-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_14730631-14891305

-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: +)Couldn't classify 9296, 9345
Sorry, prediction pasa_asmbl_3661.p1 fails validation.
(CTT)	 TC	9296-9345	GC	TGG
(GCT)	 AG	9437-9503	GT	CGG
(AAG)	 AG	9596-10363	CT	AAC
-recovered pasa_asmbl_3661.p1, terminal, 9596, 10363
-recovered pasa_asmbl_3661.p1, internal, 9437, 9503
Couldn't classify 150594, 150659
Sorry, prediction pasa_asmbl_3672.p1 fails validation.
(ATG)	 AG	145129-145159	GT	CAG
(TTG)	 AG	145411-145487	GT	AGG
(TCT)	 AG	146661-146739	GT	CTG
(CCT)	 AG	148055-148158	GT	AGG
(GTG)	 AG	148331-148479	GT	GGG
(GGA)	 AG	149040-149124	GT	AGG
(GGT)	 AG	149540-149670	GT	AAG
(GTA)	 AG	149758-149865	GT	CAG
(GGA)	 AG	150098-150158	GT	AGG
(ACC)	 AG	150594-150659	GT	AGG
-recovered pasa_asmbl_3672.p1, initial, 145129, 145159
-recovered pasa_asmbl_3672.p1, internal, 145129, 145159
-recovered pasa_asmbl_3672.p1, internal, 145411, 145487
-recovered pasa_asmbl_3672.p1, internal, 146661, 146739
-recovered pasa_asmbl_3672.p1, internal, 148055, 148158
-recovered pasa_asmbl_3672.p1, internal, 148331, 148479
-recovered pasa_asmbl_3672.p1, internal, 149040, 149124
-recovered pasa_asmbl_3672.p1, internal, 149540, 149670
-recovered pasa_asmbl_3672.p1, internal, 149758, 149865
-recovered pasa_asmbl_3672.p1, internal, 150098, 150158
-recovered pasa_asmbl_3672.p1, internal, 150594, 150659
Valid prediction for snap_scaffold_10-snap.2959-T1
Valid prediction for Augustus_model.g17234.t1
Valid prediction for Augustus_model.g17233.t1
Valid prediction for Augustus_model.g17239.t1
Valid prediction for snap_scaffold_10-snap.2955-T1
Valid prediction for snap_scaffold_10-snap.2969-T1
Couldn't classify 92390, 93565
Sorry, prediction pasa_asmbl_3665.p1 fails validation.
(GAG)	 CA	92390-93565	GA	AGG
Valid prediction for GlimmerHMM_glimmerT_25938-T1
Valid prediction for Augustus_model.g17232.t1
Valid prediction for snap_scaffold_10-snap.2984-T1
Valid prediction for HiQ_model.g17243.t1
Valid prediction for snap_scaffold_10-snap.2966-T1
Valid prediction for snap_scaffold_10-snap.2988-T1
Valid prediction for GlimmerHMM_glimmerT_25945-T1
Valid prediction for HiQ_model.g17250.t1
Valid prediction for GlimmerHMM_glimmerT_25924-T1
Valid prediction for GlimmerHMM_glimmerT_25928-T1
Valid prediction for Augustus_model.g17242.t1
Valid prediction for GlimmerHMM_glimmerT_25925-T1
Valid prediction for Augustus_model.g17245.t1
Valid prediction for Augustus_model.g17244.t1
Valid prediction for snap_scaffold_10-snap.2976-T1
Couldn't classify 13280, 13825
Sorry, prediction pasa_asmbl_3662.p1 fails validation.
(CTC)	 AC	13280-13825	GG	GAG
Valid prediction for snap_scaffold_10-snap.2967-T1
Valid prediction for Augustus_model.g17235.t1
Valid prediction for snap_scaffold_10-snap.2963-T1
Valid prediction for GlimmerHMM_glimmerT_25944-T1
Valid prediction for GlimmerHMM_glimmerT_25943-T1
Valid prediction for Augustus_model.g17249.t1
Valid prediction for snap_scaffold_10-snap.2977-T1
Valid prediction for snap_scaffold_10-snap.2956-T1
Valid prediction for snap_scaffold_10-snap.2978-T1
Valid prediction for snap_scaffold_10-snap.2975-T1
Valid prediction for snap_scaffold_10-snap.2957-T1
Valid prediction for snap_scaffold_10-snap.2961-T1
Valid prediction for pasa_asmbl_3666.p1
Valid prediction for snap_scaffold_10-snap.2974-T1
Valid prediction for snap_scaffold_10-snap.2981-T1
Couldn't classify 79509, 79565
Couldn't classify 80307, 80429
Sorry, prediction pasa_asmbl_3663.p1 fails validation.
(AAA)	 CG	79509-79565	GT	CGG
(GTG)	 AG	79922-80095	GT	TGG
(GTG)	 AG	80307-80429	AA	AGA
-recovered pasa_asmbl_3663.p1, internal, 79922, 80095
Valid prediction for snap_scaffold_10-snap.2980-T1
Valid prediction for snap_scaffold_10-snap.2982-T1
Valid prediction for GlimmerHMM_glimmerT_25926-T1
Valid prediction for GlimmerHMM_glimmerT_25934-T1
Valid prediction for snap_scaffold_10-snap.2953-T1
Valid prediction for snap_scaffold_10-snap.2952-T1
Valid prediction for GlimmerHMM_glimmerT_25936-T1
Valid prediction for snap_scaffold_10-snap.2951-T1
Couldn't classify 92065, 92178
Sorry, prediction pasa_asmbl_3664.p1 fails validation.
(ATG)	 CG	91085-91361	GT	CGG
(GGA)	 AG	91502-91626	GT	AGG
(TCT)	 AG	92065-92178	GG	ATG
-recovered pasa_asmbl_3664.p1, initial, 91085, 91361
-recovered pasa_asmbl_3664.p1, internal, 91502, 91626
Valid prediction for GlimmerHMM_glimmerT_25927-T1
Valid prediction for snap_scaffold_10-snap.2950-T1
Valid prediction for snap_scaffold_10-snap.2986-T1
Valid prediction for GlimmerHMM_glimmerT_25937-T1
Valid prediction for GlimmerHMM_glimmerT_25946-T1
Valid prediction for snap_scaffold_10-snap.2964-T1
Valid prediction for CodingQuarry_transcript_5656-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 Augustus_model.g17238.t1
Valid prediction for GlimmerHMM_glimmerT_25932-T1
Valid prediction for snap_scaffold_10-snap.2973-T1
Valid prediction for snap_scaffold_10-snap.2971-T1
Valid prediction for Augustus_model.g17237.t1
Valid prediction for snap_scaffold_10-snap.2970-T1
Valid prediction for GlimmerHMM_glimmerT_25939-T1
Valid prediction for GlimmerHMM_glimmerT_25942-T1
Valid prediction for snap_scaffold_10-snap.2972-T1
Valid prediction for snap_scaffold_10-snap.2962-T1
Valid prediction for snap_scaffold_10-snap.2960-T1
Valid prediction for snap_scaffold_10-snap.2954-T1
Valid prediction for snap_scaffold_10-snap.2987-T1
Valid prediction for snap_scaffold_10-snap.2989-T1
Valid prediction for snap_scaffold_10-snap.2985-T1
Couldn't classify 41739, 41855
Couldn't classify 44599, 44733
Sorry, prediction pasa_asmbl_4965.p1 fails validation.
(GGC)	 CA	41739-41855	GT	AGG
(ATC)	 AG	44138-44242	GT	TGG
(ATC)	 AG	44599-44733	AG	CCA
-recovered pasa_asmbl_4965.p1, internal, 44138, 44242
Valid prediction for snap_scaffold_10-snap.2968-T1
Valid prediction for Augustus_model.g17236.t1
Valid prediction for GlimmerHMM_glimmerT_25929-T1
Valid prediction for GlimmerHMM_glimmerT_25941-T1
Valid prediction for GlimmerHMM_glimmerT_25935-T1
Valid prediction for Augustus_model.g17247.t1
Valid prediction for Augustus_model.g17240.t1
Valid prediction for GlimmerHMM_glimmerT_25931-T1
Valid prediction for snap_scaffold_10-snap.2965-T1
Valid prediction for Augustus_model.g17241.t1
Valid prediction for GlimmerHMM_glimmerT_25933-T1
Valid prediction for Augustus_model.g17246.t1
Valid prediction for pasa_asmbl_4963.p1
Valid prediction for snap_scaffold_10-snap.2958-T1
Valid prediction for Augustus_model.g17248.t1
Valid prediction for snap_scaffold_10-snap.2990-T1
Couldn't classify 49989, 50131
Sorry, prediction pasa_asmbl_5204.p1 fails validation.
(ATG)	 AC	47324-47332	GT	AGG
(CAC)	 AG	47972-48127	GT	AGG
(CAA)	 AG	48780-48893	GT	AGG
(AAA)	 AG	49130-49237	GT	CCG
(GAG)	 AG	49776-49887	GT	GGG
(CTG)	 AG	49989-50131	CT	ACC
-recovered pasa_asmbl_5204.p1, initial, 47324, 47332
-recovered pasa_asmbl_5204.p1, internal, 47972, 48127
-recovered pasa_asmbl_5204.p1, internal, 48780, 48893
-recovered pasa_asmbl_5204.p1, internal, 49130, 49237
-recovered pasa_asmbl_5204.p1, internal, 49776, 49887
Valid prediction for GlimmerHMM_glimmerT_25940-T1
Valid prediction for GlimmerHMM_glimmerT_25930-T1
Valid prediction for snap_scaffold_10-snap.2979-T1
Valid prediction for snap_scaffold_10-snap.2983-T1
Couldn't classify 35570, 35680
Couldn't classify 36309, 36394
Sorry, prediction pasa_asmbl_4966.p1 fails validation.
(TCC)	 AG	35570-35680	GT	AGG
(GCT)	 AG	36013-36118	GT	AGG
(GTG)	 AG	36309-36394	CG	ATC
-recovered pasa_asmbl_4966.p1, internal, 35570, 35680
-recovered pasa_asmbl_4966.p1, internal, 36013, 36118

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16691, rend_intergenic: 15009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43392, rend_intergenic: 41351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47799, rend_intergenic: 45406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57404, rend_intergenic: 49682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60250, rend_intergenic: 58470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66106, rend_intergenic: 62199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71270, rend_intergenic: 66763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83372, rend_intergenic: 71476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132061, rend_intergenic: 113098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139084, rend_intergenic: 136252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140253, rend_intergenic: 139184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144515, rend_intergenic: 140311  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146858, rend_intergenic: 144942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147316, rend_intergenic: 147079  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158694, rend_intergenic: 147930  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 160675
-exon list size: 334


building trellis

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1.5    
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2.4    
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5.7    
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7.1    
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8.0    
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8.6    
8.9    
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10.7    
11.0    
11.3    
11.6    
11.9    
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12.5    
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13.1    
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14.6    
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16.7    
17.0    
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17.6    
17.9    
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18.8    
19.0    
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19.6    
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21.7    
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22.6    
22.9    
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23.5    
23.8    
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24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.2    
81.5    
81.8    
82.1    
82.4    
82.7    
83.0    
83.3    
83.6    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.3    
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    
94.0    
94.3    
94.6    
94.9    
95.2    
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 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 16691, rend_intergenic: 15009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43392, rend_intergenic: 41351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47799, rend_intergenic: 45406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57404, rend_intergenic: 49682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60250, rend_intergenic: 58470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66106, rend_intergenic: 62199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71270, rend_intergenic: 66763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83372, rend_intergenic: 71476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132061, rend_intergenic: 113098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139084, rend_intergenic: 136252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140253, rend_intergenic: 139184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144515, rend_intergenic: 140311  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146858, rend_intergenic: 144942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147316, rend_intergenic: 147079  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158694, rend_intergenic: 147930  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support