-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_23/scaffold_23_7332772-7502664

-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_23-snap.1359-T1
Valid prediction for Augustus_model.g34313.t1
Valid prediction for Augustus_model.g34310.t1
Valid prediction for GlimmerHMM_glimmerT_51304-T1
Valid prediction for snap_scaffold_23-snap.1370-T1
Valid prediction for GlimmerHMM_glimmerT_51298-T1
Valid prediction for snap_scaffold_23-snap.1346-T1
Valid prediction for GlimmerHMM_glimmerT_51297-T1
Valid prediction for GlimmerHMM_glimmerT_51293-T1
Valid prediction for Augustus_model.g34309.t1
Couldn't classify 69465, 69572
Sorry, prediction pasa_asmbl_31693.p1 fails validation.
(GCG)	 AG	69465-69572	GT	AGG
(AAG)	 AG	70049-70184	GT	GAG
(TGG)	 AG	70965-71048	GT	GCG
(TGT)	 AG	71244-71404	GT	AGG
(GAG)	 AG	71499-71591	GT	AGG
(GAG)	 AG	71821-71907	GT	AGG
(TCT)	 AG	72139-72231	GT	AGG
(GTG)	 AG	73813-73908	GT	AGG
(GTG)	 AG	74259-74391	GT	GAG
(CCA)	 AG	74566-74636	GT	AGG
(AGG)	 AG	74849-74977	GT	AGG
(CCC)	 AG	75295-75424	GT	TGG
(TGA)	 AG	75557-75684	AG	GAA
-recovered pasa_asmbl_31693.p1, terminal, 75557, 75684
-recovered pasa_asmbl_31693.p1, internal, 69465, 69572
-recovered pasa_asmbl_31693.p1, internal, 70049, 70184
-recovered pasa_asmbl_31693.p1, internal, 70965, 71048
-recovered pasa_asmbl_31693.p1, internal, 71244, 71404
-recovered pasa_asmbl_31693.p1, internal, 71499, 71591
-recovered pasa_asmbl_31693.p1, internal, 71821, 71907
-recovered pasa_asmbl_31693.p1, internal, 72139, 72231
-recovered pasa_asmbl_31693.p1, internal, 73813, 73908
-recovered pasa_asmbl_31693.p1, internal, 74259, 74391
-recovered pasa_asmbl_31693.p1, internal, 74566, 74636
-recovered pasa_asmbl_31693.p1, internal, 74849, 74977
-recovered pasa_asmbl_31693.p1, internal, 75295, 75424
Valid prediction for snap_scaffold_23-snap.1373-T1
Valid prediction for snap_scaffold_23-snap.1353-T1
Valid prediction for GlimmerHMM_glimmerT_51285-T1
Valid prediction for snap_scaffold_23-snap.1351-T1
Valid prediction for GlimmerHMM_glimmerT_51291-T1
Valid prediction for GlimmerHMM_glimmerT_51286-T1
Valid prediction for Augustus_model.g34319.t1
Valid prediction for Augustus_model.g34307.t1
Valid prediction for GlimmerHMM_glimmerT_51294-T1
Valid prediction for snap_scaffold_23-snap.1352-T1
Valid prediction for GlimmerHMM_glimmerT_51289-T1
Valid prediction for snap_scaffold_23-snap.1360-T1
Valid prediction for Augustus_model.g34318.t1
Valid prediction for GlimmerHMM_glimmerT_51301-T1
Valid prediction for GlimmerHMM_glimmerT_51288-T1
Valid prediction for Augustus_model.g34320.t1
Valid prediction for GlimmerHMM_glimmerT_51296-T1
Valid prediction for snap_scaffold_23-snap.1375-T1
Valid prediction for snap_scaffold_23-snap.1366-T1
Valid prediction for GlimmerHMM_glimmerT_51283-T1
Valid prediction for GlimmerHMM_glimmerT_51287-T1
Couldn't classify 96200, 96208
Couldn't classify 100662, 100835
Sorry, prediction pasa_asmbl_31696.p1 fails validation.
(CAC)	 AC	96200-96208	GT	AGG
(ATC)	 AG	96524-96623	GT	AGG
(CGG)	 AG	96903-96988	GT	AGG
(GTC)	 AG	98015-98186	GT	AGG
(ACA)	 AG	98287-98466	GC	AGG
(TGT)	 AG	98640-98762	GT	AGG
(TCT)	 AG	99092-99204	GT	CTG
(GAA)	 AG	99452-99494	GT	AGG
(ACT)	 AG	99761-99872	GT	AGG
(GTC)	 AG	99987-100161	GT	TGG
(GGG)	 AG	100264-100434	GT	CAG
(GAC)	 AG	100662-100835	AC	CCA
-recovered pasa_asmbl_31696.p1, internal, 96524, 96623
-recovered pasa_asmbl_31696.p1, internal, 96903, 96988
-recovered pasa_asmbl_31696.p1, internal, 98015, 98186
-recovered pasa_asmbl_31696.p1, internal, 98287, 98466
-recovered pasa_asmbl_31696.p1, internal, 98640, 98762
-recovered pasa_asmbl_31696.p1, internal, 99092, 99204
-recovered pasa_asmbl_31696.p1, internal, 99452, 99494
-recovered pasa_asmbl_31696.p1, internal, 99761, 99872
-recovered pasa_asmbl_31696.p1, internal, 99987, 100161
-recovered pasa_asmbl_31696.p1, internal, 100264, 100434
Valid prediction for snap_scaffold_23-snap.1349-T1
Couldn't classify 101085, 101426
Sorry, prediction pasa_asmbl_31698.p1 fails validation.
(CGG)	 TT	101085-101426	AC	GAA
Valid prediction for Augustus_model.g34314.t1
Valid prediction for snap_scaffold_23-snap.1367-T1
Valid prediction for Augustus_model.g34317.t1
Valid prediction for GlimmerHMM_glimmerT_51302-T1
Valid prediction for snap_scaffold_23-snap.1364-T1
Valid prediction for snap_scaffold_23-snap.1376-T1
Valid prediction for Augustus_model.g34311.t1
Valid prediction for snap_scaffold_23-snap.1357-T1
Valid prediction for GlimmerHMM_glimmerT_51300-T1
Valid prediction for snap_scaffold_23-snap.1368-T1
Valid prediction for snap_scaffold_23-snap.1371-T1
Valid prediction for GlimmerHMM_glimmerT_51292-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_23-snap.1347-T1
Valid prediction for Augustus_model.g34315.t1
Valid prediction for snap_scaffold_23-snap.1348-T1
Valid prediction for GlimmerHMM_glimmerT_51290-T1
Valid prediction for snap_scaffold_23-snap.1363-T1
Valid prediction for snap_scaffold_23-snap.1361-T1
Valid prediction for Augustus_model.g34305.t1
Valid prediction for GlimmerHMM_glimmerT_51299-T1
Valid prediction for Augustus_model.g34304.t1
Valid prediction for snap_scaffold_23-snap.1350-T1
Valid prediction for GlimmerHMM_glimmerT_51282-T1
Valid prediction for GlimmerHMM_glimmerT_51281-T1
Valid prediction for GlimmerHMM_glimmerT_51295-T1
Valid prediction for Augustus_model.g34306.t1
Valid prediction for Augustus_model.g34308.t1
Valid prediction for snap_scaffold_23-snap.1345-T1
Valid prediction for snap_scaffold_23-snap.1377-T1
Valid prediction for snap_scaffold_23-snap.1355-T1
Valid prediction for GlimmerHMM_glimmerT_51284-T1
Valid prediction for snap_scaffold_23-snap.1372-T1
Valid prediction for snap_scaffold_23-snap.1369-T1
Valid prediction for snap_scaffold_23-snap.1358-T1
Valid prediction for snap_scaffold_23-snap.1362-T1
Valid prediction for HiQ_model.g34312.t1
Valid prediction for snap_scaffold_23-snap.1356-T1
Valid prediction for GlimmerHMM_glimmerT_51303-T1
Valid prediction for snap_scaffold_23-snap.1374-T1
Valid prediction for snap_scaffold_23-snap.1354-T1
Valid prediction for pasa_asmbl_31030.p1
Valid prediction for Augustus_model.g34316.t1
Valid prediction for CodingQuarry_transcript_35718-T1
Valid prediction for snap_scaffold_23-snap.1365-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18569, rend_intergenic: 4382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22376, rend_intergenic: 20435  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28198, rend_intergenic: 23702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48450, rend_intergenic: 34158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75684, rend_intergenic: 57448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101546, rend_intergenic: 93644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106005, rend_intergenic: 104006  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110061, rend_intergenic: 108038  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116331, rend_intergenic: 111009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129893, rend_intergenic: 127497  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135848, rend_intergenic: 129933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138165, rend_intergenic: 136491  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142402, rend_intergenic: 138622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148647, rend_intergenic: 142970  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161921, rend_intergenic: 148979  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 169893
-exon list size: 335


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.9    
4.2    
4.5    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.1    
10.4    
10.7    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.4    
13.6    
13.9    
14.2    
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14.8    
15.1    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.4    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.6    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.4    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
47.8    
48.1    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.9    
52.2    
52.5    
52.8    
53.1    
53.4    
53.7    
54.0    
54.3    
54.6    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
59.3    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.3    
73.6    
73.9    
74.2    
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75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
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80.1    
80.4    
80.7    
81.0    
81.3    
81.6    
81.9    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.1    
86.4    
86.6    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.6    
89.9    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 18569, rend_intergenic: 4382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22376, rend_intergenic: 20435  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28198, rend_intergenic: 23702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48450, rend_intergenic: 34158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75684, rend_intergenic: 57448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101546, rend_intergenic: 93644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106005, rend_intergenic: 104006  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110061, rend_intergenic: 108038  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116331, rend_intergenic: 111009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129893, rend_intergenic: 127497  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135848, rend_intergenic: 129933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138165, rend_intergenic: 136491  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142402, rend_intergenic: 138622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148647, rend_intergenic: 142970  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161921, rend_intergenic: 148979  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support