1
Valid prediction for snap_scaffold_6-snap.2877-T1
Valid prediction for snap_scaffold_6-snap.2866-T1
Valid prediction for GlimmerHMM_glimmerT_15826-T1
Valid prediction for GlimmerHMM_glimmerT_15834-T1
Valid prediction for HiQ_model.g10640.t1
Valid prediction for CodingQuarry_transcript_55316-T1
Valid prediction for Augustus_model.g10632.t1
Valid prediction for snap_scaffold_6-snap.2895-T1
Valid prediction for snap_scaffold_6-snap.2888-T1
Valid prediction for GlimmerHMM_glimmerT_15836-T1
Valid prediction for snap_scaffold_6-snap.2885-T1
Valid prediction for snap_scaffold_6-snap.2891-T1
Valid prediction for snap_scaffold_6-snap.2889-T1
Valid prediction for GlimmerHMM_glimmerT_15827-T1
Valid prediction for snap_scaffold_6-snap.2875-T1
Valid prediction for snap_scaffold_6-snap.2865-T1
Valid prediction for GlimmerHMM_glimmerT_15835-T1
Valid prediction for snap_scaffold_6-snap.2900-T1
Valid prediction for CodingQuarry_transcript_55314-T1
Valid prediction for GlimmerHMM_glimmerT_15848-T1
Valid prediction for Augustus_model.g10642.t1
Valid prediction for HiQ_model.g10646.t1
Valid prediction for snap_scaffold_6-snap.2871-T1
Valid prediction for Augustus_model.g10638.t1
Valid prediction for GlimmerHMM_glimmerT_15830-T1
Valid prediction for GlimmerHMM_glimmerT_15844-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_15837-T1
Valid prediction for snap_scaffold_6-snap.2869-T1
Valid prediction for snap_scaffold_6-snap.2896-T1
Valid prediction for Augustus_model.g10637.t1
Valid prediction for snap_scaffold_6-snap.2887-T1
Valid prediction for snap_scaffold_6-snap.2876-T1
Valid prediction for snap_scaffold_6-snap.2897-T1
Valid prediction for snap_scaffold_6-snap.2898-T1
Valid prediction for Augustus_model.g10633.t1
Valid prediction for snap_scaffold_6-snap.2894-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_15847-T1
Valid prediction for Augustus_model.g10641.t1
Valid prediction for GlimmerHMM_glimmerT_15832-T1
Valid prediction for pasa_asmbl_48948.p1
Valid prediction for snap_scaffold_6-snap.2878-T1
Valid prediction for Augustus_model.g10643.t1
Valid prediction for snap_scaffold_6-snap.2873-T1
Valid prediction for Augustus_model.g10631.t1
Valid prediction for snap_scaffold_6-snap.2881-T1
Valid prediction for pasa_asmbl_48953.p1
Valid prediction for snap_scaffold_6-snap.2870-T1
Valid prediction for GlimmerHMM_glimmerT_15840-T1
Valid prediction for GlimmerHMM_glimmerT_15846-T1
Valid prediction for Augustus_model.g10635.t1
Valid prediction for Augustus_model.g10639.t1
Valid prediction for snap_scaffold_6-snap.2892-T1
Valid prediction for snap_scaffold_6-snap.2884-T1
Valid prediction for GlimmerHMM_glimmerT_15838-T1
Valid prediction for GlimmerHMM_glimmerT_15828-T1
Couldn't classify 26727, 26815
Couldn't classify 29037, 29103
Sorry, prediction pasa_asmbl_48950.p1 fails validation.
(CTT)	 AG	26727-26815	GT	AGG
(GTA)	 AG	27869-27949	GT	ACG
(GTC)	 AG	28479-28535	GT	CTG
(GCT)	 AG	28781-28858	GT	GGG
(CTT)	 AG	29037-29103	AG	AAA
-recovered pasa_asmbl_48950.p1, internal, 26727, 26815
-recovered pasa_asmbl_48950.p1, internal, 27869, 27949
-recovered pasa_asmbl_48950.p1, internal, 28479, 28535
-recovered pasa_asmbl_48950.p1, internal, 28781, 28858
Valid prediction for GlimmerHMM_glimmerT_15845-T1
Valid prediction for Augustus_model.g10630.t1
Valid prediction for snap_scaffold_6-snap.2890-T1
Valid prediction for GlimmerHMM_glimmerT_15831-T1
Valid prediction for snap_scaffold_6-snap.2886-T1
Valid prediction for snap_scaffold_6-snap.2880-T1
Valid prediction for CodingQuarry_transcript_55315-T1
Valid prediction for GlimmerHMM_glimmerT_15842-T1
Valid prediction for GlimmerHMM_glimmerT_15843-T1
Valid prediction for snap_scaffold_6-snap.2867-T1
Valid prediction for Augustus_model.g10644.t1
Valid prediction for snap_scaffold_6-snap.2864-T1
Valid prediction for HiQ_model.g10645.t1
Couldn't classify 23587, 23755
Couldn't classify 26294, 26314
Sorry, prediction pasa_asmbl_49427.p1 fails validation.
(GGG)	 AC	23587-23755	GT	GAG
(TCT)	 AG	23954-24072	GT	CCG
(GAC)	 AG	26294-26314	AC	AGA
-recovered pasa_asmbl_49427.p1, internal, 23954, 24072
Valid prediction for GlimmerHMM_glimmerT_15824-T1
Valid prediction for snap_scaffold_6-snap.2899-T1
Valid prediction for GlimmerHMM_glimmerT_15829-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4347, rend_intergenic: 2692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6316, rend_intergenic: 4432  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10633, rend_intergenic: 7676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17225, rend_intergenic: 13957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27427, rend_intergenic: 26251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33888, rend_intergenic: 28243  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43821, rend_intergenic: 37094  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46423, rend_intergenic: 44726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60544, rend_intergenic: 54620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76871, rend_intergenic: 70524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78067, rend_intergenic: 77498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80565, rend_intergenic: 80378  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100493, rend_intergenic: 96153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108155, rend_intergenic: 107028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109175, rend_intergenic: 108324  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113150, rend_intergenic: 112411  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 138584
-exon list size: 319


building trellis

0.3    
0.6    
0.9    
1.2    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.4    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.9    
7.2    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.5    
11.8    
12.1    
12.5    
12.8    
13.1    
13.4    
13.7    
14.0    
14.3    
14.6    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
17.8    
18.1    
18.4    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.4    
22.7    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.2    
25.5    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.7    
29.0    
29.3    
29.6    
29.9    
30.2    
30.5    
30.8    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
34.0    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.1    
36.4    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.9    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.1    
61.4    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.6    
63.9    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.0    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.2    
69.5    
69.8    
70.1    
70.4    
70.7    
71.0    
71.3    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.5    
74.8    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.3    
77.6    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.8    
80.1    
80.4    
80.7    
81.0    
81.3    
81.6    
81.9    
82.2    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.4    
85.7    
86.0    
86.3    
86.6    
86.9    
87.2    
87.5    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.8    
93.1    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.6    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.8    
99.1    
99.4    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 4347, rend_intergenic: 2692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6316, rend_intergenic: 4432  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10633, rend_intergenic: 7676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17225, rend_intergenic: 13957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27427, rend_intergenic: 26251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33888, rend_intergenic: 28243  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43821, rend_intergenic: 37094  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46423, rend_intergenic: 44726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60544, rend_intergenic: 54620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76871, rend_intergenic: 70524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78067, rend_intergenic: 77498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80565, rend_intergenic: 80378  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100493, rend_intergenic: 96153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108155, rend_intergenic: 107028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109175, rend_intergenic: 108324  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113150, rend_intergenic: 112411  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support