-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_20/scaffold_20_8410843-8590151

-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_20-snap.1832-T1
Valid prediction for Augustus_model.g30865.t1
Valid prediction for snap_scaffold_20-snap.1823-T1
Valid prediction for Augustus_model.g30858.t1
Valid prediction for snap_scaffold_20-snap.1856-T1
Valid prediction for Augustus_model.g30853.t1
Valid prediction for GlimmerHMM_glimmerT_46464-T1
Valid prediction for snap_scaffold_20-snap.1847-T1
Valid prediction for GlimmerHMM_glimmerT_46469-T1
Couldn't classify 20289, 20324
Sorry, prediction pasa_asmbl_26777.p1 fails validation.
(CCC)	 AC	20289-20324	GT	CTG
(TGC)	 AG	20528-20625	GT	AAG
(GCT)	 AG	20986-21169	GT	AGG
(GTG)	 AG	21812-21942	GT	CAG
(GAT)	 AG	22109-22264	GT	TGG
(CCT)	 AG	22506-22584	GT	TGG
(GAG)	 AG	22824-23021	AC	AAA
-recovered pasa_asmbl_26777.p1, terminal, 22824, 23021
-recovered pasa_asmbl_26777.p1, internal, 20528, 20625
-recovered pasa_asmbl_26777.p1, internal, 20986, 21169
-recovered pasa_asmbl_26777.p1, internal, 21812, 21942
-recovered pasa_asmbl_26777.p1, internal, 22109, 22264
-recovered pasa_asmbl_26777.p1, internal, 22506, 22584
Couldn't classify 126013, 126111
Sorry, prediction pasa_asmbl_26784.p1 fails validation.
(AGG)	 AG	126013-126111	GT	TGG
(ATC)	 AG	126235-126367	GT	GTG
(CCC)	 AG	126533-126669	GT	AGG
(GAA)	 AG	126794-126829	GG	GAG
-recovered pasa_asmbl_26784.p1, terminal, 126794, 126829
-recovered pasa_asmbl_26784.p1, internal, 126013, 126111
-recovered pasa_asmbl_26784.p1, internal, 126235, 126367
-recovered pasa_asmbl_26784.p1, internal, 126533, 126669
Valid prediction for snap_scaffold_20-snap.1842-T1
Valid prediction for snap_scaffold_20-snap.1828-T1
Valid prediction for GlimmerHMM_glimmerT_46468-T1
Couldn't classify 140372, 140592
Couldn't classify 141633, 141659
Sorry, prediction pasa_asmbl_26786.p1 fails validation.
(TTG)	 AG	140372-140592	GT	AAG
(CTT)	 AG	140771-140889	GT	GGG
(ACA)	 AG	140996-141135	GT	AGG
(GAC)	 AG	141633-141659	AC	GCA
-recovered pasa_asmbl_26786.p1, internal, 140372, 140592
-recovered pasa_asmbl_26786.p1, internal, 140771, 140889
-recovered pasa_asmbl_26786.p1, internal, 140996, 141135
Valid prediction for snap_scaffold_20-snap.1840-T1
Couldn't classify 103783, 104126
Couldn't classify 104324, 104357
Sorry, prediction pasa_asmbl_26781.p2 fails validation.
(TGG)	 CG	103783-104126	GT	AGG
(GAA)	 AG	104324-104357	CT	ACC
Valid prediction for snap_scaffold_20-snap.1825-T1
Couldn't classify 138327, 138360
Couldn't classify 139644, 139726
Sorry, prediction pasa_asmbl_26785.p1 fails validation.
(GAC)	 TG	138327-138360	GT	CAG
(CTC)	 AG	138536-138658	GT	TGG
(ATA)	 AG	138795-138917	GT	TGG
(GCA)	 AG	139270-139392	GT	AGG
(ACA)	 AG	139644-139726	GG	AAG
-recovered pasa_asmbl_26785.p1, internal, 138536, 138658
-recovered pasa_asmbl_26785.p1, internal, 138795, 138917
-recovered pasa_asmbl_26785.p1, internal, 139270, 139392
Couldn't classify 104606, 104743
Couldn't classify 106077, 106178
Sorry, prediction pasa_asmbl_26782.p1 fails validation.
(GAT)	 AA	104606-104743	GT	AGG
(AAA)	 AG	104931-105009	GT	AGG
(ATG)	 AG	105099-105175	GT	AGG
(TCC)	 AG	105484-105603	GT	AGG
(GCC)	 AG	106077-106178	CC	CCC
add_exon() Sorry, pasa_asmbl_26782.p1 105099-105175-initial-1 is invalid.
-recovered pasa_asmbl_26782.p1, initial, 105099, 105175
-recovered pasa_asmbl_26782.p1, internal, 104931, 105009
-recovered pasa_asmbl_26782.p1, internal, 105099, 105175
-recovered pasa_asmbl_26782.p1, internal, 105484, 105603
Valid prediction for GlimmerHMM_glimmerT_46456-T1
Valid prediction for snap_scaffold_20-snap.1838-T1
Valid prediction for Augustus_model.g30856.t1
Valid prediction for Augustus_model.g30860.t1
Valid prediction for snap_scaffold_20-snap.1835-T1
Valid prediction for GlimmerHMM_glimmerT_46461-T1
Valid prediction for GlimmerHMM_glimmerT_46459-T1
Valid prediction for Augustus_model.g30861.t1
Couldn't classify 103010, 103107
Sorry, prediction pasa_asmbl_27139.p1 fails validation.
(ATG)	 CC	101665-101872	GT	TGG
(GAT)	 AG	102182-102265	GT	AGG
(ACG)	 AG	103010-103107	TG	ACT
-recovered pasa_asmbl_27139.p1, initial, 101665, 101872
-recovered pasa_asmbl_27139.p1, internal, 102182, 102265
Valid prediction for snap_scaffold_20-snap.1849-T1
Valid prediction for GlimmerHMM_glimmerT_46451-T1
Valid prediction for snap_scaffold_20-snap.1843-T1
Valid prediction for Augustus_model.g30862.t1
Valid prediction for GlimmerHMM_glimmerT_46449-T1
Valid prediction for Augustus_model.g30863.t1
Valid prediction for Augustus_model.g30864.t1
Valid prediction for GlimmerHMM_glimmerT_46466-T1
Valid prediction for Augustus_model.g30854.t1
Couldn't classify 17718, 17818
Sorry, prediction pasa_asmbl_26775.p1 fails validation.
(ATG)	 AA	15136-15151	GT	AGG
(TGT)	 AG	15563-15827	GT	AAG
(GGA)	 AG	16313-16461	GT	GGG
(GGA)	 AG	17718-17818	CC	TGC
-recovered pasa_asmbl_26775.p1, initial, 15136, 15151
-recovered pasa_asmbl_26775.p1, internal, 15563, 15827
-recovered pasa_asmbl_26775.p1, internal, 16313, 16461
Valid prediction for GlimmerHMM_glimmerT_46457-T1
Valid prediction for snap_scaffold_20-snap.1837-T1
Valid prediction for pasa_asmbl_26780.p1
Valid prediction for snap_scaffold_20-snap.1855-T1
Valid prediction for snap_scaffold_20-snap.1854-T1
Valid prediction for snap_scaffold_20-snap.1851-T1
Valid prediction for GlimmerHMM_glimmerT_46454-T1
Valid prediction for snap_scaffold_20-snap.1846-T1
Valid prediction for GlimmerHMM_glimmerT_46453-T1
Valid prediction for GlimmerHMM_glimmerT_46463-T1
Valid prediction for GlimmerHMM_glimmerT_46465-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_20-snap.1841-T1
Valid prediction for GlimmerHMM_glimmerT_46458-T1
Valid prediction for Augustus_model.g30857.t1
Valid prediction for GlimmerHMM_glimmerT_46460-T1
Valid prediction for GlimmerHMM_glimmerT_46447-T1
Valid prediction for snap_scaffold_20-snap.1824-T1
Valid prediction for snap_scaffold_20-snap.1850-T1
Valid prediction for GlimmerHMM_glimmerT_46455-T1
Valid prediction for snap_scaffold_20-snap.1853-T1
Couldn't classify 12188, 12282
Sorry, prediction pasa_asmbl_25998.p1 fails validation.
(ATG)	 AA	7280-7585	GT	GGG
(GTG)	 AG	8667-8912	GT	AGG
(GTG)	 AG	9981-10657	GT	AGG
(ATA)	 AG	11182-11387	GT	AGG
(GCG)	 AG	11734-11910	GT	GGG
(GCG)	 AG	12188-12282	AG	GGA
-recovered pasa_asmbl_25998.p1, initial, 7280, 7585
-recovered pasa_asmbl_25998.p1, internal, 8667, 8912
-recovered pasa_asmbl_25998.p1, internal, 9981, 10657
-recovered pasa_asmbl_25998.p1, internal, 11182, 11387
-recovered pasa_asmbl_25998.p1, internal, 11734, 11910
Valid prediction for Augustus_model.g30851.t1
Valid prediction for snap_scaffold_20-snap.1857-T1
Valid prediction for snap_scaffold_20-snap.1845-T1
Valid prediction for Augustus_model.g30852.t1
Valid prediction for Augustus_model.g30866.t1
Valid prediction for snap_scaffold_20-snap.1830-T1
Valid prediction for GlimmerHMM_glimmerT_46462-T1
Valid prediction for snap_scaffold_20-snap.1822-T1
Valid prediction for snap_scaffold_20-snap.1844-T1
Valid prediction for Augustus_model.g30859.t1
Valid prediction for GlimmerHMM_glimmerT_46452-T1
Valid prediction for GlimmerHMM_glimmerT_46470-T1
Valid prediction for snap_scaffold_20-snap.1827-T1
Valid prediction for GlimmerHMM_glimmerT_46467-T1
Valid prediction for snap_scaffold_20-snap.1831-T1
Valid prediction for snap_scaffold_20-snap.1836-T1
Valid prediction for GlimmerHMM_glimmerT_46450-T1
Valid prediction for snap_scaffold_20-snap.1848-T1
Valid prediction for snap_scaffold_20-snap.1858-T1
Valid prediction for snap_scaffold_20-snap.1833-T1
Valid prediction for snap_scaffold_20-snap.1826-T1
Valid prediction for snap_scaffold_20-snap.1852-T1
Valid prediction for Augustus_model.g30855.t1
Valid prediction for snap_scaffold_20-snap.1821-T1
Valid prediction for snap_scaffold_20-snap.1829-T1
Valid prediction for snap_scaffold_20-snap.1834-T1
Valid prediction for HiQ_model.g30867.t1
Valid prediction for GlimmerHMM_glimmerT_46471-T1
Valid prediction for snap_scaffold_20-snap.1839-T1
Valid prediction for GlimmerHMM_glimmerT_46448-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 23021, rend_intergenic: 16316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57679, rend_intergenic: 52509  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65134, rend_intergenic: 63532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66038, rend_intergenic: 66024  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73479, rend_intergenic: 66127  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76850, rend_intergenic: 75103  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83897, rend_intergenic: 78179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97216, rend_intergenic: 87182  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115480, rend_intergenic: 110675  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117220, rend_intergenic: 115565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120829, rend_intergenic: 117793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121937, rend_intergenic: 120866  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126911, rend_intergenic: 124609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 179309
-exon list size: 426


building trellis

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20.1    
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20.6    
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21.3    
21.5    
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22.9    
23.1    
23.4    
23.6    
23.8    
24.1    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
25.9    
26.2    
26.4    
26.6    
26.9    
27.1    
27.3    
27.6    
27.8    
28.0    
28.3    
28.5    
28.7    
29.0    
29.2    
29.4    
29.7    
29.9    
30.1    
30.4    
30.6    
30.8    
31.1    
31.3    
31.5    
31.8    
32.0    
32.2    
32.5    
32.7    
32.9    
33.2    
33.4    
33.6    
33.9    
34.1    
34.3    
34.6    
34.8    
35.0    
35.3    
35.5    
35.7    
36.0    
36.2    
36.4    
36.7    
36.9    
37.1    
37.4    
37.6    
37.9    
38.1    
38.3    
38.6    
38.8    
39.0    
39.3    
39.5    
39.7    
40.0    
40.2    
40.4    
40.7    
40.9    
41.1    
41.4    
41.6    
41.8    
42.1    
42.3    
42.5    
42.8    
43.0    
43.2    
43.5    
43.7    
43.9    
44.2    
44.4    
44.6    
44.9    
45.1    
45.3    
45.6    
45.8    
46.0    
46.3    
46.5    
46.7    
47.0    
47.2    
47.4    
47.7    
47.9    
48.1    
48.4    
48.6    
48.8    
49.1    
49.3    
49.5    
49.8    
50.0    
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50.5    
50.7    
50.9    
51.2    
51.4    
51.6    
51.9    
52.1    
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52.6    
52.8    
53.0    
53.3    
53.5    
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54.0    
54.2    
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55.1    
55.4    
55.6    
55.8    
56.1    
56.3    
56.5    
56.8    
57.0    
57.2    
57.5    
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57.9    
58.2    
58.4    
58.6    
58.9    
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59.6    
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60.0    
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60.7    
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65.0    
65.2    
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65.9    
66.1    
66.4    
66.6    
66.8    
67.1    
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67.5    
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68.0    
68.2    
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68.9    
69.2    
69.4    
69.6    
69.9    
70.1    
70.3    
70.6    
70.8    
71.0    
71.3    
71.5    
71.7    
72.0    
72.2    
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72.7    
72.9    
73.1    
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73.6    
73.8    
74.1    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
75.9    
76.2    
76.4    
76.6    
76.9    
77.1    
77.3    
77.6    
77.8    
78.0    
78.3    
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78.7    
79.0    
79.2    
79.4    
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79.9    
80.1    
80.4    
80.6    
80.8    
81.1    
81.3    
81.5    
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82.0    
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82.9    
83.2    
83.4    
83.6    
83.9    
84.1    
84.3    
84.6    
84.8    
85.0    
85.3    
85.5    
85.7    
86.0    
86.2    
86.4    
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86.9    
87.1    
87.4    
87.6    
87.9    
88.1    
88.3    
88.6    
88.8    
89.0    
89.3    
89.5    
89.7    
90.0    
90.2    
90.4    
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90.9    
91.1    
91.4    
91.6    
91.8    
92.1    
92.3    
92.5    
92.8    
93.0    
93.2    
93.5    
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93.9    
94.2    
94.4    
94.6    
94.9    
95.1    
95.3    
95.6    
95.8    
96.0    
96.3    
96.5    
96.7    
97.0    
97.2    
97.4    
97.7    
97.9    
98.1    
98.4    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 23021, rend_intergenic: 16316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57679, rend_intergenic: 52509  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65134, rend_intergenic: 63532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66038, rend_intergenic: 66024  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73479, rend_intergenic: 66127  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76850, rend_intergenic: 75103  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83897, rend_intergenic: 78179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97216, rend_intergenic: 87182  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115480, rend_intergenic: 110675  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117220, rend_intergenic: 115565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120829, rend_intergenic: 117793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121937, rend_intergenic: 120866  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126911, rend_intergenic: 124609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support