-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_26/scaffold_26_1612367-1868688

-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_26-snap.333-T1
Valid prediction for snap_scaffold_26-snap.350-T1
Valid prediction for snap_scaffold_26-snap.335-T1
Valid prediction for snap_scaffold_26-snap.337-T1
Valid prediction for GlimmerHMM_glimmerT_55118-T1
Valid prediction for snap_scaffold_26-snap.336-T1
Valid prediction for snap_scaffold_26-snap.365-T1
Valid prediction for GlimmerHMM_glimmerT_55127-T1
Valid prediction for snap_scaffold_26-snap.356-T1
Valid prediction for GlimmerHMM_glimmerT_55102-T1
Valid prediction for GlimmerHMM_glimmerT_55113-T1
Valid prediction for snap_scaffold_26-snap.359-T1
Valid prediction for Augustus_model.g36530.t1
Valid prediction for GlimmerHMM_glimmerT_55106-T1
Valid prediction for snap_scaffold_26-snap.332-T1
Valid prediction for GlimmerHMM_glimmerT_55101-T1
Valid prediction for GlimmerHMM_glimmerT_55104-T1
Valid prediction for GlimmerHMM_glimmerT_55103-T1
Valid prediction for snap_scaffold_26-snap.362-T1
Valid prediction for snap_scaffold_26-snap.354-T1
Valid prediction for Augustus_model.g36527.t1
Valid prediction for GlimmerHMM_glimmerT_55107-T1
Valid prediction for GlimmerHMM_glimmerT_55110-T1
Valid prediction for Augustus_model.g36529.t1
Valid prediction for snap_scaffold_26-snap.330-T1
Valid prediction for GlimmerHMM_glimmerT_55122-T1
Valid prediction for snap_scaffold_26-snap.352-T1
Valid prediction for snap_scaffold_26-snap.343-T1
Valid prediction for snap_scaffold_26-snap.355-T1
Valid prediction for snap_scaffold_26-snap.338-T1
Valid prediction for GlimmerHMM_glimmerT_55128-T1
Valid prediction for snap_scaffold_26-snap.342-T1
Valid prediction for GlimmerHMM_glimmerT_55105-T1
Valid prediction for snap_scaffold_26-snap.346-T1
Couldn't classify 223988, 224432
Couldn't classify 225444, 225670
Sorry, prediction pasa_asmbl_34723.p1 fails validation.
(ACC)	 AC	223988-224432	GT	GGG
(GCT)	 AG	225444-225670	GG	CTG
Valid prediction for snap_scaffold_26-snap.360-T1
Valid prediction for snap_scaffold_26-snap.348-T1
Valid prediction for GlimmerHMM_glimmerT_55111-T1
Valid prediction for GlimmerHMM_glimmerT_55116-T1
Valid prediction for snap_scaffold_26-snap.363-T1
Valid prediction for GlimmerHMM_glimmerT_55132-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_55126-T1
Valid prediction for GlimmerHMM_glimmerT_55108-T1
Valid prediction for Augustus_model.g36532.t1
Valid prediction for snap_scaffold_26-snap.364-T1
Valid prediction for GlimmerHMM_glimmerT_55117-T1
Valid prediction for snap_scaffold_26-snap.361-T1
Valid prediction for snap_scaffold_26-snap.358-T1
Valid prediction for GlimmerHMM_glimmerT_55125-T1
Valid prediction for GlimmerHMM_glimmerT_55112-T1
Valid prediction for Augustus_model.g36528.t1
Valid prediction for snap_scaffold_26-snap.347-T1
Valid prediction for GlimmerHMM_glimmerT_55119-T1
Valid prediction for snap_scaffold_26-snap.331-T1
Valid prediction for snap_scaffold_26-snap.357-T1
Valid prediction for GlimmerHMM_glimmerT_55115-T1
Valid prediction for snap_scaffold_26-snap.351-T1
Valid prediction for snap_scaffold_26-snap.345-T1
Couldn't classify 14642, 14996
Couldn't classify 15301, 15416
Sorry, prediction pasa_asmbl_35411.p1 fails validation.
(GAT)	 TG	14642-14996	GT	TGG
(GTG)	 AG	15301-15416	GT	AGG
-recovered pasa_asmbl_35411.p1, internal, 15301, 15416
Valid prediction for snap_scaffold_26-snap.353-T1
Valid prediction for GlimmerHMM_glimmerT_55114-T1
Valid prediction for snap_scaffold_26-snap.334-T1
Valid prediction for GlimmerHMM_glimmerT_55131-T1
Valid prediction for snap_scaffold_26-snap.341-T1
Valid prediction for GlimmerHMM_glimmerT_55109-T1
Valid prediction for GlimmerHMM_glimmerT_55121-T1
Valid prediction for Augustus_model.g36531.t1
Valid prediction for snap_scaffold_26-snap.340-T1
Valid prediction for snap_scaffold_26-snap.349-T1
Valid prediction for GlimmerHMM_glimmerT_55120-T1
Valid prediction for snap_scaffold_26-snap.344-T1
Valid prediction for GlimmerHMM_glimmerT_55123-T1
Valid prediction for CodingQuarry_transcript_40254-T1
Valid prediction for pasa_asmbl_35413.p1
Valid prediction for snap_scaffold_26-snap.339-T1
Valid prediction for GlimmerHMM_glimmerT_55124-T1
Valid prediction for Augustus_model.g36526.t1
Valid prediction for GlimmerHMM_glimmerT_55130-T1
Valid prediction for GlimmerHMM_glimmerT_55129-T1
Couldn't classify 19872, 19978
Sorry, prediction pasa_asmbl_35410.p1 fails validation.
(ATG)	 GG	18179-18418	GT	AGG
(GTG)	 AG	18833-19007	GT	CGG
(ACC)	 AG	19211-19240	GT	AGG
(TTC)	 AG	19385-19603	GT	AAG
(ACA)	 AG	19872-19978	TG	ACT
-recovered pasa_asmbl_35410.p1, initial, 18179, 18418
-recovered pasa_asmbl_35410.p1, internal, 18833, 19007
-recovered pasa_asmbl_35410.p1, internal, 19211, 19240
-recovered pasa_asmbl_35410.p1, internal, 19385, 19603
Valid prediction for Augustus_model.g36525.t1
Valid prediction for HiQ_model.g36533.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 155356, rend_intergenic: 155353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34639, rend_intergenic: 11612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36848, rend_intergenic: 36113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79701, rend_intergenic: 36966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115027, rend_intergenic: 93096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115357, rend_intergenic: 115054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137929, rend_intergenic: 117894  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143728, rend_intergenic: 143297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149711, rend_intergenic: 148829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174451, rend_intergenic: 154314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176763, rend_intergenic: 174785  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177441, rend_intergenic: 177265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204961, rend_intergenic: 177472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214450, rend_intergenic: 205163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 222585, rend_intergenic: 217361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 238144, rend_intergenic: 233455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 252339, rend_intergenic: 245243  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 256322
-exon list size: 307


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.3    
2.6    
2.9    
3.2    
3.6    
3.9    
4.2    
4.5    
4.9    
5.2    
5.5    
5.8    
6.1    
6.5    
6.8    
7.1    
7.4    
7.8    
8.1    
8.4    
8.7    
9.1    
9.4    
9.7    
10.0    
10.4    
10.7    
11.0    
11.3    
11.7    
12.0    
12.3    
12.6    
12.9    
13.3    
13.6    
13.9    
14.2    
14.6    
14.9    
15.2    
15.5    
15.9    
16.2    
16.5    
16.8    
17.2    
17.5    
17.8    
18.1    
18.4    
18.8    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.0    
21.4    
21.7    
22.0    
22.3    
22.7    
23.0    
23.3    
23.6    
23.9    
24.3    
24.6    
24.9    
25.2    
25.6    
25.9    
26.2    
26.5    
26.9    
27.2    
27.5    
27.8    
28.2    
28.5    
28.8    
29.1    
29.4    
29.8    
30.1    
30.4    
30.7    
31.1    
31.4    
31.7    
32.0    
32.4    
32.7    
33.0    
33.3    
33.7    
34.0    
34.3    
34.6    
35.0    
35.3    
35.6    
35.9    
36.2    
36.6    
36.9    
37.2    
37.5    
37.9    
38.2    
38.5    
38.8    
39.2    
39.5    
39.8    
40.1    
40.5    
40.8    
41.1    
41.4    
41.7    
42.1    
42.4    
42.7    
43.0    
43.4    
43.7    
44.0    
44.3    
44.7    
45.0    
45.3    
45.6    
46.0    
46.3    
46.6    
46.9    
47.2    
47.6    
47.9    
48.2    
48.5    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.5    
51.8    
52.1    
52.4    
52.8    
53.1    
53.4    
53.7    
54.0    
54.4    
54.7    
55.0    
55.3    
55.7    
56.0    
56.3    
56.6    
57.0    
57.3    
57.6    
57.9    
58.3    
58.6    
58.9    
59.2    
59.5    
59.9    
60.2    
60.5    
60.8    
61.2    
61.5    
61.8    
62.1    
62.5    
62.8    
63.1    
63.4    
63.8    
64.1    
64.4    
64.7    
65.0    
65.4    
65.7    
66.0    
66.3    
66.7    
67.0    
67.3    
67.6    
68.0    
68.3    
68.6    
68.9    
69.3    
69.6    
69.9    
70.2    
70.6    
70.9    
71.2    
71.5    
71.8    
72.2    
72.5    
72.8    
73.1    
73.5    
73.8    
74.1    
74.4    
74.8    
75.1    
75.4    
75.7    
76.1    
76.4    
76.7    
77.0    
77.3    
77.7    
78.0    
78.3    
78.6    
79.0    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.2    
81.6    
81.9    
82.2    
82.5    
82.8    
83.2    
83.5    
83.8    
84.1    
84.5    
84.8    
85.1    
85.4    
85.8    
86.1    
86.4    
86.7    
87.1    
87.4    
87.7    
88.0    
88.3    
88.7    
89.0    
89.3    
89.6    
90.0    
90.3    
90.6    
90.9    
91.3    
91.6    
91.9    
92.2    
92.6    
92.9    
93.2    
93.5    
93.9    
94.2    
94.5    
94.8    
95.1    
95.5    
95.8    
96.1    
96.4    
96.8    
97.1    
97.4    
97.7    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 30 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 155356, rend_intergenic: 155353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34639, rend_intergenic: 11612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36848, rend_intergenic: 36113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79701, rend_intergenic: 36966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115027, rend_intergenic: 93096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115357, rend_intergenic: 115054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137929, rend_intergenic: 117894  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143728, rend_intergenic: 143297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149711, rend_intergenic: 148829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174451, rend_intergenic: 154314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176763, rend_intergenic: 174785  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177441, rend_intergenic: 177265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204961, rend_intergenic: 177472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214450, rend_intergenic: 205163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 222585, rend_intergenic: 217361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 238144, rend_intergenic: 233455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 252339, rend_intergenic: 245243  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 14024
-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
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 - 12479
-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 - 11530
-exon list size: 2


building trellis

25.0    
50.0    
75.0    
-found 1 predictions from path traversal

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