-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_19/scaffold_19_3668173-3837907

-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.g29129.t1
Valid prediction for snap_scaffold_19-snap.797-T1
Valid prediction for GlimmerHMM_glimmerT_43905-T1
Valid prediction for GlimmerHMM_glimmerT_43902-T1
Valid prediction for snap_scaffold_19-snap.785-T1
Couldn't classify 15186, 15353
Sorry, prediction pasa_asmbl_21336.p2 fails validation.
(TGT)	 AA	15186-15353	GT	AGG
(CTG)	 AG	15683-15731	GT	CGG
(TGG)	 AG	15856-15931	GT	AAG
(GAA)	 AG	16769-16883	TG	AAT
-recovered pasa_asmbl_21336.p2, terminal, 16769, 16883
-recovered pasa_asmbl_21336.p2, internal, 15683, 15731
-recovered pasa_asmbl_21336.p2, internal, 15856, 15931
Valid prediction for snap_scaffold_19-snap.786-T1
Valid prediction for GlimmerHMM_glimmerT_43894-T1
Valid prediction for snap_scaffold_19-snap.782-T1
Valid prediction for GlimmerHMM_glimmerT_43897-T1
Valid prediction for snap_scaffold_19-snap.771-T1
Valid prediction for Augustus_model.g29130.t1
Valid prediction for snap_scaffold_19-snap.799-T1
Valid prediction for GlimmerHMM_glimmerT_43898-T1
Valid prediction for snap_scaffold_19-snap.790-T1
Valid prediction for GlimmerHMM_glimmerT_43896-T1
Valid prediction for snap_scaffold_19-snap.774-T1
Valid prediction for CodingQuarry_transcript_25633-T1
Valid prediction for snap_scaffold_19-snap.801-T1
Valid prediction for snap_scaffold_19-snap.766-T1
Valid prediction for snap_scaffold_19-snap.791-T1
Valid prediction for GlimmerHMM_glimmerT_43904-T1
Valid prediction for GlimmerHMM_glimmerT_43906-T1
Valid prediction for snap_scaffold_19-snap.783-T1
Valid prediction for snap_scaffold_19-snap.795-T1
Valid prediction for snap_scaffold_19-snap.772-T1
Valid prediction for snap_scaffold_19-snap.796-T1
Valid prediction for snap_scaffold_19-snap.793-T1
Valid prediction for snap_scaffold_19-snap.800-T1
Valid prediction for Augustus_model.g29124.t1
Valid prediction for Augustus_model.g29127.t1
Valid prediction for snap_scaffold_19-snap.767-T1
Valid prediction for snap_scaffold_19-snap.775-T1
Valid prediction for snap_scaffold_19-snap.777-T1
Valid prediction for CodingQuarry_transcript_25636-T1
Valid prediction for snap_scaffold_19-snap.779-T1
Valid prediction for GlimmerHMM_glimmerT_43907-T1
Valid prediction for CodingQuarry_transcript_25634-T1
Valid prediction for Augustus_model.g29128.t1
Valid prediction for snap_scaffold_19-snap.769-T1
Valid prediction for snap_scaffold_19-snap.789-T1
Valid prediction for CodingQuarry_transcript_25635-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_19-snap.768-T1
Valid prediction for snap_scaffold_19-snap.788-T1
Valid prediction for snap_scaffold_19-snap.780-T1
Valid prediction for snap_scaffold_19-snap.778-T1
Valid prediction for Augustus_model.g29125.t1
Valid prediction for GlimmerHMM_glimmerT_43900-T1
Valid prediction for snap_scaffold_19-snap.773-T1
Valid prediction for snap_scaffold_19-snap.781-T1
Valid prediction for snap_scaffold_19-snap.770-T1
Valid prediction for snap_scaffold_19-snap.794-T1
Valid prediction for snap_scaffold_19-snap.764-T1
Valid prediction for snap_scaffold_19-snap.765-T1
Valid prediction for snap_scaffold_19-snap.784-T1
Valid prediction for snap_scaffold_19-snap.776-T1
Valid prediction for pasa_asmbl_22124.p1
Valid prediction for GlimmerHMM_glimmerT_43899-T1
Valid prediction for snap_scaffold_19-snap.798-T1
Valid prediction for snap_scaffold_19-snap.787-T1
Valid prediction for GlimmerHMM_glimmerT_43901-T1
Valid prediction for GlimmerHMM_glimmerT_43908-T1
Valid prediction for CodingQuarry_transcript_25631-T1
Valid prediction for Augustus_model.g29126.t1
Valid prediction for GlimmerHMM_glimmerT_43903-T1
Valid prediction for GlimmerHMM_glimmerT_43895-T1
Valid prediction for snap_scaffold_19-snap.792-T1
Valid prediction for CodingQuarry_transcript_25632-T1
Valid prediction for HiQ_model.g29123.t1
Valid prediction for HiQ_model.g29122.t1
Valid prediction for GlimmerHMM_glimmerT_43893-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11098, rend_intergenic: 6889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28347, rend_intergenic: 25051  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38846, rend_intergenic: 28630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39952, rend_intergenic: 39651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43093, rend_intergenic: 39966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74018, rend_intergenic: 65613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77492, rend_intergenic: 74546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81544, rend_intergenic: 78782  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89288, rend_intergenic: 84511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126351, rend_intergenic: 123437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160805, rend_intergenic: 152332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 18337, rend_intergenic: 18334  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 169735
-exon list size: 243


building trellis

0.4    
0.8    
1.2    
1.6    
2.0    
2.4    
2.9    
3.3    
3.7    
4.1    
4.5    
4.9    
5.3    
5.7    
6.1    
6.5    
6.9    
7.3    
7.8    
8.2    
8.6    
9.0    
9.4    
9.8    
10.2    
10.6    
11.0    
11.4    
11.8    
12.2    
12.7    
13.1    
13.5    
13.9    
14.3    
14.7    
15.1    
15.5    
15.9    
16.3    
16.7    
17.1    
17.6    
18.0    
18.4    
18.8    
19.2    
19.6    
20.0    
20.4    
20.8    
21.2    
21.6    
22.0    
22.4    
22.9    
23.3    
23.7    
24.1    
24.5    
24.9    
25.3    
25.7    
26.1    
26.5    
26.9    
27.3    
27.8    
28.2    
28.6    
29.0    
29.4    
29.8    
30.2    
30.6    
31.0    
31.4    
31.8    
32.2    
32.7    
33.1    
33.5    
33.9    
34.3    
34.7    
35.1    
35.5    
35.9    
36.3    
36.7    
37.1    
37.6    
38.0    
38.4    
38.8    
39.2    
39.6    
40.0    
40.4    
40.8    
41.2    
41.6    
42.0    
42.4    
42.9    
43.3    
43.7    
44.1    
44.5    
44.9    
45.3    
45.7    
46.1    
46.5    
46.9    
47.3    
47.8    
48.2    
48.6    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.4    
51.8    
52.2    
52.7    
53.1    
53.5    
53.9    
54.3    
54.7    
55.1    
55.5    
55.9    
56.3    
56.7    
57.1    
57.6    
58.0    
58.4    
58.8    
59.2    
59.6    
60.0    
60.4    
60.8    
61.2    
61.6    
62.0    
62.4    
62.9    
63.3    
63.7    
64.1    
64.5    
64.9    
65.3    
65.7    
66.1    
66.5    
66.9    
67.3    
67.8    
68.2    
68.6    
69.0    
69.4    
69.8    
70.2    
70.6    
71.0    
71.4    
71.8    
72.2    
72.7    
73.1    
73.5    
73.9    
74.3    
74.7    
75.1    
75.5    
75.9    
76.3    
76.7    
77.1    
77.6    
78.0    
78.4    
78.8    
79.2    
79.6    
80.0    
80.4    
80.8    
81.2    
81.6    
82.0    
82.4    
82.9    
83.3    
83.7    
84.1    
84.5    
84.9    
85.3    
85.7    
86.1    
86.5    
86.9    
87.3    
87.8    
88.2    
88.6    
89.0    
89.4    
89.8    
90.2    
90.6    
91.0    
91.4    
91.8    
92.2    
92.7    
93.1    
93.5    
93.9    
94.3    
94.7    
95.1    
95.5    
95.9    
96.3    
96.7    
97.1    
97.6    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 11098, rend_intergenic: 6889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28347, rend_intergenic: 25051  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38846, rend_intergenic: 28630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39952, rend_intergenic: 39651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43093, rend_intergenic: 39966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74018, rend_intergenic: 65613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77492, rend_intergenic: 74546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81544, rend_intergenic: 78782  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89288, rend_intergenic: 84511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126351, rend_intergenic: 123437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160805, rend_intergenic: 152332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 18337, rend_intergenic: 18334  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