-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_10/scaffold_10_754098-965024

-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 Augustus_model.g16476.t1
Valid prediction for GeneMark_model.41933_t
Valid prediction for Augustus_model.g16483.t1
Valid prediction for pasa_asmbl_4170.p1
Valid prediction for GlimmerHMM_glimmerT_24565-T1
Valid prediction for GeneMark_model.41950_t
Valid prediction for GlimmerHMM_glimmerT_24560-T1
Valid prediction for HiQ_model.g16487.t1
Valid prediction for GlimmerHMM_glimmerT_24571-T1
Valid prediction for GlimmerHMM_glimmerT_24581-T1
Valid prediction for GlimmerHMM_glimmerT_24564-T1
Valid prediction for GlimmerHMM_glimmerT_24575-T1
Valid prediction for snap_scaffold_10-snap.187-T1
Valid prediction for GlimmerHMM_glimmerT_24573-T1
Valid prediction for GeneMark_model.41926_t
Valid prediction for GlimmerHMM_glimmerT_24563-T1
Valid prediction for Augustus_model.g16468.t1
Valid prediction for GlimmerHMM_glimmerT_24569-T1
Valid prediction for GeneMark_model.41925_t
Valid prediction for snap_scaffold_10-snap.193-T1
Valid prediction for snap_scaffold_10-snap.195-T1
Valid prediction for pasa_asmbl_4167.p1
Valid prediction for snap_scaffold_10-snap.181-T1
Valid prediction for GlimmerHMM_glimmerT_24576-T1
Valid prediction for GeneMark_model.41920_t
Valid prediction for snap_scaffold_10-snap.179-T1
Valid prediction for GlimmerHMM_glimmerT_24580-T1
Valid prediction for GlimmerHMM_glimmerT_24579-T1
Valid prediction for CodingQuarry_transcript_5255-T1
Valid prediction for GeneMark_model.41910_t
Couldn't classify 157177, 157286
Sorry, prediction pasa_asmbl_4158.p1 fails validation.
(ATG)	 CC	156304-156345	GT	AGG
(CAG)	 AG	156654-156840	GT	GGG
(ACA)	 AG	157177-157286	TC	AGT
-recovered pasa_asmbl_4158.p1, initial, 156304, 156345
-recovered pasa_asmbl_4158.p1, internal, 156654, 156840
Valid prediction for GeneMark_model.41940_t
Valid prediction for snap_scaffold_10-snap.183-T1
Valid prediction for GeneMark_model.41913_t
Valid prediction for GeneMark_model.41936_t
Valid prediction for GlimmerHMM_glimmerT_24574-T1
Valid prediction for HiQ_model.g16469.t1
Valid prediction for pasa_asmbl_4173.p1
Valid prediction for snap_scaffold_10-snap.188-T1
Valid prediction for Augustus_model.g16479.t1
Valid prediction for GeneMark_model.41931_t
Valid prediction for snap_scaffold_10-snap.191-T1
Valid prediction for snap_scaffold_10-snap.216-T1
Valid prediction for GeneMark_model.41915_t
Valid prediction for Augustus_model.g16478.t1
Valid prediction for GlimmerHMM_glimmerT_24561-T1
Valid prediction for GlimmerHMM_glimmerT_24568-T1
Valid prediction for snap_scaffold_10-snap.204-T1
Valid prediction for Augustus_model.g16486.t1
Couldn't classify 179418, 179467
Sorry, prediction pasa_asmbl_4169.p1 fails validation.
(CAC)	 GT	179418-179467	GT	AGG
(CTA)	 AG	179926-180835	AA	AAA
-recovered pasa_asmbl_4169.p1, terminal, 179926, 180835
Valid prediction for GeneMark_model.41918_t
Valid prediction for snap_scaffold_10-snap.203-T1
Valid prediction for GeneMark_model.41942_t
Valid prediction for snap_scaffold_10-snap.201-T1
Valid prediction for snap_scaffold_10-snap.208-T1
Valid prediction for GeneMark_model.41946_t
Couldn't classify 160645, 160671
Couldn't classify 166219, 166303
Couldn't classify 166552, 166644
Sorry, prediction pasa_asmbl_4159.p1 fails validation.
(GGC)	 GT	160645-160671	GT	CGG
(AGC)	 AG	162324-162470	GT	CGG
(AGT)	 AG	163195-163287	GT	GAG
(GAG)	 AG	164285-164370	GT	AGG
(AAG)	 AG	164611-164716	GT	AGG
(AAT)	 AG	165684-165759	GT	AGG
(ATC)	 AG	166219-166303	AT	AGA
(GTA)	 AC	166552-166644	GT	TGG
(TCT)	 AG	166969-167154	GT	AGG
(ACC)	 AG	167297-167381	GT	AGG
(ATT)	 AG	167522-167616	GT	TGG
(GGT)	 AG	167806-167884	GT	AGG
(CAC)	 AG	168106-168207	GT	AGG
(GGA)	 AG	168585-168682	GT	CTG
(GGG)	 AG	168822-168950	GT	GTG
(GCA)	 AG	169162-169312	AG	AGA
-recovered pasa_asmbl_4159.p1, terminal, 169162, 169312
-recovered pasa_asmbl_4159.p1, internal, 162324, 162470
-recovered pasa_asmbl_4159.p1, internal, 163195, 163287
-recovered pasa_asmbl_4159.p1, internal, 164285, 164370
-recovered pasa_asmbl_4159.p1, internal, 164611, 164716
-recovered pasa_asmbl_4159.p1, internal, 165684, 165759
-recovered pasa_asmbl_4159.p1, internal, 166969, 167154
-recovered pasa_asmbl_4159.p1, internal, 167297, 167381
-recovered pasa_asmbl_4159.p1, internal, 167522, 167616
-recovered pasa_asmbl_4159.p1, internal, 167806, 167884
-recovered pasa_asmbl_4159.p1, internal, 168106, 168207
-recovered pasa_asmbl_4159.p1, internal, 168585, 168682
-recovered pasa_asmbl_4159.p1, internal, 168822, 168950
Valid prediction for GeneMark_model.41947_t
Valid prediction for Augustus_model.g16482.t1
Valid prediction for snap_scaffold_10-snap.178-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_10-snap.198-T1
Valid prediction for GeneMark_model.41935_t
Valid prediction for GeneMark_model.41930_t
Valid prediction for CodingQuarry_transcript_5262-T1
Valid prediction for CodingQuarry_transcript_5261-T1
Valid prediction for snap_scaffold_10-snap.197-T1
Valid prediction for GlimmerHMM_glimmerT_24582-T1
Valid prediction for GeneMark_model.41923_t
Valid prediction for pasa_asmbl_4153.p1
Valid prediction for GeneMark_model.41937_t
Valid prediction for GlimmerHMM_glimmerT_24567-T1
Valid prediction for snap_scaffold_10-snap.192-T1
Valid prediction for GeneMark_model.41948_t
Valid prediction for snap_scaffold_10-snap.213-T1
Valid prediction for HiQ_model.g16488.t1
Valid prediction for snap_scaffold_10-snap.209-T1
Valid prediction for GeneMark_model.41944_t
Valid prediction for GeneMark_model.41939_t
Valid prediction for GlimmerHMM_glimmerT_24566-T1
Valid prediction for GeneMark_model.41909_t
Valid prediction for CodingQuarry_transcript_5257-T1
Valid prediction for snap_scaffold_10-snap.217-T1
Valid prediction for CodingQuarry_transcript_5256-T1
Valid prediction for snap_scaffold_10-snap.215-T1
Valid prediction for snap_scaffold_10-snap.180-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 Augustus_model.g16473.t1
Valid prediction for GeneMark_model.41921_t
Valid prediction for GlimmerHMM_glimmerT_24559-T1
Valid prediction for GlimmerHMM_glimmerT_24583-T1
Valid prediction for GeneMark_model.41914_t
Valid prediction for HiQ_model.g16484.t1
Valid prediction for GeneMark_model.41911_t
Valid prediction for GeneMark_model.41922_t
Valid prediction for GlimmerHMM_glimmerT_24558-T1
Valid prediction for GeneMark_model.41934_t
Valid prediction for Augustus_model.g16480.t1
Valid prediction for snap_scaffold_10-snap.186-T1
Valid prediction for GlimmerHMM_glimmerT_24578-T1
Valid prediction for snap_scaffold_10-snap.190-T1
Valid prediction for snap_scaffold_10-snap.205-T1
Valid prediction for snap_scaffold_10-snap.218-T1
Valid prediction for GeneMark_model.41943_t
Valid prediction for snap_scaffold_10-snap.210-T1
Valid prediction for GeneMark_model.41927_t
Valid prediction for GlimmerHMM_glimmerT_24562-T1
Valid prediction for snap_scaffold_10-snap.214-T1
Valid prediction for HiQ_model.g16485.t1
Valid prediction for Augustus_model.g16470.t1
Valid prediction for HiQ_model.g16467.t1
Valid prediction for Augustus_model.g16481.t1
Valid prediction for GeneMark_model.41938_t
Valid prediction for GeneMark_model.41924_t
Valid prediction for GeneMark_model.41912_t
Valid prediction for snap_scaffold_10-snap.182-T1
Valid prediction for GeneMark_model.41916_t
Valid prediction for snap_scaffold_10-snap.212-T1
Valid prediction for pasa_asmbl_2921.p1
Valid prediction for Augustus_model.g16472.t1
Valid prediction for CodingQuarry_transcript_5254-T1
Valid prediction for Augustus_model.g16475.t1
Valid prediction for snap_scaffold_10-snap.207-T1
Valid prediction for Augustus_model.g16471.t1
Valid prediction for CodingQuarry_transcript_5253-T1
Valid prediction for CodingQuarry_transcript_5258-T1
Valid prediction for GeneMark_model.41941_t
Couldn't classify 172714, 172879
Sorry, prediction pasa_asmbl_2925.p1 fails validation.
(TGT)	 AC	172714-172879	GT	TGG
(AGT)	 AG	173904-174038	GT	CCG
(CCA)	 AG	175222-175445	TT	GAT
-recovered pasa_asmbl_2925.p1, terminal, 175222, 175445
-recovered pasa_asmbl_2925.p1, internal, 173904, 174038
Valid prediction for GlimmerHMM_glimmerT_24572-T1
Valid prediction for snap_scaffold_10-snap.189-T1
Valid prediction for GlimmerHMM_glimmerT_24570-T1
Valid prediction for snap_scaffold_10-snap.211-T1
Valid prediction for GeneMark_model.41917_t
Valid prediction for GeneMark_model.41907_t
Couldn't classify 35333, 35689
Sorry, prediction pasa_asmbl_2932.p1 fails validation.
(TGC)	 AC	35333-35689	GT	AGG
(GTG)	 AG	35770-35909	GT	AGG
(GAA)	 AG	36112-36247	GA	AAG
-recovered pasa_asmbl_2932.p1, terminal, 36112, 36247
-recovered pasa_asmbl_2932.p1, internal, 35770, 35909
Valid prediction for pasa_asmbl_2919.p1
Valid prediction for snap_scaffold_10-snap.199-T1
Couldn't classify 10081, 10929
Sorry, prediction pasa_asmbl_2934.p1 fails validation.
(CGC)	 CA	10081-10929	AA	AGA
Valid prediction for GlimmerHMM_glimmerT_24577-T1
Valid prediction for snap_scaffold_10-snap.202-T1
Valid prediction for Augustus_model.g16474.t1
Valid prediction for GeneMark_model.41945_t
Valid prediction for HiQ_model.g16466.t1
Couldn't classify 169468, 169555
Couldn't classify 169776, 169990
Sorry, prediction pasa_asmbl_4116.p1 fails validation.
(GTG)	 CA	169468-169555	GT	AGG
(ACT)	 AG	169776-169990	AG	AGA
Valid prediction for snap_scaffold_10-snap.196-T1
Valid prediction for snap_scaffold_10-snap.200-T1
Valid prediction for snap_scaffold_10-snap.184-T1
Valid prediction for snap_scaffold_10-snap.194-T1
Valid prediction for snap_scaffold_10-snap.185-T1
Valid prediction for CodingQuarry_transcript_5260-T1
Valid prediction for GeneMark_model.41932_t
Valid prediction for snap_scaffold_10-snap.220-T1
Valid prediction for pasa_asmbl_2929.p1
Valid prediction for snap_scaffold_10-snap.206-T1
Valid prediction for CodingQuarry_transcript_5259-T1
Valid prediction for GeneMark_model.41908_t
Valid prediction for Augustus_model.g16489.t1
Valid prediction for Augustus_model.g16477.t1
Valid prediction for GeneMark_model.41929_t
Valid prediction for snap_scaffold_10-snap.177-T1
Valid prediction for GeneMark_model.41919_t
Valid prediction for snap_scaffold_10-snap.176-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 51876, rend_intergenic: 35483  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54516, rend_intergenic: 52259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65497, rend_intergenic: 58883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75072, rend_intergenic: 71236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89428, rend_intergenic: 86085  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101793, rend_intergenic: 94947  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125091, rend_intergenic: 115152  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131830, rend_intergenic: 128171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138245, rend_intergenic: 132901  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153041, rend_intergenic: 144777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169312, rend_intergenic: 161098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 210927
-exon list size: 688


building trellis

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81.3    
81.4    
81.6    
81.7    
81.9    
82.0    
82.2    
82.3    
82.5    
82.6    
82.8    
82.9    
83.0    
83.2    
83.3    
83.5    
83.6    
83.8    
83.9    
84.1    
84.2    
84.3    
84.5    
84.6    
84.8    
84.9    
85.1    
85.2    
85.4    
85.5    
85.7    
85.8    
85.9    
86.1    
86.2    
86.4    
86.5    
86.7    
86.8    
87.0    
87.1    
87.2    
87.4    
87.5    
87.7    
87.8    
88.0    
88.1    
88.3    
88.4    
88.6    
88.7    
88.8    
89.0    
89.1    
89.3    
89.4    
89.6    
89.7    
89.9    
90.0    
90.1    
90.3    
90.4    
90.6    
90.7    
90.9    
91.0    
91.2    
91.3    
91.4    
91.6    
91.7    
91.9    
92.0    
92.2    
92.3    
92.5    
92.6    
92.8    
92.9    
93.0    
93.2    
93.3    
93.5    
93.6    
93.8    
93.9    
94.1    
94.2    
94.3    
94.5    
94.6    
94.8    
94.9    
95.1    
95.2    
95.4    
95.5    
95.7    
95.8    
95.9    
96.1    
96.2    
96.4    
96.5    
96.7    
96.8    
97.0    
97.1    
97.2    
97.4    
97.5    
97.7    
97.8    
98.0    
98.1    
98.3    
98.4    
98.6    
98.7    
98.8    
99.0    
99.1    
99.3    
99.4    
99.6    
99.7    
99.9    
-found 44 predictions from path traversal
Error with prediction: snap lend_intergenic: 51876, rend_intergenic: 35483  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54516, rend_intergenic: 52259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65497, rend_intergenic: 58883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75072, rend_intergenic: 71236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89428, rend_intergenic: 86085  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101793, rend_intergenic: 94947  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125091, rend_intergenic: 115152  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131830, rend_intergenic: 128171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138245, rend_intergenic: 132901  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153041, rend_intergenic: 144777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169312, rend_intergenic: 161098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support