-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_1613182-1845769

-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.314-T1
Couldn't classify 188496, 189938
Sorry, prediction pasa_asmbl_53605.p1 fails validation.
(AGT)	 CT	188496-189938	AA	AAA
Valid prediction for Augustus_model.g12867.t1
Valid prediction for snap_scaffold_8-snap.324-T1
Valid prediction for Augustus_model.g12863.t1
Valid prediction for GlimmerHMM_glimmerT_19294-T1
Valid prediction for GlimmerHMM_glimmerT_19304-T1
Valid prediction for Augustus_model.g12871.t1
Valid prediction for GlimmerHMM_glimmerT_19300-T1
Valid prediction for snap_scaffold_8-snap.323-T1
Valid prediction for snap_scaffold_8-snap.304-T1
Valid prediction for snap_scaffold_8-snap.339-T1
Valid prediction for snap_scaffold_8-snap.331-T1
Valid prediction for snap_scaffold_8-snap.302-T1
Couldn't classify 230858, 231040
Couldn't classify 232040, 232222
Sorry, prediction pasa_asmbl_52712.p1 fails validation.
(TGT)	 TG	230858-231040	GT	TCG
(ATC)	 AG	231371-231559	GT	GGG
(CCC)	 AG	232040-232222	CA	AGC
-recovered pasa_asmbl_52712.p1, internal, 231371, 231559
Couldn't classify 225721, 225837
Sorry, prediction pasa_asmbl_52709.p1 fails validation.
(ATG)	 AG	218586-218613	GT	ACG
(ACC)	 AG	219252-219313	GT	AGG
(GAT)	 AG	220346-220430	GT	CGG
(CCC)	 AG	220789-220925	GT	AGG
(TCC)	 AG	222518-222591	GT	AGG
(GCC)	 AG	223438-223498	GT	AGG
(GCT)	 AG	223927-223974	GT	AGG
(GTG)	 AG	225721-225837	AG	CCA
-recovered pasa_asmbl_52709.p1, initial, 218586, 218613
-recovered pasa_asmbl_52709.p1, internal, 218586, 218613
-recovered pasa_asmbl_52709.p1, internal, 219252, 219313
-recovered pasa_asmbl_52709.p1, internal, 220346, 220430
-recovered pasa_asmbl_52709.p1, internal, 220789, 220925
-recovered pasa_asmbl_52709.p1, internal, 222518, 222591
-recovered pasa_asmbl_52709.p1, internal, 223438, 223498
-recovered pasa_asmbl_52709.p1, internal, 223927, 223974
Valid prediction for GlimmerHMM_glimmerT_19280-T1
Valid prediction for Augustus_model.g12865.t1
Valid prediction for GlimmerHMM_glimmerT_19303-T1
Couldn't classify 112429, 112495
Couldn't classify 115181, 115332
Sorry, prediction pasa_asmbl_52707.p1 fails validation.
(CCT)	 CT	112429-112495	GT	CCG
(CCA)	 AG	114466-114732	GT	AGG
(GCT)	 AG	115181-115332	CA	TCC
-recovered pasa_asmbl_52707.p1, internal, 114466, 114732
Valid prediction for snap_scaffold_8-snap.340-T1
Valid prediction for GlimmerHMM_glimmerT_19286-T1
Valid prediction for snap_scaffold_8-snap.337-T1
Valid prediction for GlimmerHMM_glimmerT_19297-T1
Valid prediction for snap_scaffold_8-snap.298-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g12866.t1
Valid prediction for GlimmerHMM_glimmerT_19283-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.311-T1
Valid prediction for GlimmerHMM_glimmerT_19290-T1
Valid prediction for snap_scaffold_8-snap.317-T1
Valid prediction for GlimmerHMM_glimmerT_19301-T1
Valid prediction for snap_scaffold_8-snap.303-T1
Valid prediction for HiQ_model.g12873.t1
Valid prediction for snap_scaffold_8-snap.295-T1
Valid prediction for snap_scaffold_8-snap.332-T1
Valid prediction for snap_scaffold_8-snap.327-T1
Valid prediction for GlimmerHMM_glimmerT_19284-T1
Valid prediction for GlimmerHMM_glimmerT_19302-T1
Valid prediction for pasa_asmbl_53588.p1
Valid prediction for snap_scaffold_8-snap.297-T1
Valid prediction for snap_scaffold_8-snap.310-T1
Valid prediction for snap_scaffold_8-snap.319-T1
Valid prediction for snap_scaffold_8-snap.307-T1
Valid prediction for GlimmerHMM_glimmerT_19289-T1
Valid prediction for GlimmerHMM_glimmerT_19296-T1
Valid prediction for GlimmerHMM_glimmerT_19287-T1
Valid prediction for snap_scaffold_8-snap.321-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.308-T1
Valid prediction for snap_scaffold_8-snap.299-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.322-T1
Valid prediction for snap_scaffold_8-snap.306-T1
Valid prediction for GlimmerHMM_glimmerT_19279-T1
Valid prediction for snap_scaffold_8-snap.333-T1
Valid prediction for GlimmerHMM_glimmerT_19285-T1
Valid prediction for snap_scaffold_8-snap.334-T1
Valid prediction for GlimmerHMM_glimmerT_19282-T1
Valid prediction for snap_scaffold_8-snap.335-T1
Valid prediction for GlimmerHMM_glimmerT_19291-T1
Valid prediction for snap_scaffold_8-snap.312-T1
Valid prediction for Augustus_model.g12869.t1
Valid prediction for snap_scaffold_8-snap.336-T1
Valid prediction for snap_scaffold_8-snap.330-T1
Valid prediction for snap_scaffold_8-snap.329-T1
Valid prediction for snap_scaffold_8-snap.313-T1
Valid prediction for GlimmerHMM_glimmerT_19298-T1
Valid prediction for GlimmerHMM_glimmerT_19299-T1
Valid prediction for snap_scaffold_8-snap.328-T1
Valid prediction for GlimmerHMM_glimmerT_19288-T1
Valid prediction for snap_scaffold_8-snap.305-T1
Valid prediction for snap_scaffold_8-snap.316-T1
Valid prediction for snap_scaffold_8-snap.325-T1
Valid prediction for snap_scaffold_8-snap.326-T1
Valid prediction for snap_scaffold_8-snap.301-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_19292-T1
Valid prediction for snap_scaffold_8-snap.315-T1
Valid prediction for snap_scaffold_8-snap.309-T1
Valid prediction for GlimmerHMM_glimmerT_19295-T1
Valid prediction for Augustus_model.g12870.t1
Valid prediction for snap_scaffold_8-snap.300-T1
Valid prediction for snap_scaffold_8-snap.320-T1
Valid prediction for snap_scaffold_8-snap.318-T1
Valid prediction for snap_scaffold_8-snap.338-T1
Valid prediction for Augustus_model.g12864.t1
Valid prediction for snap_scaffold_8-snap.296-T1
Valid prediction for GlimmerHMM_glimmerT_19293-T1
Valid prediction for GlimmerHMM_glimmerT_19281-T1
Valid prediction for Augustus_model.g12868.t1
Valid prediction for Augustus_model.g12872.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12016, rend_intergenic: 4681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13001, rend_intergenic: 12247  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50811, rend_intergenic: 32678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57760, rend_intergenic: 51057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72198, rend_intergenic: 67616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76252, rend_intergenic: 73829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83009, rend_intergenic: 76377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93103, rend_intergenic: 90636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110909, rend_intergenic: 97933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114764, rend_intergenic: 111230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115344, rend_intergenic: 115035  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121283, rend_intergenic: 117784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137183, rend_intergenic: 123114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140417, rend_intergenic: 137499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169118, rend_intergenic: 163777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173745, rend_intergenic: 171251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220955, rend_intergenic: 201673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224981, rend_intergenic: 222485  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 225978, rend_intergenic: 225711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231039, rend_intergenic: 226156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 232588
-exon list size: 328


building trellis

0.3    
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7.0    
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7.6    
7.9    
8.2    
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9.1    
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10.9    
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11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.3    
13.6    
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14.8    
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19.1    
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20.6    
20.9    
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21.8    
22.1    
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23.6    
23.9    
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24.8    
25.2    
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25.8    
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27.0    
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27.6    
27.9    
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29.7    
30.0    
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30.6    
30.9    
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31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
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34.5    
34.8    
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37.6    
37.9    
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38.8    
39.1    
39.4    
39.7    
40.0    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
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    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
60.0    
60.3    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
64.8    
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    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
70.9    
71.2    
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71.8    
72.1    
72.4    
72.7    
73.0    
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73.6    
73.9    
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74.5    
74.8    
75.2    
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75.8    
76.1    
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76.7    
77.0    
77.3    
77.6    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
80.0    
80.3    
80.6    
80.9    
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    
85.2    
85.5    
85.8    
86.1    
86.4    
86.7    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
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 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 12016, rend_intergenic: 4681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13001, rend_intergenic: 12247  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50811, rend_intergenic: 32678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57760, rend_intergenic: 51057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72198, rend_intergenic: 67616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76252, rend_intergenic: 73829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83009, rend_intergenic: 76377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93103, rend_intergenic: 90636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110909, rend_intergenic: 97933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114764, rend_intergenic: 111230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115344, rend_intergenic: 115035  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121283, rend_intergenic: 117784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137183, rend_intergenic: 123114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140417, rend_intergenic: 137499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169118, rend_intergenic: 163777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173745, rend_intergenic: 171251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220955, rend_intergenic: 201673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224981, rend_intergenic: 222485  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 225978, rend_intergenic: 225711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231039, rend_intergenic: 226156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 10733
-exon list size: 7


building trellis

11.1    
22.2    
33.3    
44.4    
55.6    
66.7    
77.8    
88.9    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support