-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_181717-357006

-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.68-T1
Valid prediction for GlimmerHMM_glimmerT_45298-T1
Valid prediction for Augustus_model.g30060.t1
Valid prediction for snap_scaffold_20-snap.43-T1
Valid prediction for GlimmerHMM_glimmerT_45314-T1
Valid prediction for GlimmerHMM_glimmerT_45302-T1
Couldn't classify 51576, 51914
Sorry, prediction pasa_asmbl_25466.p1 fails validation.
(GTG)	 GT	51576-51914	CC	CCC
Valid prediction for snap_scaffold_20-snap.64-T1
Valid prediction for snap_scaffold_20-snap.62-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_45301-T1
Valid prediction for snap_scaffold_20-snap.54-T1
Valid prediction for Augustus_model.g30056.t1
Valid prediction for snap_scaffold_20-snap.44-T1
Valid prediction for snap_scaffold_20-snap.50-T1
Valid prediction for Augustus_model.g30059.t1
Valid prediction for snap_scaffold_20-snap.45-T1
Valid prediction for snap_scaffold_20-snap.59-T1
Couldn't classify 42656, 42767
Sorry, prediction pasa_asmbl_26343.p1 fails validation.
(AGC)	 AT	42656-42767	GT	AGG
(CCA)	 AG	43081-43139	GT	TGG
(AAC)	 AG	43233-43295	GT	AGG
(TAC)	 AG	43531-43605	GC	AGG
-recovered pasa_asmbl_26343.p1, terminal, 43531, 43605
-recovered pasa_asmbl_26343.p1, internal, 43081, 43139
-recovered pasa_asmbl_26343.p1, internal, 43233, 43295
-recovered pasa_asmbl_26343.p1, internal, 43531, 43605
Valid prediction for Augustus_model.g30065.t1
Valid prediction for snap_scaffold_20-snap.39-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g30057.t1
Valid prediction for snap_scaffold_20-snap.56-T1
Valid prediction for snap_scaffold_20-snap.47-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.61-T1
Valid prediction for GlimmerHMM_glimmerT_45309-T1
Valid prediction for GlimmerHMM_glimmerT_45299-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 GlimmerHMM_glimmerT_45300-T1
Couldn't classify 116908, 117044
Sorry, prediction pasa_asmbl_25472.p1 fails validation.
(ATG)	 TT	114013-114207	GT	AGG
(GTG)	 AG	114848-115257	GT	GAG
(ATA)	 AG	115587-116314	GT	AGG
(AGT)	 AG	116908-117044	GC	AAG
-recovered pasa_asmbl_25472.p1, initial, 114013, 114207
-recovered pasa_asmbl_25472.p1, internal, 114848, 115257
-recovered pasa_asmbl_25472.p1, internal, 115587, 116314
-recovered pasa_asmbl_25472.p1, internal, 116908, 117044
Valid prediction for snap_scaffold_20-snap.46-T1
Valid prediction for GlimmerHMM_glimmerT_45317-T1
Valid prediction for snap_scaffold_20-snap.40-T1
Valid prediction for snap_scaffold_20-snap.53-T1
Valid prediction for snap_scaffold_20-snap.41-T1
Valid prediction for snap_scaffold_20-snap.49-T1
Valid prediction for Augustus_model.g30070.t1
Valid prediction for snap_scaffold_20-snap.38-T1
Couldn't classify 110042, 110197
Sorry, prediction pasa_asmbl_25475.p1 fails validation.
(AGC)	 AC	110042-110197	GT	AGG
(GCG)	 AG	110570-110733	GT	AGG
(GTT)	 AG	110917-111069	GT	AGG
(TCC)	 AG	111202-111709	CA	AAC
-recovered pasa_asmbl_25475.p1, terminal, 111202, 111709
-recovered pasa_asmbl_25475.p1, internal, 110570, 110733
-recovered pasa_asmbl_25475.p1, internal, 110917, 111069
Valid prediction for pasa_asmbl_25477.p1
Valid prediction for HiQ_model.g30061.t1
Valid prediction for snap_scaffold_20-snap.65-T1
Couldn't classify 34587, 34694
Sorry, prediction pasa_asmbl_25487.p1 fails validation.
(ATG)	 GG	32792-32858	GT	CGG
(GAG)	 AG	33483-33553	GT	GGG
(AAA)	 AG	33820-33999	GT	AGG
(AAG)	 AG	34587-34694	GT	AGG
-recovered pasa_asmbl_25487.p1, initial, 32792, 32858
-recovered pasa_asmbl_25487.p1, internal, 33483, 33553
-recovered pasa_asmbl_25487.p1, internal, 33820, 33999
-recovered pasa_asmbl_25487.p1, internal, 34587, 34694
Valid prediction for HiQ_model.g30063.t1
Couldn't classify 71938, 72478
Couldn't classify 72643, 72725
Sorry, prediction pasa_asmbl_25483.p1 fails validation.
(GAG)	 GA	71938-72478	GT	AGG
(GTT)	 AG	72643-72725	CA	GAC
Valid prediction for GlimmerHMM_glimmerT_45310-T1
Valid prediction for Augustus_model.g30071.t1
Valid prediction for snap_scaffold_20-snap.51-T1
Valid prediction for snap_scaffold_20-snap.52-T1
Couldn't classify 81686, 81772
Sorry, prediction pasa_asmbl_26276.p1 fails validation.
(ATG)	 GA	80992-81096	GT	TGG
(GTG)	 AG	81244-81381	GT	AGG
(GTA)	 AG	81686-81772	GG	CCG
-recovered pasa_asmbl_26276.p1, initial, 80992, 81096
-recovered pasa_asmbl_26276.p1, internal, 81244, 81381
Valid prediction for GlimmerHMM_glimmerT_45315-T1
Valid prediction for GlimmerHMM_glimmerT_45303-T1
Valid prediction for Augustus_model.g30058.t1
Valid prediction for Augustus_model.g30068.t1
Valid prediction for snap_scaffold_20-snap.67-T1
Valid prediction for CodingQuarry_transcript_30374-T1
Valid prediction for snap_scaffold_20-snap.57-T1
Valid prediction for Augustus_model.g30067.t1
Valid prediction for GlimmerHMM_glimmerT_45311-T1
Valid prediction for snap_scaffold_20-snap.55-T1
Valid prediction for snap_scaffold_20-snap.63-T1
Valid prediction for snap_scaffold_20-snap.66-T1
Valid prediction for GlimmerHMM_glimmerT_45306-T1
Valid prediction for Augustus_model.g30066.t1
Couldn't classify 117150, 117366
Sorry, prediction pasa_asmbl_25469.p1 fails validation.
(GCG)	 AG	117150-117366	GT	GGG
(TTC)	 AG	117589-118081	GT	AGG
(ATC)	 AG	118174-118624	AA	AGA
-recovered pasa_asmbl_25469.p1, terminal, 118174, 118624
-recovered pasa_asmbl_25469.p1, internal, 117150, 117366
-recovered pasa_asmbl_25469.p1, internal, 117589, 118081
Valid prediction for GlimmerHMM_glimmerT_45308-T1
Valid prediction for CodingQuarry_transcript_30373-T1
Valid prediction for snap_scaffold_20-snap.48-T1
Valid prediction for CodingQuarry_transcript_30372-T1
Valid prediction for GlimmerHMM_glimmerT_45305-T1
Valid prediction for Augustus_model.g30064.t1
Valid prediction for GlimmerHMM_glimmerT_45312-T1
Valid prediction for GlimmerHMM_glimmerT_45304-T1
Valid prediction for GlimmerHMM_glimmerT_45316-T1
Valid prediction for snap_scaffold_20-snap.58-T1
Valid prediction for snap_scaffold_20-snap.60-T1
Valid prediction for GlimmerHMM_glimmerT_45307-T1
Valid prediction for Augustus_model.g30069.t1
Valid prediction for snap_scaffold_20-snap.42-T1
Valid prediction for HiQ_model.g30062.t1
Valid prediction for GlimmerHMM_glimmerT_45313-T1
Valid prediction for CodingQuarry_transcript_30371-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7672, rend_intergenic: 5007  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24077, rend_intergenic: 9645  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34722, rend_intergenic: 24084  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43784, rend_intergenic: 35817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60348, rend_intergenic: 45967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71933, rend_intergenic: 63582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87101, rend_intergenic: 73027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88197, rend_intergenic: 87954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92741, rend_intergenic: 88474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106439, rend_intergenic: 95074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129724, rend_intergenic: 115197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142005, rend_intergenic: 140020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149665, rend_intergenic: 144332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151616, rend_intergenic: 149753  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 175290
-exon list size: 343


building trellis

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10.4    
10.7    
11.0    
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11.6    
11.9    
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13.6    
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14.2    
14.5    
14.8    
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28.4    
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29.3    
29.6    
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30.1    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.2    
32.5    
32.8    
33.0    
33.3    
33.6    
33.9    
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34.5    
34.8    
35.1    
35.4    
35.7    
35.9    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.8    
39.1    
39.4    
39.7    
40.0    
40.3    
40.6    
40.9    
41.2    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.1    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
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    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
55.9    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.8    
59.1    
59.4    
59.7    
60.0    
60.3    
60.6    
60.9    
61.2    
61.4    
61.7    
62.0    
62.3    
62.6    
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63.2    
63.5    
63.8    
64.1    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.2    
67.5    
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68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
69.9    
70.1    
70.4    
70.7    
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71.3    
71.6    
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72.2    
72.5    
72.8    
73.0    
73.3    
73.6    
73.9    
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75.4    
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75.9    
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77.4    
77.7    
78.0    
78.3    
78.6    
78.8    
79.1    
79.4    
79.7    
80.0    
80.3    
80.6    
80.9    
81.2    
81.4    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.1    
86.4    
86.7    
87.0    
87.2    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.6    
89.9    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.8    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
95.1    
95.4    
95.7    
95.9    
96.2    
96.5    
96.8    
97.1    
97.4    
97.7    
98.0    
98.3    
98.6    
98.8    
99.1    
99.4    
99.7    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 7672, rend_intergenic: 5007  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24077, rend_intergenic: 9645  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34722, rend_intergenic: 24084  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43784, rend_intergenic: 35817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60348, rend_intergenic: 45967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71933, rend_intergenic: 63582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87101, rend_intergenic: 73027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88197, rend_intergenic: 87954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92741, rend_intergenic: 88474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106439, rend_intergenic: 95074  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129724, rend_intergenic: 115197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142005, rend_intergenic: 140020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149665, rend_intergenic: 144332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151616, rend_intergenic: 149753  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 153530 - 175290
-exon list size: 1


building trellis

33.3    
66.7    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support
	-no exons in range 153530 - 173012