-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_1148495-1390114

-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_27-snap.282-T1
Valid prediction for GlimmerHMM_glimmerT_56652-T1
Valid prediction for snap_scaffold_27-snap.286-T1
Valid prediction for snap_scaffold_27-snap.276-T1
Valid prediction for snap_scaffold_27-snap.294-T1
Valid prediction for snap_scaffold_27-snap.293-T1
Valid prediction for snap_scaffold_27-snap.295-T1
Couldn't classify 213979, 214313
Sorry, prediction pasa_asmbl_36599.p1 fails validation.
(ATG)	 AC	213121-213142	GT	CAG
(ATG)	 AG	213979-214313	GG	GAG
-recovered pasa_asmbl_36599.p1, initial, 213121, 213142
Valid prediction for snap_scaffold_27-snap.284-T1
Valid prediction for snap_scaffold_27-snap.271-T1
Valid prediction for snap_scaffold_27-snap.261-T1
Valid prediction for snap_scaffold_27-snap.300-T1
Valid prediction for snap_scaffold_27-snap.301-T1
Valid prediction for Augustus_model.g37538.t1
Valid prediction for GlimmerHMM_glimmerT_56635-T1
Valid prediction for snap_scaffold_27-snap.264-T1
Valid prediction for GlimmerHMM_glimmerT_56656-T1
Valid prediction for Augustus_model.g37541.t1
Valid prediction for GlimmerHMM_glimmerT_56633-T1
Valid prediction for snap_scaffold_27-snap.305-T1
Valid prediction for snap_scaffold_27-snap.280-T1
Valid prediction for GlimmerHMM_glimmerT_56640-T1
Valid prediction for snap_scaffold_27-snap.296-T1
Valid prediction for Augustus_model.g37528.t1
Valid prediction for snap_scaffold_27-snap.274-T1
Valid prediction for GlimmerHMM_glimmerT_56631-T1
Valid prediction for GlimmerHMM_glimmerT_56636-T1
Valid prediction for snap_scaffold_27-snap.260-T1
Valid prediction for snap_scaffold_27-snap.289-T1
Valid prediction for snap_scaffold_27-snap.279-T1
Valid prediction for GlimmerHMM_glimmerT_56647-T1
Valid prediction for snap_scaffold_27-snap.303-T1
Valid prediction for GlimmerHMM_glimmerT_56654-T1
Couldn't classify 235806, 236411
Sorry, prediction pasa_asmbl_36619.p1 fails validation.
(ATG)	 AG	235806-236411	AT	AGA
Valid prediction for GlimmerHMM_glimmerT_56648-T1
Valid prediction for snap_scaffold_27-snap.268-T1
Valid prediction for GlimmerHMM_glimmerT_56655-T1
Valid prediction for snap_scaffold_27-snap.269-T1
Valid prediction for Augustus_model.g37540.t1
Valid prediction for Augustus_model.g37537.t1
Valid prediction for GlimmerHMM_glimmerT_56642-T1
Couldn't classify 206256, 207020
Sorry, prediction pasa_asmbl_35998.p1 fails validation.
(ATG)	 GA	206256-207020	CA	TGC
Valid prediction for snap_scaffold_27-snap.262-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_56632-T1
Valid prediction for snap_scaffold_27-snap.291-T1
Valid prediction for GlimmerHMM_glimmerT_56649-T1
Couldn't classify 205534, 205636
Couldn't classify 205885, 206105
Sorry, prediction pasa_asmbl_36590.p2 fails validation.
(GGA)	 TG	205534-205636	GT	CAG
(TGG)	 AG	205885-206105	GC	CTG
-recovered pasa_asmbl_36590.p2, internal, 205885, 206105
Valid prediction for Augustus_model.g37543.t1
Valid prediction for snap_scaffold_27-snap.281-T1
Valid prediction for Augustus_model.g37542.t1
Valid prediction for snap_scaffold_27-snap.298-T1
Valid prediction for GlimmerHMM_glimmerT_56657-T1
Valid prediction for GlimmerHMM_glimmerT_56650-T1
Valid prediction for Augustus_model.g37529.t1
Valid prediction for snap_scaffold_27-snap.259-T1
Valid prediction for Augustus_model.g37544.t1
Valid prediction for Augustus_model.g37527.t1
Valid prediction for snap_scaffold_27-snap.265-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_27-snap.270-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_56637-T1
Valid prediction for Augustus_model.g37539.t1
Valid prediction for Augustus_model.g37530.t1
Valid prediction for Augustus_model.g37545.t1
Valid prediction for GlimmerHMM_glimmerT_56645-T1
Valid prediction for GlimmerHMM_glimmerT_56653-T1
Valid prediction for GlimmerHMM_glimmerT_56651-T1
Valid prediction for Augustus_model.g37533.t1
Valid prediction for snap_scaffold_27-snap.283-T1
Valid prediction for snap_scaffold_27-snap.290-T1
Valid prediction for snap_scaffold_27-snap.267-T1
Valid prediction for snap_scaffold_27-snap.273-T1
Valid prediction for snap_scaffold_27-snap.299-T1
Valid prediction for GlimmerHMM_glimmerT_56634-T1
Valid prediction for snap_scaffold_27-snap.272-T1
Valid prediction for snap_scaffold_27-snap.285-T1
Valid prediction for GlimmerHMM_glimmerT_56646-T1
Valid prediction for snap_scaffold_27-snap.287-T1
Valid prediction for snap_scaffold_27-snap.275-T1
Valid prediction for GlimmerHMM_glimmerT_56638-T1
Valid prediction for snap_scaffold_27-snap.278-T1
Valid prediction for snap_scaffold_27-snap.306-T1
Valid prediction for GlimmerHMM_glimmerT_56643-T1
Valid prediction for Augustus_model.g37536.t1
Valid prediction for snap_scaffold_27-snap.292-T1
Valid prediction for snap_scaffold_27-snap.277-T1
Couldn't classify 110787, 110838
Sorry, prediction pasa_asmbl_36751.p1 fails validation.
(CGC)	 AA	110787-110838	GT	AGG
(ATG)	 AG	111369-111458	GT	AGG
(GGT)	 AG	111674-111792	GT	CTG
(GTT)	 AG	112208-112322	GT	AGG
(TGG)	 AG	112442-112623	GT	GGG
(GTG)	 AG	113397-113624	GG	GAG
-recovered pasa_asmbl_36751.p1, initial, 111369, 111458
-recovered pasa_asmbl_36751.p1, terminal, 113397, 113624
-recovered pasa_asmbl_36751.p1, internal, 111369, 111458
-recovered pasa_asmbl_36751.p1, internal, 111674, 111792
-recovered pasa_asmbl_36751.p1, internal, 112208, 112322
-recovered pasa_asmbl_36751.p1, internal, 112442, 112623
Valid prediction for snap_scaffold_27-snap.302-T1
Valid prediction for Augustus_model.g37535.t1
Valid prediction for snap_scaffold_27-snap.297-T1
Valid prediction for snap_scaffold_27-snap.304-T1
Valid prediction for Augustus_model.g37531.t1
Valid prediction for snap_scaffold_27-snap.266-T1
Valid prediction for Augustus_model.g37532.t1
Valid prediction for GlimmerHMM_glimmerT_56639-T1
Valid prediction for Augustus_model.g37534.t1
Valid prediction for snap_scaffold_27-snap.263-T1
Valid prediction for GlimmerHMM_glimmerT_56644-T1
Valid prediction for snap_scaffold_27-snap.288-T1
Valid prediction for GlimmerHMM_glimmerT_56641-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 24118, rend_intergenic: 23600  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26683, rend_intergenic: 25167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42126, rend_intergenic: 34953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99004, rend_intergenic: 97458  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103372, rend_intergenic: 99070  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120045, rend_intergenic: 108360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135965, rend_intergenic: 127997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143400, rend_intergenic: 139781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149940, rend_intergenic: 145296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159820, rend_intergenic: 151323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187318, rend_intergenic: 184750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207440, rend_intergenic: 204996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 225137, rend_intergenic: 222477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 236849, rend_intergenic: 234872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 241620
-exon list size: 326


building trellis

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25.9    
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27.4    
27.7    
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28.4    
28.7    
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29.9    
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31.4    
31.7    
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32.6    
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33.2    
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33.8    
34.1    
34.5    
34.8    
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35.4    
35.7    
36.0    
36.3    
36.6    
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37.2    
37.5    
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38.7    
39.0    
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42.7    
43.0    
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43.6    
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45.7    
46.0    
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46.6    
47.0    
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47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
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50.6    
50.9    
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64.6    
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67.1    
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68.0    
68.3    
68.6    
68.9    
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86.0    
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86.6    
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87.2    
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88.7    
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91.5    
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92.1    
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93.0    
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93.9    
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95.1    
95.4    
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96.0    
96.3    
96.6    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 24118, rend_intergenic: 23600  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26683, rend_intergenic: 25167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42126, rend_intergenic: 34953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99004, rend_intergenic: 97458  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103372, rend_intergenic: 99070  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120045, rend_intergenic: 108360  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135965, rend_intergenic: 127997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143400, rend_intergenic: 139781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149940, rend_intergenic: 145296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159820, rend_intergenic: 151323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187318, rend_intergenic: 184750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207440, rend_intergenic: 204996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 225137, rend_intergenic: 222477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 236849, rend_intergenic: 234872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 27 predictions persist after filtering for low support