-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_16/scaffold_16_2948950-3191879

-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: +)Couldn't classify 150023, 150100
Sorry, prediction pasa_asmbl_16138.p2 fails validation.
(GAG)	 CG	150023-150100	GT	CGG
(GTT)	 AG	150609-151148	CA	GAC
-recovered pasa_asmbl_16138.p2, terminal, 150609, 151148
Valid prediction for GlimmerHMM_glimmerT_38040-T1
Valid prediction for Augustus_model.g25365.t1
Valid prediction for snap_scaffold_16-snap.571-T1
Valid prediction for snap_scaffold_16-snap.561-T1
Valid prediction for GlimmerHMM_glimmerT_38036-T1
Valid prediction for snap_scaffold_16-snap.553-T1
Valid prediction for GlimmerHMM_glimmerT_38037-T1
Valid prediction for snap_scaffold_16-snap.576-T1
Valid prediction for GlimmerHMM_glimmerT_38034-T1
Valid prediction for Augustus_model.g25368.t1
Valid prediction for snap_scaffold_16-snap.577-T1
Valid prediction for GlimmerHMM_glimmerT_38050-T1
Valid prediction for snap_scaffold_16-snap.560-T1
Valid prediction for snap_scaffold_16-snap.575-T1
Valid prediction for Augustus_model.g25366.t1
Valid prediction for snap_scaffold_16-snap.547-T1
Valid prediction for snap_scaffold_16-snap.584-T1
Valid prediction for GlimmerHMM_glimmerT_38038-T1
Valid prediction for Augustus_model.g25369.t1
Valid prediction for GlimmerHMM_glimmerT_38044-T1
Valid prediction for snap_scaffold_16-snap.545-T1
Valid prediction for snap_scaffold_16-snap.565-T1
Valid prediction for Augustus_model.g25371.t1
Valid prediction for GlimmerHMM_glimmerT_38047-T1
Valid prediction for snap_scaffold_16-snap.569-T1
Valid prediction for Augustus_model.g25370.t1
Valid prediction for snap_scaffold_16-snap.542-T1
Valid prediction for GlimmerHMM_glimmerT_38045-T1
Valid prediction for snap_scaffold_16-snap.581-T1
Valid prediction for snap_scaffold_16-snap.574-T1
Valid prediction for snap_scaffold_16-snap.568-T1
Valid prediction for Augustus_model.g25372.t1
Valid prediction for GlimmerHMM_glimmerT_38043-T1
Valid prediction for snap_scaffold_16-snap.543-T1
Valid prediction for GlimmerHMM_glimmerT_38041-T1
Couldn't classify 148945, 149074
Couldn't classify 149516, 149580
Sorry, prediction pasa_asmbl_16749.p1 fails validation.
(ACA)	 AG	148945-149074	GT	AGG
(GAC)	 AG	149221-149361	GT	AGG
(GTG)	 AG	149516-149580	GG	CGG
-recovered pasa_asmbl_16749.p1, internal, 148945, 149074
-recovered pasa_asmbl_16749.p1, internal, 149221, 149361
Valid prediction for Augustus_model.g25367.t1
Valid prediction for Augustus_model.g25364.t1
Valid prediction for Augustus_model.g25363.t1
Valid prediction for snap_scaffold_16-snap.583-T1
Valid prediction for snap_scaffold_16-snap.557-T1
Valid prediction for GlimmerHMM_glimmerT_38033-T1
Valid prediction for snap_scaffold_16-snap.580-T1
Valid prediction for snap_scaffold_16-snap.586-T1
Valid prediction for snap_scaffold_16-snap.563-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 Augustus_model.g25380.t1
Valid prediction for snap_scaffold_16-snap.562-T1
Valid prediction for snap_scaffold_16-snap.556-T1
Valid prediction for snap_scaffold_16-snap.546-T1
Valid prediction for snap_scaffold_16-snap.559-T1
Valid prediction for GlimmerHMM_glimmerT_38035-T1
Valid prediction for snap_scaffold_16-snap.544-T1
Valid prediction for GlimmerHMM_glimmerT_38039-T1
Valid prediction for snap_scaffold_16-snap.578-T1
Valid prediction for snap_scaffold_16-snap.573-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.570-T1
Valid prediction for snap_scaffold_16-snap.585-T1
Valid prediction for GlimmerHMM_glimmerT_38042-T1
Valid prediction for Augustus_model.g25376.t1
Valid prediction for snap_scaffold_16-snap.551-T1
Valid prediction for CodingQuarry_transcript_19917-T1
Valid prediction for Augustus_model.g25381.t1
Valid prediction for pasa_asmbl_16979.p1
Valid prediction for snap_scaffold_16-snap.582-T1
Valid prediction for Augustus_model.g25361.t1
Valid prediction for snap_scaffold_16-snap.549-T1
Valid prediction for Augustus_model.g25377.t1
Valid prediction for snap_scaffold_16-snap.548-T1
Valid prediction for snap_scaffold_16-snap.564-T1
Valid prediction for Augustus_model.g25374.t1
Valid prediction for Augustus_model.g25378.t1
Valid prediction for GlimmerHMM_glimmerT_38048-T1
Valid prediction for GlimmerHMM_glimmerT_38051-T1
Valid prediction for snap_scaffold_16-snap.567-T1
Valid prediction for snap_scaffold_16-snap.552-T1
Valid prediction for GlimmerHMM_glimmerT_38046-T1
Valid prediction for HiQ_model.g25373.t1
Valid prediction for snap_scaffold_16-snap.588-T1
Valid prediction for snap_scaffold_16-snap.555-T1
Valid prediction for snap_scaffold_16-snap.554-T1
Valid prediction for snap_scaffold_16-snap.558-T1
Valid prediction for GlimmerHMM_glimmerT_38049-T1
Valid prediction for snap_scaffold_16-snap.572-T1
Valid prediction for Augustus_model.g25379.t1
Valid prediction for Augustus_model.g25375.t1
Valid prediction for snap_scaffold_16-snap.566-T1
Valid prediction for snap_scaffold_16-snap.550-T1
Valid prediction for Augustus_model.g25362.t1
Valid prediction for snap_scaffold_16-snap.579-T1
Valid prediction for snap_scaffold_16-snap.587-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13736, rend_intergenic: 8535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24178, rend_intergenic: 16110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27002, rend_intergenic: 26719  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61966, rend_intergenic: 30939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64694, rend_intergenic: 62120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93587, rend_intergenic: 65104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103913, rend_intergenic: 94253  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119601, rend_intergenic: 104647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127360, rend_intergenic: 125417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130160, rend_intergenic: 128745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138284, rend_intergenic: 130512  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151148, rend_intergenic: 145327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161141, rend_intergenic: 159209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177313, rend_intergenic: 169636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179160, rend_intergenic: 177913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197687, rend_intergenic: 182421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200159, rend_intergenic: 198181  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 217283, rend_intergenic: 202275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218609, rend_intergenic: 217295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223256, rend_intergenic: 218697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224062, rend_intergenic: 223520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226144, rend_intergenic: 224092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 229499, rend_intergenic: 226497  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 242930
-exon list size: 425


building trellis

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27.6    
27.9    
28.1    
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28.6    
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29.7    
30.0    
30.2    
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30.7    
30.9    
31.1    
31.4    
31.6    
31.9    
32.1    
32.3    
32.6    
32.8    
33.0    
33.3    
33.5    
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34.2    
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34.9    
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35.4    
35.6    
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36.8    
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37.5    
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39.6    
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41.9    
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44.3    
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77.0    
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80.6    
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81.0    
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87.6    
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88.1    
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90.2    
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90.6    
90.9    
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91.3    
91.6    
91.8    
92.0    
92.3    
92.5    
92.7    
93.0    
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93.4    
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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: 13736, rend_intergenic: 8535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24178, rend_intergenic: 16110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27002, rend_intergenic: 26719  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61966, rend_intergenic: 30939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64694, rend_intergenic: 62120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93587, rend_intergenic: 65104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103913, rend_intergenic: 94253  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119601, rend_intergenic: 104647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127360, rend_intergenic: 125417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130160, rend_intergenic: 128745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138284, rend_intergenic: 130512  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151148, rend_intergenic: 145327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161141, rend_intergenic: 159209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177313, rend_intergenic: 169636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179160, rend_intergenic: 177913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197687, rend_intergenic: 182421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200159, rend_intergenic: 198181  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 217283, rend_intergenic: 202275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218609, rend_intergenic: 217295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223256, rend_intergenic: 218697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224062, rend_intergenic: 223520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226144, rend_intergenic: 224092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 229499, rend_intergenic: 226497  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