-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_13049616-13237583

-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_10-snap.2611-T1
Valid prediction for snap_scaffold_10-snap.2585-T1
Valid prediction for CodingQuarry_transcript_5624-T1
Valid prediction for snap_scaffold_10-snap.2591-T1
Valid prediction for Augustus_model.g17074.t1
Valid prediction for snap_scaffold_10-snap.2605-T1
Valid prediction for GlimmerHMM_glimmerT_25693-T1
Valid prediction for GlimmerHMM_glimmerT_25666-T1
Valid prediction for Augustus_model.g17082.t1
Valid prediction for snap_scaffold_10-snap.2608-T1
Valid prediction for snap_scaffold_10-snap.2602-T1
Valid prediction for snap_scaffold_10-snap.2583-T1
Valid prediction for GlimmerHMM_glimmerT_25689-T1
Valid prediction for snap_scaffold_10-snap.2614-T1
Valid prediction for GlimmerHMM_glimmerT_25686-T1
Valid prediction for HiQ_model.g17083.t1
Valid prediction for GlimmerHMM_glimmerT_25674-T1
Valid prediction for Augustus_model.g17073.t1
Valid prediction for Augustus_model.g17087.t1
Valid prediction for GlimmerHMM_glimmerT_25668-T1
Valid prediction for snap_scaffold_10-snap.2596-T1
Valid prediction for snap_scaffold_10-snap.2604-T1
Valid prediction for GlimmerHMM_glimmerT_25675-T1
Valid prediction for GlimmerHMM_glimmerT_25692-T1
Valid prediction for snap_scaffold_10-snap.2590-T1
Valid prediction for GlimmerHMM_glimmerT_25683-T1
Valid prediction for GlimmerHMM_glimmerT_25682-T1
Valid prediction for pasa_asmbl_3581.p2
Valid prediction for snap_scaffold_10-snap.2577-T1
Valid prediction for GlimmerHMM_glimmerT_25676-T1
Valid prediction for Augustus_model.g17089.t1
Valid prediction for snap_scaffold_10-snap.2600-T1
Valid prediction for Augustus_model.g17088.t1
Valid prediction for CodingQuarry_transcript_5625-T1
Valid prediction for snap_scaffold_10-snap.2584-T1
Valid prediction for snap_scaffold_10-snap.2581-T1
Valid prediction for snap_scaffold_10-snap.2580-T1
Valid prediction for GlimmerHMM_glimmerT_25678-T1
Valid prediction for snap_scaffold_10-snap.2578-T1
Valid prediction for snap_scaffold_10-snap.2598-T1
Valid prediction for GlimmerHMM_glimmerT_25695-T1
Valid prediction for snap_scaffold_10-snap.2589-T1
Valid prediction for GlimmerHMM_glimmerT_25665-T1
Valid prediction for snap_scaffold_10-snap.2612-T1
Valid prediction for Augustus_model.g17076.t1
Valid prediction for Augustus_model.g17081.t1
Valid prediction for snap_scaffold_10-snap.2593-T1
Valid prediction for Augustus_model.g17091.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_25684-T1
Valid prediction for Augustus_model.g17085.t1
Valid prediction for snap_scaffold_10-snap.2597-T1
Valid prediction for snap_scaffold_10-snap.2592-T1
Valid prediction for Augustus_model.g17090.t1
Valid prediction for GlimmerHMM_glimmerT_25681-T1
Valid prediction for GlimmerHMM_glimmerT_25694-T1
Valid prediction for GlimmerHMM_glimmerT_25685-T1
Valid prediction for Augustus_model.g17075.t1
Valid prediction for snap_scaffold_10-snap.2576-T1
Valid prediction for snap_scaffold_10-snap.2586-T1
Valid prediction for Augustus_model.g17084.t1
Valid prediction for Augustus_model.g17072.t1
Valid prediction for Augustus_model.g17086.t1
Valid prediction for snap_scaffold_10-snap.2606-T1
Valid prediction for snap_scaffold_10-snap.2607-T1
Valid prediction for snap_scaffold_10-snap.2599-T1
Valid prediction for snap_scaffold_10-snap.2595-T1
Valid prediction for GlimmerHMM_glimmerT_25691-T1
Valid prediction for snap_scaffold_10-snap.2610-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_10-snap.2588-T1
Valid prediction for GlimmerHMM_glimmerT_25663-T1
Valid prediction for GlimmerHMM_glimmerT_25670-T1
Valid prediction for snap_scaffold_10-snap.2594-T1
Valid prediction for snap_scaffold_10-snap.2601-T1
Valid prediction for GlimmerHMM_glimmerT_25673-T1
Valid prediction for snap_scaffold_10-snap.2579-T1
Valid prediction for snap_scaffold_10-snap.2613-T1
Valid prediction for Augustus_model.g17080.t1
Valid prediction for GlimmerHMM_glimmerT_25677-T1
Valid prediction for GlimmerHMM_glimmerT_25672-T1
Valid prediction for snap_scaffold_10-snap.2587-T1
Valid prediction for snap_scaffold_10-snap.2603-T1
Valid prediction for Augustus_model.g17079.t1
Valid prediction for GlimmerHMM_glimmerT_25669-T1
Couldn't classify 152875, 152993
Couldn't classify 153594, 153872
Sorry, prediction pasa_asmbl_4860.p1 fails validation.
(AAG)	 CG	152875-152993	GT	TTG
(TGA)	 AG	153354-153456	GT	TAG
(ACA)	 AG	153594-153872	GG	ACG
-recovered pasa_asmbl_4860.p1, internal, 153354, 153456
Couldn't classify 158233, 158354
Couldn't classify 159241, 159284
Sorry, prediction pasa_asmbl_4857.p1 fails validation.
(CGA)	 GT	158233-158354	GT	AGG
(AGC)	 AG	158483-158667	GT	GGG
(CTG)	 AG	158800-158895	GT	CAG
(AGA)	 AG	159241-159284	GT	TGG
-recovered pasa_asmbl_4857.p1, internal, 158483, 158667
-recovered pasa_asmbl_4857.p1, internal, 158800, 158895
-recovered pasa_asmbl_4857.p1, internal, 159241, 159284
Couldn't classify 154101, 154323
Couldn't classify 157111, 157219
Sorry, prediction pasa_asmbl_4858.p1 fails validation.
(CGC)	 GT	154101-154323	GT	AGG
(AGT)	 AG	154685-154788	GT	AGG
(ATA)	 AG	155197-155350	GT	TGG
(ATC)	 AG	156603-156714	GT	AGG
(GGA)	 AG	157111-157219	CC	AGC
-recovered pasa_asmbl_4858.p1, internal, 154685, 154788
-recovered pasa_asmbl_4858.p1, internal, 155197, 155350
-recovered pasa_asmbl_4858.p1, internal, 156603, 156714
Valid prediction for GlimmerHMM_glimmerT_25679-T1
Valid prediction for GlimmerHMM_glimmerT_25680-T1
Valid prediction for GlimmerHMM_glimmerT_25667-T1
Valid prediction for GlimmerHMM_glimmerT_25671-T1
Valid prediction for GlimmerHMM_glimmerT_25688-T1
Valid prediction for GlimmerHMM_glimmerT_25687-T1
Valid prediction for snap_scaffold_10-snap.2609-T1
Valid prediction for snap_scaffold_10-snap.2582-T1
Valid prediction for Augustus_model.g17077.t1
Valid prediction for Augustus_model.g17078.t1
Valid prediction for GlimmerHMM_glimmerT_25664-T1
Valid prediction for GlimmerHMM_glimmerT_25690-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12901, rend_intergenic: 11035  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32748, rend_intergenic: 25730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37887, rend_intergenic: 36237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87872, rend_intergenic: 84666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93606, rend_intergenic: 91163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105562, rend_intergenic: 102649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107525, rend_intergenic: 105855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109252, rend_intergenic: 107972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113775, rend_intergenic: 110576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138732, rend_intergenic: 135919  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165411, rend_intergenic: 139137  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174485, rend_intergenic: 165989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179800, rend_intergenic: 179587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183228, rend_intergenic: 180559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 187968
-exon list size: 368


building trellis

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30.5    
30.8    
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31.4    
31.6    
31.9    
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33.0    
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34.3    
34.6    
34.9    
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35.4    
35.7    
35.9    
36.2    
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36.8    
37.0    
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37.6    
37.8    
38.1    
38.4    
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39.7    
40.0    
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40.8    
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41.4    
41.6    
41.9    
42.2    
42.4    
42.7    
43.0    
43.2    
43.5    
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44.1    
44.3    
44.6    
44.9    
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47.0    
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47.6    
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48.4    
48.6    
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54.6    
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80.3    
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87.0    
87.3    
87.6    
87.8    
88.1    
88.4    
88.6    
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89.5    
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90.5    
90.8    
91.1    
91.4    
91.6    
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92.2    
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97.3    
97.6    
97.8    
98.1    
98.4    
98.6    
98.9    
99.2    
99.5    
99.7    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 12901, rend_intergenic: 11035  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32748, rend_intergenic: 25730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37887, rend_intergenic: 36237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87872, rend_intergenic: 84666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93606, rend_intergenic: 91163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105562, rend_intergenic: 102649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107525, rend_intergenic: 105855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109252, rend_intergenic: 107972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113775, rend_intergenic: 110576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138732, rend_intergenic: 135919  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165411, rend_intergenic: 139137  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174485, rend_intergenic: 165989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179800, rend_intergenic: 179587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183228, rend_intergenic: 180559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 26 predictions persist after filtering for low support