-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_21/scaffold_21_1429377-1638221

-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_21-snap.255-T1
Valid prediction for snap_scaffold_21-snap.294-T1
Valid prediction for snap_scaffold_21-snap.291-T1
Valid prediction for GlimmerHMM_glimmerT_47140-T1
Valid prediction for snap_scaffold_21-snap.272-T1
Valid prediction for GlimmerHMM_glimmerT_47138-T1
Valid prediction for snap_scaffold_21-snap.265-T1
Valid prediction for GlimmerHMM_glimmerT_47122-T1
Valid prediction for snap_scaffold_21-snap.287-T1
Valid prediction for snap_scaffold_21-snap.260-T1
Valid prediction for snap_scaffold_21-snap.289-T1
Valid prediction for snap_scaffold_21-snap.279-T1
Valid prediction for GlimmerHMM_glimmerT_47115-T1
Valid prediction for Augustus_model.g31386.t1
Valid prediction for snap_scaffold_21-snap.290-T1
Valid prediction for HiQ_model.g31387.t1
Valid prediction for GlimmerHMM_glimmerT_47129-T1
Valid prediction for GlimmerHMM_glimmerT_47121-T1
Valid prediction for snap_scaffold_21-snap.292-T1
Valid prediction for snap_scaffold_21-snap.275-T1
Valid prediction for GlimmerHMM_glimmerT_47134-T1
Valid prediction for Augustus_model.g31389.t1
Valid prediction for GlimmerHMM_glimmerT_47144-T1
Valid prediction for GlimmerHMM_glimmerT_47133-T1
Valid prediction for Augustus_model.g31392.t1
Valid prediction for GlimmerHMM_glimmerT_47136-T1
Valid prediction for HiQ_model.g31394.t1
Valid prediction for GlimmerHMM_glimmerT_47128-T1
Valid prediction for GlimmerHMM_glimmerT_47120-T1
Couldn't classify 200306, 200329
Sorry, prediction pasa_asmbl_28342.p1 fails validation.
(GTG)	 GG	200306-200329	GT	TGG
(GAA)	 AG	201034-201095	GT	AGG
(GCG)	 AG	202279-202358	GT	TGG
(GTC)	 AG	202782-202893	GT	AGG
(TGC)	 AG	203235-203398	GT	AGG
(GGA)	 AG	203570-203665	GT	AGG
(TTG)	 AG	203798-203895	GT	CGG
(ACC)	 AG	204285-204405	GT	GGG
(GCG)	 AG	204532-204689	GT	AGG
(GCG)	 AG	204780-204894	GT	AGG
(ATC)	 AG	205084-205211	GT	TGG
(AAG)	 AG	205327-205494	GT	AGG
(GGG)	 AG	205731-205892	GT	ACG
(GTG)	 AG	206099-206143	CT	AAC
-recovered pasa_asmbl_28342.p1, terminal, 206099, 206143
-recovered pasa_asmbl_28342.p1, internal, 201034, 201095
-recovered pasa_asmbl_28342.p1, internal, 202279, 202358
-recovered pasa_asmbl_28342.p1, internal, 202782, 202893
-recovered pasa_asmbl_28342.p1, internal, 203235, 203398
-recovered pasa_asmbl_28342.p1, internal, 203570, 203665
-recovered pasa_asmbl_28342.p1, internal, 203798, 203895
-recovered pasa_asmbl_28342.p1, internal, 204285, 204405
-recovered pasa_asmbl_28342.p1, internal, 204532, 204689
-recovered pasa_asmbl_28342.p1, internal, 204780, 204894
-recovered pasa_asmbl_28342.p1, internal, 205084, 205211
-recovered pasa_asmbl_28342.p1, internal, 205327, 205494
-recovered pasa_asmbl_28342.p1, internal, 205731, 205892
Valid prediction for snap_scaffold_21-snap.295-T1
Valid prediction for GlimmerHMM_glimmerT_47124-T1
Valid prediction for GlimmerHMM_glimmerT_47130-T1
Valid prediction for Augustus_model.g31391.t1
Valid prediction for snap_scaffold_21-snap.277-T1
Valid prediction for snap_scaffold_21-snap.284-T1
Valid prediction for GlimmerHMM_glimmerT_47142-T1
Valid prediction for GlimmerHMM_glimmerT_47135-T1
Valid prediction for Augustus_model.g31390.t1
Valid prediction for GlimmerHMM_glimmerT_47125-T1
Valid prediction for snap_scaffold_21-snap.269-T1
Valid prediction for snap_scaffold_21-snap.280-T1
Valid prediction for GlimmerHMM_glimmerT_47123-T1
Couldn't classify 199834, 199856
Sorry, prediction pasa_asmbl_28341.p1 fails validation.
(ATG)	 AT	198136-198142	GT	TGG
(GAA)	 AG	198639-198746	GT	AGG
(GCA)	 AG	198910-199005	GT	CAG
(AGA)	 AG	199161-199286	GT	TGG
(AGT)	 AG	199834-199856	AT	GCA
-recovered pasa_asmbl_28341.p1, initial, 198136, 198142
-recovered pasa_asmbl_28341.p1, internal, 198639, 198746
-recovered pasa_asmbl_28341.p1, internal, 198910, 199005
-recovered pasa_asmbl_28341.p1, internal, 199161, 199286
Valid prediction for snap_scaffold_21-snap.266-T1
Valid prediction for snap_scaffold_21-snap.286-T1
Valid prediction for snap_scaffold_21-snap.270-T1
Valid prediction for snap_scaffold_21-snap.281-T1
Valid prediction for snap_scaffold_21-snap.258-T1
Valid prediction for snap_scaffold_21-snap.273-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_21-snap.259-T1
Valid prediction for snap_scaffold_21-snap.257-T1
Valid prediction for snap_scaffold_21-snap.256-T1
Valid prediction for snap_scaffold_21-snap.283-T1
Valid prediction for snap_scaffold_21-snap.293-T1
Valid prediction for GlimmerHMM_glimmerT_47137-T1
Valid prediction for GlimmerHMM_glimmerT_47132-T1
Valid prediction for snap_scaffold_21-snap.278-T1
Valid prediction for snap_scaffold_21-snap.264-T1
Valid prediction for GlimmerHMM_glimmerT_47139-T1
Valid prediction for snap_scaffold_21-snap.282-T1
Valid prediction for snap_scaffold_21-snap.285-T1
Valid prediction for snap_scaffold_21-snap.254-T1
Valid prediction for GlimmerHMM_glimmerT_47126-T1
Valid prediction for snap_scaffold_21-snap.262-T1
Valid prediction for GlimmerHMM_glimmerT_47127-T1
Valid prediction for GlimmerHMM_glimmerT_47141-T1
Valid prediction for GlimmerHMM_glimmerT_47143-T1
Valid prediction for snap_scaffold_21-snap.288-T1
Valid prediction for snap_scaffold_21-snap.276-T1
Valid prediction for snap_scaffold_21-snap.267-T1
Valid prediction for snap_scaffold_21-snap.268-T1
Valid prediction for snap_scaffold_21-snap.263-T1
Valid prediction for GlimmerHMM_glimmerT_47131-T1
Valid prediction for Augustus_model.g31393.t1
Valid prediction for snap_scaffold_21-snap.274-T1
Valid prediction for Augustus_model.g31388.t1
Valid prediction for Augustus_model.g31385.t1
Valid prediction for GlimmerHMM_glimmerT_47118-T1
Valid prediction for snap_scaffold_21-snap.253-T1
Valid prediction for GlimmerHMM_glimmerT_47119-T1
Valid prediction for GlimmerHMM_glimmerT_47117-T1
Valid prediction for GlimmerHMM_glimmerT_47116-T1
Valid prediction for snap_scaffold_21-snap.261-T1
Valid prediction for snap_scaffold_21-snap.271-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6431, rend_intergenic: 2959  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20026, rend_intergenic: 7274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29057, rend_intergenic: 20297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37687, rend_intergenic: 31985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52300, rend_intergenic: 38887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71198, rend_intergenic: 52914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85945, rend_intergenic: 82450  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95447, rend_intergenic: 90632  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103603, rend_intergenic: 96393  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106755, rend_intergenic: 106122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107191, rend_intergenic: 107130  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113694, rend_intergenic: 107302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114211, rend_intergenic: 113972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126475, rend_intergenic: 114319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137952, rend_intergenic: 127758  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147609, rend_intergenic: 138504  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152037, rend_intergenic: 149897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164211, rend_intergenic: 159497  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 208845
-exon list size: 355


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
2.0    
2.2    
2.5    
2.8    
3.1    
3.4    
3.6    
3.9    
4.2    
4.5    
4.8    
5.0    
5.3    
5.6    
5.9    
6.2    
6.4    
6.7    
7.0    
7.3    
7.6    
7.8    
8.1    
8.4    
8.7    
9.0    
9.2    
9.5    
9.8    
10.1    
10.4    
10.6    
10.9    
11.2    
11.5    
11.8    
12.0    
12.3    
12.6    
12.9    
13.2    
13.4    
13.7    
14.0    
14.3    
14.6    
14.8    
15.1    
15.4    
15.7    
16.0    
16.2    
16.5    
16.8    
17.1    
17.4    
17.6    
17.9    
18.2    
18.5    
18.8    
19.0    
19.3    
19.6    
19.9    
20.2    
20.4    
20.7    
21.0    
21.3    
21.6    
21.8    
22.1    
22.4    
22.7    
23.0    
23.2    
23.5    
23.8    
24.1    
24.4    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.3    
26.6    
26.9    
27.2    
27.5    
27.7    
28.0    
28.3    
28.6    
28.9    
29.1    
29.4    
29.7    
30.0    
30.3    
30.5    
30.8    
31.1    
31.4    
31.7    
31.9    
32.2    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.2    
34.5    
34.7    
35.0    
35.3    
35.6    
35.9    
36.1    
36.4    
36.7    
37.0    
37.3    
37.5    
37.8    
38.1    
38.4    
38.7    
38.9    
39.2    
39.5    
39.8    
40.1    
40.3    
40.6    
40.9    
41.2    
41.5    
41.7    
42.0    
42.3    
42.6    
42.9    
43.1    
43.4    
43.7    
44.0    
44.3    
44.5    
44.8    
45.1    
45.4    
45.7    
45.9    
46.2    
46.5    
46.8    
47.1    
47.3    
47.6    
47.9    
48.2    
48.5    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.5    
51.8    
52.1    
52.4    
52.7    
52.9    
53.2    
53.5    
53.8    
54.1    
54.3    
54.6    
54.9    
55.2    
55.5    
55.7    
56.0    
56.3    
56.6    
56.9    
57.1    
57.4    
57.7    
58.0    
58.3    
58.5    
58.8    
59.1    
59.4    
59.7    
59.9    
60.2    
60.5    
60.8    
61.1    
61.3    
61.6    
61.9    
62.2    
62.5    
62.7    
63.0    
63.3    
63.6    
63.9    
64.1    
64.4    
64.7    
65.0    
65.3    
65.5    
65.8    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.8    
68.1    
68.3    
68.6    
68.9    
69.2    
69.5    
69.7    
70.0    
70.3    
70.6    
70.9    
71.1    
71.4    
71.7    
72.0    
72.3    
72.5    
72.8    
73.1    
73.4    
73.7    
73.9    
74.2    
74.5    
74.8    
75.1    
75.4    
75.6    
75.9    
76.2    
76.5    
76.8    
77.0    
77.3    
77.6    
77.9    
78.2    
78.4    
78.7    
79.0    
79.3    
79.6    
79.8    
80.1    
80.4    
80.7    
81.0    
81.2    
81.5    
81.8    
82.1    
82.4    
82.6    
82.9    
83.2    
83.5    
83.8    
84.0    
84.3    
84.6    
84.9    
85.2    
85.4    
85.7    
86.0    
86.3    
86.6    
86.8    
87.1    
87.4    
87.7    
88.0    
88.2    
88.5    
88.8    
89.1    
89.4    
89.6    
89.9    
90.2    
90.5    
90.8    
91.0    
91.3    
91.6    
91.9    
92.2    
92.4    
92.7    
93.0    
93.3    
93.6    
93.8    
94.1    
94.4    
94.7    
95.0    
95.2    
95.5    
95.8    
96.1    
96.4    
96.6    
96.9    
97.2    
97.5    
97.8    
98.0    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 6431, rend_intergenic: 2959  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20026, rend_intergenic: 7274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29057, rend_intergenic: 20297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37687, rend_intergenic: 31985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52300, rend_intergenic: 38887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71198, rend_intergenic: 52914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85945, rend_intergenic: 82450  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95447, rend_intergenic: 90632  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103603, rend_intergenic: 96393  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106755, rend_intergenic: 106122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107191, rend_intergenic: 107130  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113694, rend_intergenic: 107302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114211, rend_intergenic: 113972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126475, rend_intergenic: 114319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137952, rend_intergenic: 127758  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147609, rend_intergenic: 138504  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152037, rend_intergenic: 149897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164211, rend_intergenic: 159497  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 9 predictions persist after filtering for low support