-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_3941665-4127684

-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_8-snap.787-T1
Valid prediction for GlimmerHMM_glimmerT_19578-T1
Valid prediction for snap_scaffold_8-snap.757-T1
Valid prediction for Augustus_model.g13018.t1
Valid prediction for snap_scaffold_8-snap.781-T1
Valid prediction for HiQ_model.g13016.t1
Valid prediction for Augustus_model.g13014.t1
Valid prediction for snap_scaffold_8-snap.747-T1
Valid prediction for snap_scaffold_8-snap.775-T1
Valid prediction for Augustus_model.g13003.t1
Valid prediction for snap_scaffold_8-snap.752-T1
Valid prediction for GlimmerHMM_glimmerT_19563-T1
Valid prediction for GlimmerHMM_glimmerT_19581-T1
Valid prediction for snap_scaffold_8-snap.777-T1
Valid prediction for snap_scaffold_8-snap.784-T1
Valid prediction for GlimmerHMM_glimmerT_19577-T1
Valid prediction for snap_scaffold_8-snap.779-T1
Valid prediction for snap_scaffold_8-snap.754-T1
Valid prediction for CodingQuarry_transcript_59617-T1
Valid prediction for snap_scaffold_8-snap.786-T1
Valid prediction for GlimmerHMM_glimmerT_19570-T1
Valid prediction for Augustus_model.g13006.t1
Couldn't classify 139835, 140205
Sorry, prediction pasa_asmbl_52813.p1 fails validation.
(CTC)	 AG	139835-140205	GT	AGG
(ACT)	 AG	140384-140603	GT	CAG
(GAG)	 AG	140802-140909	GT	CTG
(ATC)	 AG	141082-141201	GT	AGG
(GAG)	 AG	141290-141403	GT	AGG
(CCA)	 AG	141528-141566	GT	GAG
-recovered pasa_asmbl_52813.p1, terminal, 141528, 141566
-recovered pasa_asmbl_52813.p1, internal, 139835, 140205
-recovered pasa_asmbl_52813.p1, internal, 140384, 140603
-recovered pasa_asmbl_52813.p1, internal, 140802, 140909
-recovered pasa_asmbl_52813.p1, internal, 141082, 141201
-recovered pasa_asmbl_52813.p1, internal, 141290, 141403
-recovered pasa_asmbl_52813.p1, internal, 141528, 141566
Valid prediction for snap_scaffold_8-snap.755-T1
Valid prediction for snap_scaffold_8-snap.750-T1
Valid prediction for Augustus_model.g13013.t1
Valid prediction for GlimmerHMM_glimmerT_19585-T1
Valid prediction for snap_scaffold_8-snap.748-T1
Valid prediction for snap_scaffold_8-snap.789-T1
Valid prediction for snap_scaffold_8-snap.766-T1
Valid prediction for snap_scaffold_8-snap.761-T1
Valid prediction for snap_scaffold_8-snap.756-T1
Valid prediction for GlimmerHMM_glimmerT_19584-T1
Valid prediction for snap_scaffold_8-snap.770-T1
Valid prediction for snap_scaffold_8-snap.769-T1
Valid prediction for snap_scaffold_8-snap.773-T1
Valid prediction for pasa_asmbl_52809.p1
Valid prediction for snap_scaffold_8-snap.764-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_8-snap.751-T1
Valid prediction for GlimmerHMM_glimmerT_19582-T1
Valid prediction for GlimmerHMM_glimmerT_19588-T1
Valid prediction for snap_scaffold_8-snap.765-T1
Valid prediction for GlimmerHMM_glimmerT_19562-T1
Valid prediction for Augustus_model.g13017.t1
Valid prediction for GlimmerHMM_glimmerT_19583-T1
Valid prediction for GlimmerHMM_glimmerT_19580-T1
Valid prediction for GlimmerHMM_glimmerT_19589-T1
Valid prediction for Augustus_model.g13004.t1
Valid prediction for GlimmerHMM_glimmerT_19568-T1
Valid prediction for Augustus_model.g13015.t1
Valid prediction for snap_scaffold_8-snap.776-T1
Valid prediction for snap_scaffold_8-snap.749-T1
Valid prediction for GlimmerHMM_glimmerT_19586-T1
Valid prediction for snap_scaffold_8-snap.758-T1
Valid prediction for Augustus_model.g13005.t1
Valid prediction for Augustus_model.g13008.t1
Couldn't classify 139763, 139822
Sorry, prediction pasa_asmbl_51754.p1 fails validation.
(GAT)	 CA	139763-139822	GT	AGG
(TGC)	 AG	140180-140283	GT	AGG
(GCC)	 AG	142764-142978	GT	GAG
(GTG)	 AG	143928-144046	TG	AGT
-recovered pasa_asmbl_51754.p1, terminal, 143928, 144046
-recovered pasa_asmbl_51754.p1, internal, 140180, 140283
-recovered pasa_asmbl_51754.p1, internal, 142764, 142978
Valid prediction for GlimmerHMM_glimmerT_19576-T1
Couldn't classify 27303, 27423
Couldn't classify 28863, 28931
Sorry, prediction pasa_asmbl_51757.p1 fails validation.
(CTG)	 TG	27303-27423	GT	CGG
(GAT)	 AG	28021-28154	GT	CGG
(CAC)	 AG	28446-28604	GT	ACG
(GTG)	 AG	28863-28931	AT	AGA
-recovered pasa_asmbl_51757.p1, internal, 28021, 28154
-recovered pasa_asmbl_51757.p1, internal, 28446, 28604
Valid prediction for Augustus_model.g13002.t1
Valid prediction for GlimmerHMM_glimmerT_19579-T1
Valid prediction for snap_scaffold_8-snap.780-T1
Couldn't classify 162813, 162938
Sorry, prediction pasa_asmbl_51752.p2 fails validation.
(ATG)	 GG	161541-161634	GT	AGG
(GTG)	 AG	162113-162291	GT	CGG
(CTG)	 AG	162813-162938	AC	GTA
-recovered pasa_asmbl_51752.p2, initial, 161541, 161634
-recovered pasa_asmbl_51752.p2, internal, 162113, 162291
Valid prediction for GlimmerHMM_glimmerT_19572-T1
Valid prediction for snap_scaffold_8-snap.753-T1
Valid prediction for Augustus_model.g13012.t1
Valid prediction for snap_scaffold_8-snap.782-T1
Valid prediction for Augustus_model.g13019.t1
Valid prediction for snap_scaffold_8-snap.763-T1
Valid prediction for Augustus_model.g13010.t1
Valid prediction for GlimmerHMM_glimmerT_19569-T1
Valid prediction for GlimmerHMM_glimmerT_19566-T1
Couldn't classify 151188, 151241
Couldn't classify 156575, 156672
Sorry, prediction pasa_asmbl_51753.p1 fails validation.
(CTG)	 GG	151188-151241	GT	AGG
(ACT)	 AG	151358-151495	GT	AGG
(GTA)	 AG	151652-151902	GT	AGG
(TAT)	 AG	152575-152698	GT	GGG
(GCA)	 AG	154796-154875	GT	AGG
(AGA)	 AG	154979-155115	GT	GTG
(CCA)	 AG	155599-155721	GT	CGG
(CCT)	 AG	156575-156672	AG	AGA
-recovered pasa_asmbl_51753.p1, internal, 151358, 151495
-recovered pasa_asmbl_51753.p1, internal, 151652, 151902
-recovered pasa_asmbl_51753.p1, internal, 152575, 152698
-recovered pasa_asmbl_51753.p1, internal, 154796, 154875
-recovered pasa_asmbl_51753.p1, internal, 154979, 155115
-recovered pasa_asmbl_51753.p1, internal, 155599, 155721
Valid prediction for GlimmerHMM_glimmerT_19564-T1
Valid prediction for GlimmerHMM_glimmerT_19567-T1
Valid prediction for Augustus_model.g13011.t1
Valid prediction for GlimmerHMM_glimmerT_19571-T1
Valid prediction for snap_scaffold_8-snap.785-T1
Valid prediction for Augustus_model.g13009.t1
Valid prediction for snap_scaffold_8-snap.759-T1
Valid prediction for GlimmerHMM_glimmerT_19574-T1
Couldn't classify 137150, 137405
Couldn't classify 138226, 138356
Sorry, prediction pasa_asmbl_51755.p1 fails validation.
(GGG)	 CA	137150-137405	GT	AGG
(AGT)	 AG	138226-138356	CC	TGC
Valid prediction for GlimmerHMM_glimmerT_19575-T1
Valid prediction for snap_scaffold_8-snap.778-T1
Valid prediction for snap_scaffold_8-snap.772-T1
Valid prediction for GlimmerHMM_glimmerT_19587-T1
Valid prediction for snap_scaffold_8-snap.771-T1
Valid prediction for snap_scaffold_8-snap.768-T1
Valid prediction for snap_scaffold_8-snap.783-T1
Valid prediction for Augustus_model.g13007.t1
Valid prediction for CodingQuarry_transcript_59616-T1
Valid prediction for snap_scaffold_8-snap.774-T1
Valid prediction for Augustus_model.g13020.t1
Valid prediction for GlimmerHMM_glimmerT_19565-T1
Valid prediction for snap_scaffold_8-snap.767-T1
Valid prediction for snap_scaffold_8-snap.788-T1
Valid prediction for snap_scaffold_8-snap.762-T1
Valid prediction for snap_scaffold_8-snap.746-T1
Valid prediction for snap_scaffold_8-snap.760-T1
Valid prediction for GlimmerHMM_glimmerT_19573-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17336, rend_intergenic: 4989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26656, rend_intergenic: 18770  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33810, rend_intergenic: 29086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59068, rend_intergenic: 42524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69922, rend_intergenic: 59083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84721, rend_intergenic: 74390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88493, rend_intergenic: 85954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93387, rend_intergenic: 90383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111165, rend_intergenic: 106383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119448, rend_intergenic: 112571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123677, rend_intergenic: 120104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134648, rend_intergenic: 129844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141658, rend_intergenic: 137441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146458, rend_intergenic: 143926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147842, rend_intergenic: 146469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149983, rend_intergenic: 149004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151217, rend_intergenic: 150000  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158833, rend_intergenic: 155700  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160945, rend_intergenic: 160804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166148, rend_intergenic: 161993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184676, rend_intergenic: 178234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 186020
-exon list size: 389


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
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3.6    
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5.9    
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6.9    
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7.4    
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7.9    
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8.7    
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9.2    
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9.7    
10.0    
10.2    
10.5    
10.7    
11.0    
11.3    
11.5    
11.8    
12.0    
12.3    
12.5    
12.8    
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13.3    
13.6    
13.8    
14.1    
14.3    
14.6    
14.8    
15.1    
15.3    
15.6    
15.9    
16.1    
16.4    
16.6    
16.9    
17.1    
17.4    
17.6    
17.9    
18.2    
18.4    
18.7    
18.9    
19.2    
19.4    
19.7    
19.9    
20.2    
20.5    
20.7    
21.0    
21.2    
21.5    
21.7    
22.0    
22.3    
22.5    
22.8    
23.0    
23.3    
23.5    
23.8    
24.0    
24.3    
24.6    
24.8    
25.1    
25.3    
25.6    
25.8    
26.1    
26.3    
26.6    
26.9    
27.1    
27.4    
27.6    
27.9    
28.1    
28.4    
28.6    
28.9    
29.2    
29.4    
29.7    
29.9    
30.2    
30.4    
30.7    
30.9    
31.2    
31.5    
31.7    
32.0    
32.2    
32.5    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.5    
34.8    
35.0    
35.3    
35.5    
35.8    
36.1    
36.3    
36.6    
36.8    
37.1    
37.3    
37.6    
37.9    
38.1    
38.4    
38.6    
38.9    
39.1    
39.4    
39.6    
39.9    
40.2    
40.4    
40.7    
40.9    
41.2    
41.4    
41.7    
41.9    
42.2    
42.5    
42.7    
43.0    
43.2    
43.5    
43.7    
44.0    
44.2    
44.5    
44.8    
45.0    
45.3    
45.5    
45.8    
46.0    
46.3    
46.5    
46.8    
47.1    
47.3    
47.6    
47.8    
48.1    
48.3    
48.6    
48.8    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.2    
51.4    
51.7    
51.9    
52.2    
52.4    
52.7    
52.9    
53.2    
53.5    
53.7    
54.0    
54.2    
54.5    
54.7    
55.0    
55.2    
55.5    
55.8    
56.0    
56.3    
56.5    
56.8    
57.0    
57.3    
57.5    
57.8    
58.1    
58.3    
58.6    
58.8    
59.1    
59.3    
59.6    
59.8    
60.1    
60.4    
60.6    
60.9    
61.1    
61.4    
61.6    
61.9    
62.1    
62.4    
62.7    
62.9    
63.2    
63.4    
63.7    
63.9    
64.2    
64.5    
64.7    
65.0    
65.2    
65.5    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.5    
67.8    
68.0    
68.3    
68.5    
68.8    
69.1    
69.3    
69.6    
69.8    
70.1    
70.3    
70.6    
70.8    
71.1    
71.4    
71.6    
71.9    
72.1    
72.4    
72.6    
72.9    
73.1    
73.4    
73.7    
73.9    
74.2    
74.4    
74.7    
74.9    
75.2    
75.4    
75.7    
76.0    
76.2    
76.5    
76.7    
77.0    
77.2    
77.5    
77.7    
78.0    
78.3    
78.5    
78.8    
79.0    
79.3    
79.5    
79.8    
80.1    
80.3    
80.6    
80.8    
81.1    
81.3    
81.6    
81.8    
82.1    
82.4    
82.6    
82.9    
83.1    
83.4    
83.6    
83.9    
84.1    
84.4    
84.7    
84.9    
85.2    
85.4    
85.7    
85.9    
86.2    
86.4    
86.7    
87.0    
87.2    
87.5    
87.7    
88.0    
88.2    
88.5    
88.7    
89.0    
89.3    
89.5    
89.8    
90.0    
90.3    
90.5    
90.8    
91.0    
91.3    
91.6    
91.8    
92.1    
92.3    
92.6    
92.8    
93.1    
93.4    
93.6    
93.9    
94.1    
94.4    
94.6    
94.9    
95.1    
95.4    
95.7    
95.9    
96.2    
96.4    
96.7    
96.9    
97.2    
97.4    
97.7    
98.0    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 17336, rend_intergenic: 4989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26656, rend_intergenic: 18770  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33810, rend_intergenic: 29086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59068, rend_intergenic: 42524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69922, rend_intergenic: 59083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84721, rend_intergenic: 74390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88493, rend_intergenic: 85954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93387, rend_intergenic: 90383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111165, rend_intergenic: 106383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119448, rend_intergenic: 112571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123677, rend_intergenic: 120104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134648, rend_intergenic: 129844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141658, rend_intergenic: 137441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146458, rend_intergenic: 143926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147842, rend_intergenic: 146469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149983, rend_intergenic: 149004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151217, rend_intergenic: 150000  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158833, rend_intergenic: 155700  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160945, rend_intergenic: 160804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166148, rend_intergenic: 161993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184676, rend_intergenic: 178234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support