-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_1113503-1380650

-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_41738-T1
Valid prediction for snap_scaffold_18-snap.221-T1
Valid prediction for GlimmerHMM_glimmerT_41745-T1
Couldn't classify 264068, 264517
Sorry, prediction pasa_asmbl_20344.p1 fails validation.
(ATC)	 AG	264068-264517	CC	CCC
Valid prediction for snap_scaffold_18-snap.261-T1
Valid prediction for snap_scaffold_18-snap.244-T1
Valid prediction for GlimmerHMM_glimmerT_41761-T1
Valid prediction for snap_scaffold_18-snap.264-T1
Valid prediction for GlimmerHMM_glimmerT_41760-T1
Valid prediction for GlimmerHMM_glimmerT_41740-T1
Valid prediction for Augustus_model.g27790.t1
Valid prediction for snap_scaffold_18-snap.272-T1
Valid prediction for snap_scaffold_18-snap.229-T1
Valid prediction for snap_scaffold_18-snap.225-T1
Valid prediction for Augustus_model.g27785.t1
Couldn't classify 260597, 260662
Couldn't classify 263565, 263593
Sorry, prediction pasa_asmbl_21134.p1 fails validation.
(GAC)	 AG	260597-260662	GT	GAG
(ACC)	 AG	260793-260892	GT	GAG
(AGC)	 AG	261070-261222	GT	AGG
(GTA)	 AG	263565-263593	CT	CCC
-recovered pasa_asmbl_21134.p1, internal, 260597, 260662
-recovered pasa_asmbl_21134.p1, internal, 260793, 260892
-recovered pasa_asmbl_21134.p1, internal, 261070, 261222
Valid prediction for GlimmerHMM_glimmerT_41756-T1
Valid prediction for snap_scaffold_18-snap.231-T1
Valid prediction for snap_scaffold_18-snap.251-T1
Valid prediction for snap_scaffold_18-snap.238-T1
Valid prediction for snap_scaffold_18-snap.217-T1
Valid prediction for GlimmerHMM_glimmerT_41762-T1
Couldn't classify 251556, 251611
Couldn't classify 258093, 258203
Sorry, prediction pasa_asmbl_20343.p1 fails validation.
(TGG)	 CC	251556-251611	GT	CAG
(TGA)	 AG	254382-254421	GT	GGG
(CAA)	 AG	254727-254810	GT	AGG
(CTG)	 AG	257305-257412	GT	AGG
(AAG)	 AG	258093-258203	TA	AGT
-recovered pasa_asmbl_20343.p1, internal, 254382, 254421
-recovered pasa_asmbl_20343.p1, internal, 254727, 254810
-recovered pasa_asmbl_20343.p1, internal, 257305, 257412
Valid prediction for GlimmerHMM_glimmerT_41746-T1
Couldn't classify 211218, 211308
Sorry, prediction pasa_asmbl_20336.p1 fails validation.
(AAC)	 TG	211218-211308	GT	CAG
(GTA)	 AG	213929-214108	GT	GGG
(GTC)	 AG	214607-214750	GT	CGG
(GCT)	 AG	214888-215015	TC	GAT
-recovered pasa_asmbl_20336.p1, terminal, 214888, 215015
-recovered pasa_asmbl_20336.p1, internal, 213929, 214108
-recovered pasa_asmbl_20336.p1, internal, 214607, 214750
Valid prediction for snap_scaffold_18-snap.248-T1
Valid prediction for GlimmerHMM_glimmerT_41766-T1
Valid prediction for GlimmerHMM_glimmerT_41765-T1
Valid prediction for GlimmerHMM_glimmerT_41751-T1
Valid prediction for Augustus_model.g27780.t1
Valid prediction for GlimmerHMM_glimmerT_41752-T1
Valid prediction for GlimmerHMM_glimmerT_41736-T1
Couldn't classify 264527, 264941
Couldn't classify 264963, 264976
Sorry, prediction pasa_asmbl_20345.p1 fails validation.
(CTC)	 GC	264527-264941	GT	AGG
(GCA)	 AG	264963-264976	GG	AGG
Valid prediction for GlimmerHMM_glimmerT_41742-T1
Valid prediction for GlimmerHMM_glimmerT_41732-T1
Valid prediction for snap_scaffold_18-snap.242-T1
Valid prediction for GlimmerHMM_glimmerT_41753-T1
Valid prediction for snap_scaffold_18-snap.260-T1
Valid prediction for snap_scaffold_18-snap.228-T1
Valid prediction for snap_scaffold_18-snap.250-T1
Valid prediction for GlimmerHMM_glimmerT_41764-T1
Valid prediction for snap_scaffold_18-snap.233-T1
Valid prediction for snap_scaffold_18-snap.222-T1
Valid prediction for GlimmerHMM_glimmerT_41750-T1
Valid prediction for snap_scaffold_18-snap.234-T1
Valid prediction for Augustus_model.g27784.t1
Valid prediction for GlimmerHMM_glimmerT_41763-T1
Valid prediction for GlimmerHMM_glimmerT_41759-T1
Valid prediction for Augustus_model.g27789.t1
Valid prediction for snap_scaffold_18-snap.219-T1
Valid prediction for Augustus_model.g27788.t1
Valid prediction for snap_scaffold_18-snap.269-T1
Valid prediction for GlimmerHMM_glimmerT_41739-T1
Valid prediction for Augustus_model.g27787.t1
Valid prediction for snap_scaffold_18-snap.254-T1
Valid prediction for Augustus_model.g27786.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 snap_scaffold_18-snap.237-T1
Valid prediction for snap_scaffold_18-snap.236-T1
Valid prediction for snap_scaffold_18-snap.258-T1
Valid prediction for Augustus_model.g27777.t1
Valid prediction for snap_scaffold_18-snap.263-T1
Valid prediction for snap_scaffold_18-snap.247-T1
Valid prediction for snap_scaffold_18-snap.249-T1
Valid prediction for snap_scaffold_18-snap.273-T1
Valid prediction for Augustus_model.g27782.t1
Valid prediction for snap_scaffold_18-snap.240-T1
Valid prediction for snap_scaffold_18-snap.256-T1
Valid prediction for snap_scaffold_18-snap.226-T1
Valid prediction for snap_scaffold_18-snap.268-T1
Valid prediction for snap_scaffold_18-snap.230-T1
Valid prediction for GlimmerHMM_glimmerT_41758-T1
Valid prediction for snap_scaffold_18-snap.274-T1
Valid prediction for snap_scaffold_18-snap.265-T1
Valid prediction for snap_scaffold_18-snap.259-T1
Valid prediction for GlimmerHMM_glimmerT_41734-T1
Valid prediction for snap_scaffold_18-snap.257-T1
Valid prediction for snap_scaffold_18-snap.246-T1
Valid prediction for GlimmerHMM_glimmerT_41757-T1
Valid prediction for GlimmerHMM_glimmerT_41735-T1
Valid prediction for snap_scaffold_18-snap.252-T1
Valid prediction for snap_scaffold_18-snap.270-T1
Valid prediction for GlimmerHMM_glimmerT_41754-T1
Valid prediction for snap_scaffold_18-snap.220-T1
Valid prediction for snap_scaffold_18-snap.232-T1
Valid prediction for snap_scaffold_18-snap.267-T1
Valid prediction for GlimmerHMM_glimmerT_41731-T1
Valid prediction for Augustus_model.g27779.t1
Valid prediction for snap_scaffold_18-snap.243-T1
Valid prediction for snap_scaffold_18-snap.227-T1
Valid prediction for GlimmerHMM_glimmerT_41733-T1
Valid prediction for GlimmerHMM_glimmerT_41748-T1
Valid prediction for GlimmerHMM_glimmerT_41749-T1
Valid prediction for GlimmerHMM_glimmerT_41737-T1
Valid prediction for snap_scaffold_18-snap.271-T1
Valid prediction for Augustus_model.g27778.t1
Valid prediction for snap_scaffold_18-snap.216-T1
Valid prediction for snap_scaffold_18-snap.262-T1
Valid prediction for snap_scaffold_18-snap.266-T1
Valid prediction for snap_scaffold_18-snap.235-T1
Valid prediction for GlimmerHMM_glimmerT_41747-T1
Valid prediction for Augustus_model.g27781.t1
Valid prediction for GlimmerHMM_glimmerT_41741-T1
Valid prediction for snap_scaffold_18-snap.255-T1
Valid prediction for GlimmerHMM_glimmerT_41744-T1
Valid prediction for snap_scaffold_18-snap.253-T1
Valid prediction for Augustus_model.g27783.t1
Valid prediction for snap_scaffold_18-snap.224-T1
Valid prediction for snap_scaffold_18-snap.218-T1
Valid prediction for snap_scaffold_18-snap.223-T1
Valid prediction for snap_scaffold_18-snap.239-T1
Valid prediction for snap_scaffold_18-snap.245-T1
Valid prediction for GlimmerHMM_glimmerT_41743-T1
Valid prediction for GlimmerHMM_glimmerT_41755-T1
Valid prediction for snap_scaffold_18-snap.241-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13940, rend_intergenic: 11398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16718, rend_intergenic: 14676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18101, rend_intergenic: 17363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24998, rend_intergenic: 22129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31762, rend_intergenic: 25760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45692, rend_intergenic: 41486  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50405, rend_intergenic: 46320  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57201, rend_intergenic: 52205  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63952, rend_intergenic: 57452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74559, rend_intergenic: 65273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91465, rend_intergenic: 76447  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103984, rend_intergenic: 99128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121073, rend_intergenic: 106839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131177, rend_intergenic: 126330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140920, rend_intergenic: 131307  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152163, rend_intergenic: 141649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166888, rend_intergenic: 159003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185887, rend_intergenic: 166998  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191790, rend_intergenic: 186404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202627, rend_intergenic: 191965  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204905, rend_intergenic: 202815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215015, rend_intergenic: 205644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237742, rend_intergenic: 228204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 248157, rend_intergenic: 238107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 265258, rend_intergenic: 252671  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 66035, rend_intergenic: 66032  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 267148
-exon list size: 408


building trellis

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32.4    
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32.9    
33.2    
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33.9    
34.1    
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34.6    
34.9    
35.1    
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36.6    
36.8    
37.1    
37.3    
37.6    
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38.0    
38.3    
38.5    
38.8    
39.0    
39.3    
39.5    
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40.2    
40.5    
40.7    
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41.2    
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42.0    
42.2    
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42.7    
42.9    
43.2    
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43.9    
44.1    
44.4    
44.6    
44.9    
45.1    
45.4    
45.6    
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47.6    
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98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 13940, rend_intergenic: 11398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16718, rend_intergenic: 14676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18101, rend_intergenic: 17363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24998, rend_intergenic: 22129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31762, rend_intergenic: 25760  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45692, rend_intergenic: 41486  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50405, rend_intergenic: 46320  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57201, rend_intergenic: 52205  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63952, rend_intergenic: 57452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74559, rend_intergenic: 65273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91465, rend_intergenic: 76447  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103984, rend_intergenic: 99128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121073, rend_intergenic: 106839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131177, rend_intergenic: 126330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140920, rend_intergenic: 131307  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152163, rend_intergenic: 141649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166888, rend_intergenic: 159003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185887, rend_intergenic: 166998  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191790, rend_intergenic: 186404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202627, rend_intergenic: 191965  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204905, rend_intergenic: 202815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215015, rend_intergenic: 205644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237742, rend_intergenic: 228204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 248157, rend_intergenic: 238107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 265258, rend_intergenic: 252671  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 66035, rend_intergenic: 66032  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