-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_2141124-2337004

-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_18-snap.485-T1
Valid prediction for snap_scaffold_18-snap.464-T1
Valid prediction for snap_scaffold_18-snap.454-T1
Valid prediction for snap_scaffold_18-snap.455-T1
Valid prediction for snap_scaffold_18-snap.487-T1
Valid prediction for snap_scaffold_18-snap.477-T1
Valid prediction for GlimmerHMM_glimmerT_41901-T1
Valid prediction for Augustus_model.g27885.t1
Valid prediction for Augustus_model.g27888.t1
Valid prediction for snap_scaffold_18-snap.459-T1
Valid prediction for GlimmerHMM_glimmerT_41882-T1
Valid prediction for GlimmerHMM_glimmerT_41888-T1
Valid prediction for Augustus_model.g27891.t1
Valid prediction for snap_scaffold_18-snap.482-T1
Valid prediction for snap_scaffold_18-snap.473-T1
Valid prediction for snap_scaffold_18-snap.472-T1
Valid prediction for snap_scaffold_18-snap.465-T1
Valid prediction for GlimmerHMM_glimmerT_41897-T1
Valid prediction for snap_scaffold_18-snap.448-T1
Valid prediction for GlimmerHMM_glimmerT_41884-T1
Valid prediction for snap_scaffold_18-snap.486-T1
Valid prediction for snap_scaffold_18-snap.457-T1
Valid prediction for Augustus_model.g27900.t1
Valid prediction for snap_scaffold_18-snap.452-T1
Valid prediction for GlimmerHMM_glimmerT_41877-T1
Valid prediction for snap_scaffold_18-snap.479-T1
Valid prediction for GlimmerHMM_glimmerT_41892-T1
Valid prediction for GlimmerHMM_glimmerT_41894-T1
Valid prediction for snap_scaffold_18-snap.481-T1
Valid prediction for snap_scaffold_18-snap.468-T1
Valid prediction for snap_scaffold_18-snap.462-T1
Valid prediction for GlimmerHMM_glimmerT_41887-T1
Valid prediction for snap_scaffold_18-snap.469-T1
Valid prediction for GlimmerHMM_glimmerT_41883-T1
Valid prediction for snap_scaffold_18-snap.449-T1
Valid prediction for snap_scaffold_18-snap.470-T1
Valid prediction for snap_scaffold_18-snap.476-T1
Valid prediction for GlimmerHMM_glimmerT_41895-T1
Valid prediction for Augustus_model.g27894.t1
Valid prediction for Augustus_model.g27895.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_18-snap.483-T1
Valid prediction for CodingQuarry_transcript_23690-T1
Valid prediction for pasa_asmbl_19717.p1
Valid prediction for snap_scaffold_18-snap.451-T1
Valid prediction for GlimmerHMM_glimmerT_41885-T1
Valid prediction for Augustus_model.g27898.t1
Valid prediction for Augustus_model.g27892.t1
Valid prediction for Augustus_model.g27889.t1
Valid prediction for GlimmerHMM_glimmerT_41879-T1
Valid prediction for GlimmerHMM_glimmerT_41890-T1
Valid prediction for GlimmerHMM_glimmerT_41880-T1
Valid prediction for snap_scaffold_18-snap.460-T1
Valid prediction for GlimmerHMM_glimmerT_41898-T1
Valid prediction for Augustus_model.g27899.t1
Valid prediction for GlimmerHMM_glimmerT_41902-T1
Valid prediction for snap_scaffold_18-snap.471-T1
Valid prediction for snap_scaffold_18-snap.484-T1
Valid prediction for GlimmerHMM_glimmerT_41899-T1
Valid prediction for snap_scaffold_18-snap.475-T1
Valid prediction for Augustus_model.g27896.t1
Valid prediction for Augustus_model.g27893.t1
Couldn't classify 179251, 179438
Sorry, prediction pasa_asmbl_19712.p1 fails validation.
(CAG)	 CT	179251-179438	GT	AGG
(TTA)	 AG	180395-180626	GT	AGG
(GAC)	 AG	180881-181024	GT	GGG
(GTG)	 AG	183477-183615	GT	TGG
(GAA)	 AG	184015-184103	GT	CGG
(ACA)	 AG	186097-186153	CC	AGC
-recovered pasa_asmbl_19712.p1, terminal, 186097, 186153
-recovered pasa_asmbl_19712.p1, internal, 180395, 180626
-recovered pasa_asmbl_19712.p1, internal, 180881, 181024
-recovered pasa_asmbl_19712.p1, internal, 183477, 183615
-recovered pasa_asmbl_19712.p1, internal, 184015, 184103
Valid prediction for GlimmerHMM_glimmerT_41886-T1
Valid prediction for GlimmerHMM_glimmerT_41881-T1
Valid prediction for snap_scaffold_18-snap.480-T1
Valid prediction for Augustus_model.g27897.t1
Valid prediction for HiQ_model.g27901.t1
Valid prediction for snap_scaffold_18-snap.466-T1
Valid prediction for GlimmerHMM_glimmerT_41903-T1
Valid prediction for snap_scaffold_18-snap.463-T1
Valid prediction for Augustus_model.g27890.t1
Valid prediction for snap_scaffold_18-snap.453-T1
Valid prediction for CodingQuarry_transcript_23691-T1
Valid prediction for Augustus_model.g27886.t1
Valid prediction for GlimmerHMM_glimmerT_41878-T1
Valid prediction for snap_scaffold_18-snap.458-T1
Couldn't classify 38173, 38307
Sorry, prediction pasa_asmbl_19715.p1 fails validation.
(CAC)	 TC	38173-38307	GT	CTG
(GAC)	 AG	38686-38843	GT	TAG
(TTA)	 AG	40279-40407	GT	AAG
(GAT)	 AG	41318-41447	GT	TGG
(AAC)	 AG	42632-42785	GT	CGG
(GCT)	 AG	43086-43276	AG	AGA
-recovered pasa_asmbl_19715.p1, terminal, 43086, 43276
-recovered pasa_asmbl_19715.p1, internal, 38686, 38843
-recovered pasa_asmbl_19715.p1, internal, 40279, 40407
-recovered pasa_asmbl_19715.p1, internal, 41318, 41447
-recovered pasa_asmbl_19715.p1, internal, 42632, 42785
Valid prediction for Augustus_model.g27887.t1
Valid prediction for snap_scaffold_18-snap.478-T1
Valid prediction for GlimmerHMM_glimmerT_41891-T1
Valid prediction for snap_scaffold_18-snap.450-T1
Couldn't classify 186426, 186893
Sorry, prediction pasa_asmbl_19708.p1 fails validation.
(CCG)	 GT	186426-186893	CA	AAC
Valid prediction for GlimmerHMM_glimmerT_41900-T1
Valid prediction for CodingQuarry_transcript_23692-T1
Couldn't classify 173335, 173353
Couldn't classify 177733, 177824
Sorry, prediction pasa_asmbl_20207.p1 fails validation.
(GCT)	 GG	173335-173353	GT	GCG
(AAC)	 AG	175668-175709	GT	AGG
(GTG)	 AG	175859-175950	GT	CTG
(ATT)	 AG	176321-176513	GT	AGG
(GTG)	 AG	177733-177824	AA	CCA
-recovered pasa_asmbl_20207.p1, internal, 175668, 175709
-recovered pasa_asmbl_20207.p1, internal, 175859, 175950
-recovered pasa_asmbl_20207.p1, internal, 176321, 176513
Valid prediction for snap_scaffold_18-snap.474-T1
Valid prediction for snap_scaffold_18-snap.461-T1
Valid prediction for snap_scaffold_18-snap.456-T1
Valid prediction for GlimmerHMM_glimmerT_41893-T1
Valid prediction for GlimmerHMM_glimmerT_41889-T1
Valid prediction for snap_scaffold_18-snap.467-T1
Valid prediction for GlimmerHMM_glimmerT_41896-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 41302, rend_intergenic: 31538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45918, rend_intergenic: 42621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48588, rend_intergenic: 46439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53238, rend_intergenic: 48830  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71240, rend_intergenic: 67549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83857, rend_intergenic: 74738  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101534, rend_intergenic: 84374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106536, rend_intergenic: 102116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121076, rend_intergenic: 116997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127970, rend_intergenic: 124954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162045, rend_intergenic: 154240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189309, rend_intergenic: 175660  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 195881
-exon list size: 362


building trellis

0.3    
0.5    
0.8    
1.1    
1.4    
1.6    
1.9    
2.2    
2.5    
2.7    
3.0    
3.3    
3.6    
3.8    
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4.4    
4.7    
4.9    
5.2    
5.5    
5.8    
6.0    
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6.9    
7.1    
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9.3    
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10.7    
11.0    
11.3    
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11.8    
12.1    
12.4    
12.6    
12.9    
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13.5    
13.7    
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14.3    
14.6    
14.8    
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15.4    
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16.8    
17.0    
17.3    
17.6    
17.9    
18.1    
18.4    
18.7    
19.0    
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19.8    
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25.0    
25.3    
25.5    
25.8    
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26.4    
26.6    
26.9    
27.2    
27.5    
27.7    
28.0    
28.3    
28.6    
28.8    
29.1    
29.4    
29.7    
29.9    
30.2    
30.5    
30.8    
31.0    
31.3    
31.6    
31.9    
32.1    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.3    
34.6    
34.9    
35.2    
35.4    
35.7    
36.0    
36.3    
36.5    
36.8    
37.1    
37.4    
37.6    
37.9    
38.2    
38.5    
38.7    
39.0    
39.3    
39.6    
39.8    
40.1    
40.4    
40.7    
40.9    
41.2    
41.5    
41.8    
42.0    
42.3    
42.6    
42.9    
43.1    
43.4    
43.7    
44.0    
44.2    
44.5    
44.8    
45.1    
45.3    
45.6    
45.9    
46.2    
46.4    
46.7    
47.0    
47.3    
47.5    
47.8    
48.1    
48.4    
48.6    
48.9    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.1    
51.4    
51.6    
51.9    
52.2    
52.5    
52.7    
53.0    
53.3    
53.6    
53.8    
54.1    
54.4    
54.7    
54.9    
55.2    
55.5    
55.8    
56.0    
56.3    
56.6    
56.9    
57.1    
57.4    
57.7    
58.0    
58.2    
58.5    
58.8    
59.1    
59.3    
59.6    
59.9    
60.2    
60.4    
60.7    
61.0    
61.3    
61.5    
61.8    
62.1    
62.4    
62.6    
62.9    
63.2    
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64.0    
64.3    
64.6    
64.8    
65.1    
65.4    
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65.9    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.9    
68.1    
68.4    
68.7    
69.0    
69.2    
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71.4    
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72.3    
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73.1    
73.4    
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73.9    
74.2    
74.5    
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75.3    
75.5    
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76.4    
76.6    
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77.2    
77.5    
77.7    
78.0    
78.3    
78.6    
78.8    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.0    
81.3    
81.6    
81.9    
82.1    
82.4    
82.7    
83.0    
83.2    
83.5    
83.8    
84.1    
84.3    
84.6    
84.9    
85.2    
85.4    
85.7    
86.0    
86.3    
86.5    
86.8    
87.1    
87.4    
87.6    
87.9    
88.2    
88.5    
88.7    
89.0    
89.3    
89.6    
89.8    
90.1    
90.4    
90.7    
90.9    
91.2    
91.5    
91.8    
92.0    
92.3    
92.6    
92.9    
93.1    
93.4    
93.7    
94.0    
94.2    
94.5    
94.8    
95.1    
95.3    
95.6    
95.9    
96.2    
96.4    
96.7    
97.0    
97.3    
97.5    
97.8    
98.1    
98.4    
98.6    
98.9    
99.2    
99.5    
99.7    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 41302, rend_intergenic: 31538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45918, rend_intergenic: 42621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48588, rend_intergenic: 46439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53238, rend_intergenic: 48830  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71240, rend_intergenic: 67549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83857, rend_intergenic: 74738  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101534, rend_intergenic: 84374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106536, rend_intergenic: 102116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121076, rend_intergenic: 116997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127970, rend_intergenic: 124954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162045, rend_intergenic: 154240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189309, rend_intergenic: 175660  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support