-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_167903-426482

-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_14-snap.49-T1
Valid prediction for Augustus_model.g22096.t1
Valid prediction for snap_scaffold_14-snap.34-T1
Valid prediction for Augustus_model.g22104.t1
Valid prediction for GlimmerHMM_glimmerT_33122-T1
Valid prediction for Augustus_model.g22095.t1
Valid prediction for GlimmerHMM_glimmerT_33116-T1
Valid prediction for snap_scaffold_14-snap.35-T1
Valid prediction for GlimmerHMM_glimmerT_33114-T1
Valid prediction for Augustus_model.g22112.t1
Valid prediction for snap_scaffold_14-snap.33-T1
Valid prediction for CodingQuarry_transcript_15523-T1
Valid prediction for CodingQuarry_transcript_15525-T1
Valid prediction for GlimmerHMM_glimmerT_33138-T1
Valid prediction for snap_scaffold_14-snap.36-T1
Valid prediction for snap_scaffold_14-snap.42-T1
Valid prediction for Augustus_model.g22130.t1
Valid prediction for snap_scaffold_14-snap.47-T1
Valid prediction for CodingQuarry_transcript_15524-T1
Valid prediction for GlimmerHMM_glimmerT_33149-T1
Valid prediction for Augustus_model.g22101.t1
Valid prediction for CodingQuarry_transcript_15520-T1
Valid prediction for Augustus_model.g22121.t1
Valid prediction for snap_scaffold_14-snap.41-T1
Valid prediction for Augustus_model.g22102.t1
Valid prediction for GlimmerHMM_glimmerT_33112-T1
Valid prediction for Augustus_model.g22133.t1
Valid prediction for Augustus_model.g22124.t1
Valid prediction for snap_scaffold_14-snap.61-T1
Valid prediction for GlimmerHMM_glimmerT_33139-T1
Valid prediction for GlimmerHMM_glimmerT_33113-T1
Valid prediction for snap_scaffold_14-snap.67-T1
Valid prediction for Augustus_model.g22098.t1
Valid prediction for Augustus_model.g22118.t1
Valid prediction for Augustus_model.g22110.t1
Valid prediction for HiQ_model.g22122.t1
Valid prediction for GlimmerHMM_glimmerT_33142-T1
Valid prediction for Augustus_model.g22100.t1
Valid prediction for GlimmerHMM_glimmerT_33123-T1
Valid prediction for GlimmerHMM_glimmerT_33152-T1
Valid prediction for snap_scaffold_14-snap.64-T1
Valid prediction for snap_scaffold_14-snap.60-T1
Valid prediction for GlimmerHMM_glimmerT_33137-T1
Valid prediction for snap_scaffold_14-snap.32-T1
Couldn't classify 31402, 31911
Sorry, prediction pasa_asmbl_12794.p1 fails validation.
(TCT)	 AG	31402-31911	GT	ATG
-recovered pasa_asmbl_12794.p1, internal, 31402, 31911
Valid prediction for snap_scaffold_14-snap.48-T1
Valid prediction for Augustus_model.g22107.t1
Valid prediction for CodingQuarry_transcript_15522-T1
Valid prediction for GlimmerHMM_glimmerT_33118-T1
Valid prediction for GlimmerHMM_glimmerT_33115-T1
Valid prediction for GlimmerHMM_glimmerT_33144-T1
Valid prediction for Augustus_model.g22103.t1
Valid prediction for GlimmerHMM_glimmerT_33129-T1
Valid prediction for Augustus_model.g22105.t1
Valid prediction for Augustus_model.g22093.t1
Valid prediction for snap_scaffold_14-snap.52-T1
Valid prediction for GlimmerHMM_glimmerT_33120-T1
Valid prediction for GlimmerHMM_glimmerT_33128-T1
Valid prediction for pasa_asmbl_11748.p1
Valid prediction for snap_scaffold_14-snap.62-T1
Valid prediction for GlimmerHMM_glimmerT_33125-T1
Valid prediction for GlimmerHMM_glimmerT_33121-T1
Valid prediction for snap_scaffold_14-snap.77-T1
Valid prediction for Augustus_model.g22094.t1
Valid prediction for GlimmerHMM_glimmerT_33150-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_33117-T1
Valid prediction for snap_scaffold_14-snap.66-T1
Couldn't classify 188044, 188472
Sorry, prediction pasa_asmbl_12811.p1 fails validation.
(ATT)	 CA	188044-188472	TC	ACT
Valid prediction for Augustus_model.g22109.t1
Valid prediction for GlimmerHMM_glimmerT_33132-T1
Valid prediction for GlimmerHMM_glimmerT_33130-T1
Valid prediction for snap_scaffold_14-snap.59-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for Augustus_model.g22117.t1
Valid prediction for Augustus_model.g22115.t1
Valid prediction for HiQ_model.g22114.t1
Valid prediction for GlimmerHMM_glimmerT_33151-T1
Valid prediction for GlimmerHMM_glimmerT_33135-T1
Couldn't classify 147662, 147806
Couldn't classify 150051, 150206
Sorry, prediction pasa_asmbl_12815.p1 fails validation.
(GCC)	 TA	147662-147806	GT	AGG
(AAA)	 AG	149553-149659	GT	AGG
(GGG)	 AG	150051-150206	GT	AGG
-recovered pasa_asmbl_12815.p1, internal, 149553, 149659
-recovered pasa_asmbl_12815.p1, internal, 150051, 150206
Valid prediction for snap_scaffold_14-snap.76-T1
Valid prediction for GlimmerHMM_glimmerT_33131-T1
Couldn't classify 109291, 109440
Sorry, prediction pasa_asmbl_12818.p1 fails validation.
(ATG)	 GC	105900-105912	GT	AGG
(GCC)	 AG	106192-106275	GT	AGG
(AAA)	 AG	106405-106491	GT	AGG
(GTG)	 AG	107435-107618	GT	AAG
(GTT)	 AG	108006-108178	GT	AAG
(TGG)	 AG	108625-108780	GT	AGG
(GTC)	 AG	108987-109123	GT	AGG
(GCA)	 AG	109291-109440	AC	GTA
-recovered pasa_asmbl_12818.p1, initial, 105900, 105912
-recovered pasa_asmbl_12818.p1, internal, 106192, 106275
-recovered pasa_asmbl_12818.p1, internal, 106405, 106491
-recovered pasa_asmbl_12818.p1, internal, 107435, 107618
-recovered pasa_asmbl_12818.p1, internal, 108006, 108178
-recovered pasa_asmbl_12818.p1, internal, 108625, 108780
-recovered pasa_asmbl_12818.p1, internal, 108987, 109123
Valid prediction for snap_scaffold_14-snap.81-T1
Valid prediction for snap_scaffold_14-snap.43-T1
Valid prediction for GlimmerHMM_glimmerT_33134-T1
Valid prediction for Augustus_model.g22116.t1
Couldn't classify 250959, 251081
Sorry, prediction pasa_asmbl_12786.p1 fails validation.
(ATG)	 AG	249456-249553	GT	AGG
(TGT)	 AG	249684-249819	GT	AGG
(ATC)	 AG	250959-251081	GT	AGG
-recovered pasa_asmbl_12786.p1, initial, 249456, 249553
-recovered pasa_asmbl_12786.p1, internal, 249456, 249553
-recovered pasa_asmbl_12786.p1, internal, 249684, 249819
-recovered pasa_asmbl_12786.p1, internal, 250959, 251081
Valid prediction for Augustus_model.g22132.t1
Valid prediction for snap_scaffold_14-snap.37-T1
Couldn't classify 44153, 44379
Couldn't classify 45039, 45168
Couldn't classify 46028, 46191
Sorry, prediction pasa_asmbl_12829.p1 fails validation.
(TCA)	 TC	44153-44379	AT	CAA
(TTG)	 AC	45039-45168	GT	AGG
(AAG)	 AG	45639-45864	GT	GGG
(CTC)	 AG	46028-46191	CA	ACC
-recovered pasa_asmbl_12829.p1, internal, 45639, 45864
Valid prediction for snap_scaffold_14-snap.46-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for CodingQuarry_transcript_15518-T1
Valid prediction for snap_scaffold_14-snap.80-T1
Valid prediction for Augustus_model.g22092.t1
Valid prediction for GlimmerHMM_glimmerT_33146-T1
Valid prediction for snap_scaffold_14-snap.51-T1
Valid prediction for Augustus_model.g22127.t1
Couldn't classify 242313, 243230
Sorry, prediction pasa_asmbl_12791.p1 fails validation.
(AAG)	 CC	242313-243230	GC	AGG
Valid prediction for snap_scaffold_14-snap.40-T1
Valid prediction for Augustus_model.g22125.t1
Valid prediction for GlimmerHMM_glimmerT_33111-T1
Valid prediction for snap_scaffold_14-snap.71-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 127696, 127842
Couldn't classify 127944, 128120
Sorry, prediction pasa_asmbl_13826.p1 fails validation.
(GGT)	 CA	127696-127842	GT	AGG
(GTG)	 AG	127944-128120	TG	AGT
Valid prediction for snap_scaffold_14-snap.45-T1
Valid prediction for Augustus_model.g22097.t1
Valid prediction for CodingQuarry_transcript_15519-T1
Valid prediction for snap_scaffold_14-snap.63-T1
Valid prediction for snap_scaffold_14-snap.55-T1
Valid prediction for snap_scaffold_14-snap.65-T1
Couldn't classify 250959, 251081
Sorry, prediction pasa_asmbl_12785.p1 fails validation.
(ATG)	 GG	247510-247533	GT	ATG
(ACT)	 AG	248157-248252	GT	AGG
(TGG)	 AG	248356-248457	GT	AGG
(CCA)	 AG	248682-248843	GT	AGG
(ATG)	 AG	249456-249553	GT	AGG
(TGT)	 AG	249684-249819	GT	AGG
(ATC)	 AG	250959-251081	GT	AGG
-recovered pasa_asmbl_12785.p1, initial, 247510, 247533
-recovered pasa_asmbl_12785.p1, initial, 249456, 249553
-recovered pasa_asmbl_12785.p1, internal, 248157, 248252
-recovered pasa_asmbl_12785.p1, internal, 248356, 248457
-recovered pasa_asmbl_12785.p1, internal, 248682, 248843
-recovered pasa_asmbl_12785.p1, internal, 249456, 249553
-recovered pasa_asmbl_12785.p1, internal, 249684, 249819
-recovered pasa_asmbl_12785.p1, internal, 250959, 251081
Couldn't classify 46759, 46794
Couldn't classify 49229, 49344
Sorry, prediction pasa_asmbl_12828.p1 fails validation.
(AAC)	 TC	46759-46794	GT	AGG
(GCT)	 AG	47165-47311	GT	AGG
(CCA)	 AG	47512-47659	GT	AGG
(GGA)	 AG	49229-49344	GG	TTG
-recovered pasa_asmbl_12828.p1, internal, 47165, 47311
-recovered pasa_asmbl_12828.p1, internal, 47512, 47659
Valid prediction for GlimmerHMM_glimmerT_33140-T1
Valid prediction for Augustus_model.g22128.t1
Valid prediction for Augustus_model.g22120.t1
Valid prediction for snap_scaffold_14-snap.53-T1
Valid prediction for snap_scaffold_14-snap.56-T1
Valid prediction for Augustus_model.g22099.t1
Valid prediction for GlimmerHMM_glimmerT_33141-T1
Valid prediction for GlimmerHMM_glimmerT_33133-T1
Couldn't classify 143614, 143768
Sorry, prediction pasa_asmbl_12816.p1 fails validation.
(ATG)	 CC	140525-140539	GT	AGG
(AGT)	 AG	140719-141019	GT	GGG
(TGG)	 AG	141254-141408	GT	AGG
(GTG)	 AG	141725-141827	GT	AGG
(CTG)	 AG	142875-143082	GT	GGG
(GTG)	 AG	143196-143329	GT	AGG
(ATC)	 AG	143614-143768	GG	CTG
-recovered pasa_asmbl_12816.p1, initial, 140525, 140539
-recovered pasa_asmbl_12816.p1, terminal, 141725, 141827
-recovered pasa_asmbl_12816.p1, internal, 140719, 141019
-recovered pasa_asmbl_12816.p1, internal, 141254, 141408
-recovered pasa_asmbl_12816.p1, internal, 141725, 141827
-recovered pasa_asmbl_12816.p1, internal, 142875, 143082
-recovered pasa_asmbl_12816.p1, internal, 143196, 143329
Valid prediction for Augustus_model.g22119.t1
Valid prediction for CodingQuarry_transcript_15517-T1
Valid prediction for snap_scaffold_14-snap.70-T1
Valid prediction for Augustus_model.g22129.t1
Valid prediction for Augustus_model.g22113.t1
Valid prediction for snap_scaffold_14-snap.58-T1
Couldn't classify 55166, 55345
Couldn't classify 55948, 56082
Sorry, prediction pasa_asmbl_13845.p1 fails validation.
(GTG)	 CA	55166-55345	GT	AGG
(GTG)	 AG	55948-56082	GG	ACG
Valid prediction for Augustus_model.g22123.t1
Couldn't classify 225152, 225193
Sorry, prediction pasa_asmbl_12804.p1 fails validation.
(ATG)	 AA	219030-219080	GT	AGG
(GGT)	 AG	219195-219327	GT	TGG
(AAA)	 AG	221030-221201	GT	AGG
(AAT)	 AG	223970-224070	GT	AGG
(CCA)	 AG	224346-224368	GT	AGG
(AAT)	 AG	225152-225193	CG	AGC
-recovered pasa_asmbl_12804.p1, initial, 219030, 219080
-recovered pasa_asmbl_12804.p1, internal, 219195, 219327
-recovered pasa_asmbl_12804.p1, internal, 221030, 221201
-recovered pasa_asmbl_12804.p1, internal, 223970, 224070
-recovered pasa_asmbl_12804.p1, internal, 224346, 224368
Valid prediction for Augustus_model.g22131.t1
Valid prediction for snap_scaffold_14-snap.54-T1
Valid prediction for Augustus_model.g22111.t1
Valid prediction for Augustus_model.g22134.t1
Valid prediction for pasa_asmbl_12820.p1
Valid prediction for snap_scaffold_14-snap.44-T1
Couldn't classify 245239, 245429
Couldn't classify 245965, 246087
Sorry, prediction pasa_asmbl_12790.p1 fails validation.
(CAG)	 CT	245239-245429	GT	GGG
(TGG)	 AG	245805-245847	GT	GGG
(ATC)	 AG	245965-246087	GT	CGG
-recovered pasa_asmbl_12790.p1, internal, 245805, 245847
-recovered pasa_asmbl_12790.p1, internal, 245965, 246087
Valid prediction for snap_scaffold_14-snap.38-T1
Valid prediction for snap_scaffold_14-snap.79-T1
Valid prediction for CodingQuarry_transcript_15516-T1
Valid prediction for GlimmerHMM_glimmerT_33148-T1
Valid prediction for Augustus_model.g22108.t1
Valid prediction for snap_scaffold_14-snap.31-T1
Valid prediction for snap_scaffold_14-snap.73-T1
Couldn't classify 30518, 31234
Sorry, prediction pasa_asmbl_11746.p1 fails validation.
(GAG)	 TC	30518-31234	CA	CAC
Valid prediction for snap_scaffold_14-snap.30-T1
Valid prediction for snap_scaffold_14-snap.69-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33126-T1
Valid prediction for GlimmerHMM_glimmerT_33145-T1
Valid prediction for Augustus_model.g22106.t1
Valid prediction for snap_scaffold_14-snap.82-T1
Valid prediction for pasa_asmbl_12810.p1
Valid prediction for GlimmerHMM_glimmerT_33154-T1
Couldn't classify 10117, 10121
Couldn't classify 13168, 13208
Sorry, prediction pasa_asmbl_12834.p1 fails validation.
(TTC)	 TC	10117-10121	GT	TCG
(ACG)	 AG	10285-10324	GT	GGG
(TCT)	 AG	10425-10562	GT	AGG
(AAG)	 AG	12230-12544	GT	AAG
(GAA)	 AG	12694-12755	GT	AGG
(TCC)	 AG	12942-13048	GT	TGG
(ATG)	 AG	13168-13208	AC	AGA
-recovered pasa_asmbl_12834.p1, internal, 10285, 10324
-recovered pasa_asmbl_12834.p1, internal, 10425, 10562
-recovered pasa_asmbl_12834.p1, internal, 12230, 12544
-recovered pasa_asmbl_12834.p1, internal, 12694, 12755
-recovered pasa_asmbl_12834.p1, internal, 12942, 13048
Valid prediction for GlimmerHMM_glimmerT_33153-T1
Valid prediction for GlimmerHMM_glimmerT_33136-T1
Valid prediction for GlimmerHMM_glimmerT_33127-T1
Valid prediction for GlimmerHMM_glimmerT_33124-T1
Valid prediction for CodingQuarry_transcript_15521-T1
Valid prediction for snap_scaffold_14-snap.78-T1
Valid prediction for GlimmerHMM_glimmerT_33143-T1
Valid prediction for snap_scaffold_14-snap.50-T1
Valid prediction for snap_scaffold_14-snap.72-T1
Valid prediction for GlimmerHMM_glimmerT_33119-T1
Valid prediction for Augustus_model.g22126.t1
Valid prediction for snap_scaffold_14-snap.68-T1
Valid prediction for GlimmerHMM_glimmerT_33147-T1
Valid prediction for snap_scaffold_14-snap.75-T1
Valid prediction for snap_scaffold_14-snap.39-T1
Valid prediction for snap_scaffold_14-snap.74-T1
Valid prediction for snap_scaffold_14-snap.57-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 154599, rend_intergenic: 153670  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 258580
-exon list size: 527


building trellis

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67.5    
67.7    
67.9    
68.1    
68.2    
68.4    
68.6    
68.8    
69.0    
69.2    
69.4    
69.6    
69.8    
69.9    
70.1    
70.3    
70.5    
70.7    
70.9    
71.1    
71.3    
71.5    
71.6    
71.8    
72.0    
72.2    
72.4    
72.6    
72.8    
73.0    
73.2    
73.3    
73.5    
73.7    
73.9    
74.1    
74.3    
74.5    
74.7    
74.9    
75.0    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.6    
76.7    
76.9    
77.1    
77.3    
77.5    
77.7    
77.9    
78.1    
78.3    
78.4    
78.6    
78.8    
79.0    
79.2    
79.4    
79.6    
79.8    
80.0    
80.2    
80.3    
80.5    
80.7    
80.9    
81.1    
81.3    
81.5    
81.7    
81.9    
82.0    
82.2    
82.4    
82.6    
82.8    
83.0    
83.2    
83.4    
83.6    
83.7    
83.9    
84.1    
84.3    
84.5    
84.7    
84.9    
85.1    
85.3    
85.4    
85.6    
85.8    
86.0    
86.2    
86.4    
86.6    
86.8    
87.0    
87.1    
87.3    
87.5    
87.7    
87.9    
88.1    
88.3    
88.5    
88.7    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.5    
90.7    
90.9    
91.1    
91.3    
91.5    
91.7    
91.9    
92.1    
92.2    
92.4    
92.6    
92.8    
93.0    
93.2    
93.4    
93.6    
93.8    
94.0    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.8    
96.0    
96.2    
96.4    
96.6    
96.8    
97.0    
97.2    
97.4    
97.5    
97.7    
97.9    
98.1    
98.3    
98.5    
98.7    
98.9    
99.1    
99.2    
99.4    
99.6    
99.8    
-found 63 predictions from path traversal
Error with prediction: snap lend_intergenic: 154599, rend_intergenic: 153670  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 58 predictions persist after filtering for low support