-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_23/scaffold_23_902730-1134238

-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 GlimmerHMM_glimmerT_50424-T1
Valid prediction for snap_scaffold_23-snap.138-T1
Valid prediction for snap_scaffold_23-snap.128-T1
Valid prediction for snap_scaffold_23-snap.132-T1
Couldn't classify 221972, 222104
Sorry, prediction pasa_asmbl_31306.p1 fails validation.
(AAA)	 AG	221972-222104	GT	ATG
(TAC)	 AG	222334-222532	GT	TTG
(GAA)	 AG	222790-222920	GT	CGG
(GAA)	 AG	224257-224474	GT	AGG
(GAA)	 AG	225800-225892	AC	GAA
-recovered pasa_asmbl_31306.p1, terminal, 225800, 225892
-recovered pasa_asmbl_31306.p1, internal, 221972, 222104
-recovered pasa_asmbl_31306.p1, internal, 222334, 222532
-recovered pasa_asmbl_31306.p1, internal, 222790, 222920
-recovered pasa_asmbl_31306.p1, internal, 224257, 224474
Valid prediction for Augustus_model.g33670.t1
Valid prediction for snap_scaffold_23-snap.151-T1
Valid prediction for Augustus_model.g33675.t1
Valid prediction for GlimmerHMM_glimmerT_50438-T1
Valid prediction for GlimmerHMM_glimmerT_50406-T1
Valid prediction for GlimmerHMM_glimmerT_50437-T1
Valid prediction for GlimmerHMM_glimmerT_50409-T1
Valid prediction for GlimmerHMM_glimmerT_50436-T1
Valid prediction for Augustus_model.g33662.t1
Valid prediction for Augustus_model.g33667.t1
Valid prediction for GlimmerHMM_glimmerT_50432-T1
Valid prediction for snap_scaffold_23-snap.139-T1
Valid prediction for GlimmerHMM_glimmerT_50427-T1
Couldn't classify 218732, 218879
Sorry, prediction pasa_asmbl_31305.p1 fails validation.
(ATG)	 AG	216535-216709	GT	AGG
(TCA)	 AG	217258-217417	GT	AGG
(ATT)	 AG	218732-218879	GT	AGG
-recovered pasa_asmbl_31305.p1, initial, 216535, 216709
add_exon() Sorry, pasa_asmbl_31305.p1 217258-217417-terminal-3 is invalid.
-recovered pasa_asmbl_31305.p1, terminal, 217258, 217417
-recovered pasa_asmbl_31305.p1, internal, 216535, 216709
-recovered pasa_asmbl_31305.p1, internal, 217258, 217417
-recovered pasa_asmbl_31305.p1, internal, 218732, 218879
Valid prediction for snap_scaffold_23-snap.156-T1
Valid prediction for Augustus_model.g33653.t1
Valid prediction for Augustus_model.g33661.t1
Valid prediction for GlimmerHMM_glimmerT_50419-T1
Valid prediction for GlimmerHMM_glimmerT_50422-T1
Valid prediction for GlimmerHMM_glimmerT_50431-T1
Valid prediction for GlimmerHMM_glimmerT_50423-T1
Valid prediction for GlimmerHMM_glimmerT_50425-T1
Valid prediction for Augustus_model.g33648.t1
Valid prediction for Augustus_model.g33651.t1
Valid prediction for Augustus_model.g33650.t1
Valid prediction for GlimmerHMM_glimmerT_50414-T1
Valid prediction for snap_scaffold_23-snap.155-T1
Valid prediction for snap_scaffold_23-snap.125-T1
Valid prediction for GlimmerHMM_glimmerT_50408-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g33658.t1
Couldn't classify 52118, 52293
Couldn't classify 54519, 54639
Sorry, prediction pasa_asmbl_31967.p1 fails validation.
(GCG)	 TA	52118-52293	GT	AAG
(AGG)	 AG	54519-54639	GG	AAG
Valid prediction for snap_scaffold_23-snap.134-T1
Valid prediction for GlimmerHMM_glimmerT_50413-T1
Valid prediction for Augustus_model.g33657.t1
Valid prediction for Augustus_model.g33666.t1
Valid prediction for GlimmerHMM_glimmerT_50418-T1
Valid prediction for Augustus_model.g33672.t1
Valid prediction for Augustus_model.g33660.t1
Valid prediction for GlimmerHMM_glimmerT_50415-T1
Valid prediction for Augustus_model.g33656.t1
Valid prediction for snap_scaffold_23-snap.135-T1
Valid prediction for CodingQuarry_transcript_35545-T1
Valid prediction for snap_scaffold_23-snap.136-T1
Valid prediction for GlimmerHMM_glimmerT_50429-T1
Valid prediction for snap_scaffold_23-snap.129-T1
Valid prediction for snap_scaffold_23-snap.152-T1
Valid prediction for GlimmerHMM_glimmerT_50416-T1
Valid prediction for snap_scaffold_23-snap.147-T1
Couldn't classify 103482, 103973
Sorry, prediction pasa_asmbl_31301.p1 fails validation.
(CCA)	 CT	103482-103973	TG	TGT

-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.g33664.t1
Valid prediction for snap_scaffold_23-snap.144-T1
Valid prediction for snap_scaffold_23-snap.150-T1
Valid prediction for snap_scaffold_23-snap.148-T1
Valid prediction for snap_scaffold_23-snap.122-T1
Valid prediction for snap_scaffold_23-snap.154-T1
Valid prediction for snap_scaffold_23-snap.153-T1
Valid prediction for snap_scaffold_23-snap.137-T1
Valid prediction for snap_scaffold_23-snap.140-T1
Valid prediction for GlimmerHMM_glimmerT_50410-T1
Valid prediction for snap_scaffold_23-snap.143-T1
Valid prediction for GlimmerHMM_glimmerT_50435-T1
Valid prediction for Augustus_model.g33649.t1
Valid prediction for Augustus_model.g33673.t1
Valid prediction for snap_scaffold_23-snap.145-T1
Valid prediction for snap_scaffold_23-snap.124-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for Augustus_model.g33654.t1
Valid prediction for HiQ_model.g33663.t1
Valid prediction for snap_scaffold_23-snap.142-T1
Valid prediction for GlimmerHMM_glimmerT_50421-T1
Valid prediction for Augustus_model.g33668.t1
Valid prediction for GlimmerHMM_glimmerT_50411-T1
Valid prediction for GlimmerHMM_glimmerT_50428-T1
Couldn't classify 120140, 120976
Couldn't classify 121122, 121352
Sorry, prediction pasa_asmbl_30621.p1 fails validation.
(GGT)	 CA	120140-120976	GT	AGG
(GGC)	 AG	121122-121352	AC	TGA
Valid prediction for snap_scaffold_23-snap.133-T1
Valid prediction for snap_scaffold_23-snap.127-T1
Valid prediction for GlimmerHMM_glimmerT_50412-T1
Valid prediction for snap_scaffold_23-snap.130-T1
Valid prediction for HiQ_model.g33676.t1
Valid prediction for Augustus_model.g33655.t1
Valid prediction for Augustus_model.g33674.t1
Valid prediction for GlimmerHMM_glimmerT_50417-T1
Valid prediction for GlimmerHMM_glimmerT_50420-T1
Valid prediction for GlimmerHMM_glimmerT_50434-T1
Valid prediction for snap_scaffold_23-snap.141-T1
Valid prediction for snap_scaffold_23-snap.123-T1
Valid prediction for pasa_asmbl_30622.p1
Valid prediction for snap_scaffold_23-snap.157-T1
Valid prediction for Augustus_model.g33647.t1
Valid prediction for GlimmerHMM_glimmerT_50426-T1
Valid prediction for Augustus_model.g33671.t1
Valid prediction for Augustus_model.g33669.t1
Valid prediction for snap_scaffold_23-snap.126-T1
Valid prediction for Augustus_model.g33665.t1
Valid prediction for snap_scaffold_23-snap.146-T1
Valid prediction for CodingQuarry_transcript_35544-T1
Valid prediction for snap_scaffold_23-snap.131-T1
Valid prediction for snap_scaffold_23-snap.149-T1
Couldn't classify 94359, 94516
Couldn't classify 95209, 95232
Sorry, prediction pasa_asmbl_31204.p1 fails validation.
(GAT)	 AG	94359-94516	GT	CAG
(GAG)	 AG	94964-95108	GT	AGG
(GAA)	 AG	95209-95232	GC	AGG
-recovered pasa_asmbl_31204.p1, internal, 94359, 94516
-recovered pasa_asmbl_31204.p1, internal, 94964, 95108
-recovered pasa_asmbl_31204.p1, internal, 95209, 95232
Valid prediction for GlimmerHMM_glimmerT_50430-T1
Valid prediction for HiQ_model.g33659.t1
Valid prediction for GlimmerHMM_glimmerT_50433-T1
Valid prediction for Augustus_model.g33652.t1
Valid prediction for GlimmerHMM_glimmerT_50407-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 151837, rend_intergenic: 150953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 231509
-exon list size: 273


building trellis

0.4    
0.7    
1.1    
1.5    
1.8    
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2.5    
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3.3    
3.6    
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34.2    
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35.6    
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36.4    
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38.9    
39.3    
39.6    
40.0    
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41.1    
41.5    
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43.6    
44.0    
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46.2    
46.5    
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47.3    
47.6    
48.0    
48.4    
48.7    
49.1    
49.5    
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50.2    
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50.9    
51.3    
51.6    
52.0    
52.4    
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53.1    
53.5    
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54.2    
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54.9    
55.3    
55.6    
56.0    
56.4    
56.7    
57.1    
57.5    
57.8    
58.2    
58.5    
58.9    
59.3    
59.6    
60.0    
60.4    
60.7    
61.1    
61.5    
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62.2    
62.5    
62.9    
63.3    
63.6    
64.0    
64.4    
64.7    
65.1    
65.5    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.4    
68.7    
69.1    
69.5    
69.8    
70.2    
70.5    
70.9    
71.3    
71.6    
72.0    
72.4    
72.7    
73.1    
73.5    
73.8    
74.2    
74.5    
74.9    
75.3    
75.6    
76.0    
76.4    
76.7    
77.1    
77.5    
77.8    
78.2    
78.5    
78.9    
79.3    
79.6    
80.0    
80.4    
80.7    
81.1    
81.5    
81.8    
82.2    
82.5    
82.9    
83.3    
83.6    
84.0    
84.4    
84.7    
85.1    
85.5    
85.8    
86.2    
86.5    
86.9    
87.3    
87.6    
88.0    
88.4    
88.7    
89.1    
89.5    
89.8    
90.2    
90.5    
90.9    
91.3    
91.6    
92.0    
92.4    
92.7    
93.1    
93.5    
93.8    
94.2    
94.5    
94.9    
95.3    
95.6    
96.0    
96.4    
96.7    
97.1    
97.5    
97.8    
98.2    
98.5    
98.9    
99.3    
99.6    
-found 36 predictions from path traversal
Error with prediction: snap lend_intergenic: 151837, rend_intergenic: 150953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 35 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 17986
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-found 1 predictions from path traversal

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