-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_2842261-3000197

-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_24346-T1
Valid prediction for HiQ_model.g16206.t1
Valid prediction for Augustus_model.g16208.t1
Valid prediction for GlimmerHMM_glimmerT_24328-T1
Valid prediction for snap_scaffold_10-snap.633-T1
Valid prediction for snap_scaffold_10-snap.631-T1
Valid prediction for snap_scaffold_10-snap.618-T1
Valid prediction for snap_scaffold_10-snap.624-T1
Valid prediction for snap_scaffold_10-snap.620-T1
Valid prediction for GlimmerHMM_glimmerT_24338-T1
Couldn't classify 55593, 55783
Sorry, prediction pasa_asmbl_3016.p1 fails validation.
(GCC)	 AC	55593-55783	GT	AGG
(CGT)	 AG	56340-56484	GT	AGG
(ATA)	 AG	56602-56715	GT	AGG
(GCA)	 AG	56804-56932	GT	AGG
(CTG)	 AG	57205-57314	GT	AGG
(GGC)	 AG	57411-57553	GT	AGG
(GTT)	 AG	57683-57874	GT	GGG
(GTG)	 AG	57999-58108	GT	AGG
(ACG)	 AG	58200-58340	GT	CTG
(GCC)	 AG	58765-59022	GG	GAG
-recovered pasa_asmbl_3016.p1, terminal, 58765, 59022
-recovered pasa_asmbl_3016.p1, internal, 56340, 56484
-recovered pasa_asmbl_3016.p1, internal, 56602, 56715
-recovered pasa_asmbl_3016.p1, internal, 56804, 56932
-recovered pasa_asmbl_3016.p1, internal, 57205, 57314
-recovered pasa_asmbl_3016.p1, internal, 57411, 57553
-recovered pasa_asmbl_3016.p1, internal, 57683, 57874
-recovered pasa_asmbl_3016.p1, internal, 57999, 58108
-recovered pasa_asmbl_3016.p1, internal, 58200, 58340
Valid prediction for Augustus_model.g16211.t1
Valid prediction for GlimmerHMM_glimmerT_24347-T1
Valid prediction for GlimmerHMM_glimmerT_24341-T1
Valid prediction for GlimmerHMM_glimmerT_24331-T1
Valid prediction for GlimmerHMM_glimmerT_24342-T1
Valid prediction for Augustus_model.g16212.t1
Valid prediction for snap_scaffold_10-snap.617-T1
Valid prediction for snap_scaffold_10-snap.644-T1
Valid prediction for snap_scaffold_10-snap.636-T1
Valid prediction for snap_scaffold_10-snap.641-T1
Valid prediction for GlimmerHMM_glimmerT_24330-T1
Valid prediction for snap_scaffold_10-snap.609-T1
Valid prediction for GlimmerHMM_glimmerT_24324-T1
Valid prediction for Augustus_model.g16215.t1
Valid prediction for GlimmerHMM_glimmerT_24337-T1
Valid prediction for GlimmerHMM_glimmerT_24326-T1
Valid prediction for snap_scaffold_10-snap.613-T1
Valid prediction for GlimmerHMM_glimmerT_24339-T1
Couldn't classify 71965, 72177
Sorry, prediction pasa_asmbl_3017.p1 fails validation.
(GTG)	 CA	71965-72177	GT	TGG
(GTC)	 AG	72377-72483	GT	AGG
(ACA)	 AG	72896-72959	AA	AGA
-recovered pasa_asmbl_3017.p1, terminal, 72896, 72959
-recovered pasa_asmbl_3017.p1, internal, 72377, 72483
Valid prediction for snap_scaffold_10-snap.608-T1
Valid prediction for Augustus_model.g16210.t1
Valid prediction for snap_scaffold_10-snap.630-T1
Valid prediction for snap_scaffold_10-snap.628-T1
Valid prediction for snap_scaffold_10-snap.640-T1
Valid prediction for Augustus_model.g16209.t1
Valid prediction for GlimmerHMM_glimmerT_24334-T1
Valid prediction for snap_scaffold_10-snap.607-T1
Valid prediction for snap_scaffold_10-snap.615-T1
Valid prediction for snap_scaffold_10-snap.622-T1
Valid prediction for snap_scaffold_10-snap.625-T1
Valid prediction for GlimmerHMM_glimmerT_24336-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: -)Couldn't classify 49357, 49722
Couldn't classify 50271, 50442
Sorry, prediction pasa_asmbl_4142.p1 fails validation.
(CCT)	 CC	49357-49722	GT	AGG
(GAT)	 AG	49830-49966	GT	AGG
(ACG)	 AG	50271-50442	GG	GGG
-recovered pasa_asmbl_4142.p1, internal, 49830, 49966
Valid prediction for GlimmerHMM_glimmerT_24343-T1
Valid prediction for snap_scaffold_10-snap.634-T1
Valid prediction for GlimmerHMM_glimmerT_24344-T1
Valid prediction for Augustus_model.g16217.t1
Valid prediction for Augustus_model.g16203.t1
Valid prediction for snap_scaffold_10-snap.629-T1
Valid prediction for Augustus_model.g16204.t1
Couldn't classify 22759, 22846
Couldn't classify 23071, 23327
Sorry, prediction pasa_asmbl_5157.p1 fails validation.
(GAG)	 AC	22759-22846	GT	AGG
(GCG)	 AG	23071-23327	GG	CAG
Valid prediction for snap_scaffold_10-snap.639-T1
Valid prediction for GlimmerHMM_glimmerT_24345-T1
Couldn't classify 48208, 48585
Sorry, prediction pasa_asmbl_4143.p1 fails validation.
(GAG)	 GG	48208-48585	AA	AGA
Valid prediction for snap_scaffold_10-snap.621-T1
Couldn't classify 25283, 25359
Couldn't classify 26121, 26151
Sorry, prediction pasa_asmbl_4145.p1 fails validation.
(AAG)	 GG	25283-25359	GT	AAG
(TCC)	 AG	25545-25982	GT	GGG
(GTC)	 AG	26121-26151	CA	GCC
-recovered pasa_asmbl_4145.p1, internal, 25545, 25982
Valid prediction for Augustus_model.g16213.t1
Valid prediction for snap_scaffold_10-snap.637-T1
Valid prediction for snap_scaffold_10-snap.619-T1
Valid prediction for GlimmerHMM_glimmerT_24340-T1
Valid prediction for Augustus_model.g16214.t1
Valid prediction for snap_scaffold_10-snap.623-T1
Valid prediction for snap_scaffold_10-snap.635-T1
Valid prediction for snap_scaffold_10-snap.612-T1
Valid prediction for snap_scaffold_10-snap.626-T1
Valid prediction for Augustus_model.g16207.t1
Couldn't classify 54560, 54628
Sorry, prediction pasa_asmbl_4141.p2 fails validation.
(ACC)	 TC	54560-54628	GT	AGG
(GAG)	 AG	54821-55111	GG	GAG
-recovered pasa_asmbl_4141.p2, terminal, 54821, 55111
Valid prediction for snap_scaffold_10-snap.632-T1
Valid prediction for GlimmerHMM_glimmerT_24332-T1
Valid prediction for Augustus_model.g16216.t1
Valid prediction for GlimmerHMM_glimmerT_24335-T1
Valid prediction for snap_scaffold_10-snap.638-T1
Valid prediction for Augustus_model.g16205.t1
Valid prediction for snap_scaffold_10-snap.642-T1
Valid prediction for GlimmerHMM_glimmerT_24333-T1
Valid prediction for GlimmerHMM_glimmerT_24329-T1
Valid prediction for GlimmerHMM_glimmerT_24327-T1
Couldn't classify 26263, 26266
Sorry, prediction pasa_asmbl_4144.p1 fails validation.
(ACC)	 TC	26263-26266	GT	CAG
(GTG)	 AG	26388-26601	GT	AAG
(GCC)	 AG	26723-26807	GT	GGG
(TTT)	 AG	26907-27069	GT	TGG
(ACG)	 AG	27210-27508	GT	AGG
(ATT)	 AG	27656-27803	GT	CGG
(GCA)	 AG	27950-28047	GT	AGG
(GAG)	 AG	28350-29645	AC	AGA
-recovered pasa_asmbl_4144.p1, terminal, 28350, 29645
-recovered pasa_asmbl_4144.p1, internal, 26388, 26601
-recovered pasa_asmbl_4144.p1, internal, 26723, 26807
-recovered pasa_asmbl_4144.p1, internal, 26907, 27069
-recovered pasa_asmbl_4144.p1, internal, 27210, 27508
-recovered pasa_asmbl_4144.p1, internal, 27656, 27803
-recovered pasa_asmbl_4144.p1, internal, 27950, 28047
Valid prediction for snap_scaffold_10-snap.616-T1
Valid prediction for snap_scaffold_10-snap.627-T1
Valid prediction for snap_scaffold_10-snap.610-T1
Valid prediction for GlimmerHMM_glimmerT_24325-T1
Valid prediction for GlimmerHMM_glimmerT_24323-T1
Valid prediction for snap_scaffold_10-snap.643-T1
Valid prediction for snap_scaffold_10-snap.614-T1
Valid prediction for snap_scaffold_10-snap.611-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 20964, rend_intergenic: 14269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29068, rend_intergenic: 26394  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38696, rend_intergenic: 35636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45780, rend_intergenic: 43286  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49550, rend_intergenic: 46335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66595, rend_intergenic: 61934  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72959, rend_intergenic: 66608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87811, rend_intergenic: 82971  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92059, rend_intergenic: 87888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96197, rend_intergenic: 92538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110801, rend_intergenic: 106229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118224, rend_intergenic: 114013  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122231, rend_intergenic: 118537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142280, rend_intergenic: 130852  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152815, rend_intergenic: 142593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155333, rend_intergenic: 153304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 157937
-exon list size: 406


building trellis

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27.9    
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33.6    
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34.3    
34.6    
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36.5    
36.8    
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37.3    
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38.2    
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39.2    
39.5    
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40.2    
40.4    
40.7    
40.9    
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41.4    
41.7    
41.9    
42.2    
42.4    
42.6    
42.9    
43.1    
43.4    
43.6    
43.9    
44.1    
44.4    
44.6    
44.9    
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45.6    
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46.6    
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47.5    
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48.0    
48.3    
48.5    
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91.4    
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96.3    
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97.3    
97.5    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 20964, rend_intergenic: 14269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29068, rend_intergenic: 26394  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38696, rend_intergenic: 35636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45780, rend_intergenic: 43286  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49550, rend_intergenic: 46335  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66595, rend_intergenic: 61934  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72959, rend_intergenic: 66608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87811, rend_intergenic: 82971  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92059, rend_intergenic: 87888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96197, rend_intergenic: 92538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110801, rend_intergenic: 106229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118224, rend_intergenic: 114013  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122231, rend_intergenic: 118537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142280, rend_intergenic: 130852  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152815, rend_intergenic: 142593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155333, rend_intergenic: 153304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support