-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_16157194-16343388

-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_21532-T1
Valid prediction for snap_scaffold_8-snap.2963-T1
Valid prediction for GeneMark_model.36747_t
Valid prediction for GlimmerHMM_glimmerT_21534-T1
Valid prediction for GlimmerHMM_glimmerT_21533-T1
Valid prediction for Augustus_model.g14410.t1
Valid prediction for GeneMark_model.36751_t
Valid prediction for GeneMark_model.36755_t
Valid prediction for GeneMark_model.36725_t
Valid prediction for GlimmerHMM_glimmerT_21541-T1
Valid prediction for pasa_asmbl_52432.p1
Valid prediction for pasa_asmbl_52429.p1
Valid prediction for GeneMark_model.36758_t
Valid prediction for snap_scaffold_8-snap.2990-T1
Couldn't classify 110743, 110862
Sorry, prediction pasa_asmbl_52435.p1 fails validation.
(TTG)	 CC	110743-110862	GT	AGG
(GAC)	 AG	110996-111181	GT	AGG
(GAG)	 AG	111291-111378	GT	AGG
(GCG)	 AG	111494-111642	GT	TGG
(TAT)	 AG	111755-111871	GT	AGG
(GCT)	 AG	112027-112172	GT	CGG
(GTA)	 AG	112276-112347	GT	AGG
(GCA)	 AG	112571-112706	GT	AGG
(GAG)	 AG	112981-113121	GT	GGG
(CGT)	 AG	113492-113646	GT	AGG
(ACC)	 AG	113755-113851	GT	AGG
(GCC)	 AG	113965-114074	GT	AGG
(GAA)	 AG	114165-114573	TG	GAT
-recovered pasa_asmbl_52435.p1, terminal, 111291, 111378
-recovered pasa_asmbl_52435.p1, terminal, 114165, 114573
-recovered pasa_asmbl_52435.p1, internal, 110996, 111181
-recovered pasa_asmbl_52435.p1, internal, 111291, 111378
-recovered pasa_asmbl_52435.p1, internal, 111494, 111642
-recovered pasa_asmbl_52435.p1, internal, 111755, 111871
-recovered pasa_asmbl_52435.p1, internal, 112027, 112172
-recovered pasa_asmbl_52435.p1, internal, 112276, 112347
-recovered pasa_asmbl_52435.p1, internal, 112571, 112706
-recovered pasa_asmbl_52435.p1, internal, 112981, 113121
-recovered pasa_asmbl_52435.p1, internal, 113492, 113646
-recovered pasa_asmbl_52435.p1, internal, 113755, 113851
-recovered pasa_asmbl_52435.p1, internal, 113965, 114074
Valid prediction for GlimmerHMM_glimmerT_21550-T1
Valid prediction for snap_scaffold_8-snap.2992-T1
Valid prediction for GeneMark_model.36749_t
Couldn't classify 107596, 107742
Couldn't classify 108764, 108856
Sorry, prediction pasa_asmbl_52433.p1 fails validation.
(CCG)	 CA	107596-107742	GT	AGG
(GTC)	 AG	108163-108261	GT	CGG
(CTC)	 AG	108412-108651	GT	AGG
(AAC)	 AG	108764-108856	AC	CCA
-recovered pasa_asmbl_52433.p1, internal, 108163, 108261
-recovered pasa_asmbl_52433.p1, internal, 108412, 108651
Valid prediction for snap_scaffold_8-snap.2980-T1
Valid prediction for GeneMark_model.36729_t
Valid prediction for GlimmerHMM_glimmerT_21527-T1
Valid prediction for GeneMark_model.36731_t
Valid prediction for Augustus_model.g14407.t1
Valid prediction for Augustus_model.g14418.t1
Valid prediction for GeneMark_model.36743_t
Valid prediction for GlimmerHMM_glimmerT_21531-T1
Valid prediction for GeneMark_model.36726_t
Valid prediction for snap_scaffold_8-snap.2977-T1
Valid prediction for snap_scaffold_8-snap.2968-T1
Valid prediction for GlimmerHMM_glimmerT_21526-T1
Valid prediction for GlimmerHMM_glimmerT_21535-T1
Valid prediction for snap_scaffold_8-snap.2964-T1
Valid prediction for CodingQuarry_transcript_59772-T1
Valid prediction for snap_scaffold_8-snap.2971-T1
Valid prediction for HiQ_model.g14411.t1
Valid prediction for GeneMark_model.36739_t
Valid prediction for Augustus_model.g14424.t1
Valid prediction for HiQ_model.g14409.t1
Valid prediction for snap_scaffold_8-snap.2959-T1
Valid prediction for GeneMark_model.36741_t
Valid prediction for GeneMark_model.36744_t
Valid prediction for GeneMark_model.36728_t
Valid prediction for snap_scaffold_8-snap.2954-T1
Valid prediction for HiQ_model.g14416.t1
Valid prediction for CodingQuarry_transcript_59771-T1
Valid prediction for snap_scaffold_8-snap.2960-T1
Valid prediction for snap_scaffold_8-snap.2955-T1
Valid prediction for GeneMark_model.36756_t
Valid prediction for GeneMark_model.36734_t
Valid prediction for snap_scaffold_8-snap.2974-T1
Valid prediction for GlimmerHMM_glimmerT_21542-T1
Valid prediction for GlimmerHMM_glimmerT_21530-T1
Valid prediction for GeneMark_model.36746_t
Valid prediction for GeneMark_model.36723_t
Valid prediction for snap_scaffold_8-snap.2953-T1
Valid prediction for snap_scaffold_8-snap.2985-T1
Valid prediction for GeneMark_model.36730_t
Valid prediction for GlimmerHMM_glimmerT_21528-T1
Valid prediction for snap_scaffold_8-snap.2961-T1
Valid prediction for snap_scaffold_8-snap.2965-T1
Valid prediction for pasa_asmbl_52426.p1
Valid prediction for GeneMark_model.36736_t
Valid prediction for GlimmerHMM_glimmerT_21523-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_8-snap.2958-T1
Valid prediction for GeneMark_model.36748_t
Valid prediction for CodingQuarry_transcript_59773-T1
Valid prediction for GeneMark_model.36740_t
Valid prediction for GeneMark_model.36737_t
Valid prediction for snap_scaffold_8-snap.2973-T1
Valid prediction for HiQ_model.g14417.t1
Valid prediction for GeneMark_model.36733_t
Valid prediction for Augustus_model.g14414.t1
Valid prediction for GlimmerHMM_glimmerT_21545-T1
Valid prediction for snap_scaffold_8-snap.2972-T1
Valid prediction for GlimmerHMM_glimmerT_21537-T1
Valid prediction for snap_scaffold_8-snap.2981-T1
Valid prediction for snap_scaffold_8-snap.2975-T1
Valid prediction for GlimmerHMM_glimmerT_21536-T1
Valid prediction for GeneMark_model.36732_t
Valid prediction for snap_scaffold_8-snap.2951-T1
Valid prediction for snap_scaffold_8-snap.2983-T1
Valid prediction for snap_scaffold_8-snap.2970-T1
Valid prediction for snap_scaffold_8-snap.2950-T1
Valid prediction for GlimmerHMM_glimmerT_21548-T1
Valid prediction for GlimmerHMM_glimmerT_21544-T1
Valid prediction for Augustus_model.g14421.t1
Valid prediction for snap_scaffold_8-snap.2967-T1
Valid prediction for Augustus_model.g14423.t1
Valid prediction for GlimmerHMM_glimmerT_21546-T1
Valid prediction for Augustus_model.g14420.t1
Valid prediction for GeneMark_model.36757_t
Valid prediction for GeneMark_model.36745_t
Valid prediction for snap_scaffold_8-snap.2984-T1
Valid prediction for GlimmerHMM_glimmerT_21543-T1
Valid prediction for GeneMark_model.36724_t
Valid prediction for snap_scaffold_8-snap.2986-T1
Valid prediction for Augustus_model.g14415.t1
Valid prediction for CodingQuarry_transcript_59774-T1
Valid prediction for GeneMark_model.36752_t
Valid prediction for snap_scaffold_8-snap.2956-T1
Valid prediction for GeneMark_model.36727_t
Valid prediction for snap_scaffold_8-snap.2979-T1
Valid prediction for GeneMark_model.36750_t
Valid prediction for snap_scaffold_8-snap.2966-T1
Valid prediction for snap_scaffold_8-snap.2952-T1
Valid prediction for GlimmerHMM_glimmerT_21524-T1
Valid prediction for HiQ_model.g14412.t1
Valid prediction for Augustus_model.g14404.t1
Valid prediction for Augustus_model.g14413.t1
Valid prediction for GlimmerHMM_glimmerT_21547-T1
Valid prediction for GlimmerHMM_glimmerT_21521-T1
Valid prediction for snap_scaffold_8-snap.2982-T1
Couldn't classify 102548, 102723
Sorry, prediction pasa_asmbl_53383.p1 fails validation.
(AGA)	 AC	102548-102723	GT	GGG
(GTA)	 AG	103011-103142	GT	AGG
(TAA)	 AG	103260-103506	CA	AAC
-recovered pasa_asmbl_53383.p1, terminal, 103260, 103506
-recovered pasa_asmbl_53383.p1, internal, 103011, 103142
Couldn't classify 107271, 107322
Sorry, prediction pasa_asmbl_53379.p1 fails validation.
(GAG)	 AC	107271-107322	GT	AGG
(CCA)	 AG	107442-107520	GT	ACG
(AAA)	 AG	107602-107773	TC	GAT
-recovered pasa_asmbl_53379.p1, terminal, 107602, 107773
-recovered pasa_asmbl_53379.p1, internal, 107442, 107520
Valid prediction for snap_scaffold_8-snap.2989-T1
Couldn't classify 37166, 37351
Couldn't classify 40609, 40695
Sorry, prediction pasa_asmbl_53592.p1 fails validation.
(GTG)	 AG	37166-37351	GT	AGG
(GAC)	 AG	38499-38636	GT	TGG
(CTG)	 AG	40609-40695	AC	TGA
-recovered pasa_asmbl_53592.p1, internal, 37166, 37351
-recovered pasa_asmbl_53592.p1, internal, 38499, 38636
Valid prediction for snap_scaffold_8-snap.2991-T1
Valid prediction for Augustus_model.g14422.t1
Couldn't classify 97237, 97707
Sorry, prediction pasa_asmbl_53381.p1 fails validation.
(AAG)	 GG	97237-97707	GT	AGG
(GAA)	 AG	97934-98009	GT	AGG
(GCC)	 AG	98417-98543	GT	TGG
(CGC)	 AG	98640-98670	GT	AGG
(AAC)	 AG	99744-99884	GT	AGG
(GCC)	 AG	100018-100149	GT	AGG
(GAG)	 AG	100745-100898	GT	GGG
(ATG)	 AG	101049-101098	GT	AGG
(GCT)	 AG	101271-101447	GT	TAG
(TGT)	 AG	101539-101603	GT	AGG
(TGG)	 AG	102592-102723	GT	GGG
(GTA)	 AG	103011-103142	GT	AGG
(TAA)	 AG	103260-103506	CA	AAC
add_exon() Sorry, pasa_asmbl_53381.p1 101049-101098-initial-1 is invalid.
-recovered pasa_asmbl_53381.p1, initial, 101049, 101098
-recovered pasa_asmbl_53381.p1, terminal, 103260, 103506
-recovered pasa_asmbl_53381.p1, internal, 97934, 98009
-recovered pasa_asmbl_53381.p1, internal, 98417, 98543
-recovered pasa_asmbl_53381.p1, internal, 98640, 98670
-recovered pasa_asmbl_53381.p1, internal, 99744, 99884
-recovered pasa_asmbl_53381.p1, internal, 100018, 100149
-recovered pasa_asmbl_53381.p1, internal, 100745, 100898
-recovered pasa_asmbl_53381.p1, internal, 101049, 101098
-recovered pasa_asmbl_53381.p1, internal, 101271, 101447
-recovered pasa_asmbl_53381.p1, internal, 101539, 101603
-recovered pasa_asmbl_53381.p1, internal, 102592, 102723
-recovered pasa_asmbl_53381.p1, internal, 103011, 103142
Valid prediction for GeneMark_model.36738_t
Valid prediction for snap_scaffold_8-snap.2957-T1
Valid prediction for pasa_asmbl_53386.p1
Valid prediction for Augustus_model.g14405.t1
Valid prediction for snap_scaffold_8-snap.2976-T1
Valid prediction for snap_scaffold_8-snap.2969-T1
Valid prediction for Augustus_model.g14402.t1
Valid prediction for GeneMark_model.36735_t
Valid prediction for GlimmerHMM_glimmerT_21525-T1
Valid prediction for Augustus_model.g14419.t1
Valid prediction for snap_scaffold_8-snap.2962-T1
Valid prediction for GeneMark_model.36754_t
Couldn't classify 163382, 163393
Couldn't classify 165617, 165634
Sorry, prediction pasa_asmbl_53375.p1 fails validation.
(GCC)	 CA	163382-163393	GT	TGG
(GTT)	 AG	163625-163702	GT	TGG
(GAT)	 AG	164040-164153	GT	AGG
(ACT)	 AG	165059-165187	GT	AGG
(CTG)	 AG	165295-165393	GT	ATG
(GAA)	 AG	165617-165634	AT	ACA
-recovered pasa_asmbl_53375.p1, internal, 163625, 163702
-recovered pasa_asmbl_53375.p1, internal, 164040, 164153
-recovered pasa_asmbl_53375.p1, internal, 165059, 165187
-recovered pasa_asmbl_53375.p1, internal, 165295, 165393
Valid prediction for GlimmerHMM_glimmerT_21522-T1
Couldn't classify 107044, 107060
Sorry, prediction pasa_asmbl_53380.p1 fails validation.
(ATG)	 CG	105497-105581	GT	ATG
(TTT)	 AG	106045-106225	GT	AGG
(GTT)	 AG	106377-106516	GT	AGG
(AGT)	 AG	107044-107060	GC	ATG
-recovered pasa_asmbl_53380.p1, initial, 105497, 105581
-recovered pasa_asmbl_53380.p1, internal, 106045, 106225
-recovered pasa_asmbl_53380.p1, internal, 106377, 106516
-recovered pasa_asmbl_53380.p1, internal, 107044, 107060
Valid prediction for GlimmerHMM_glimmerT_21538-T1
Valid prediction for GlimmerHMM_glimmerT_21549-T1
Valid prediction for GlimmerHMM_glimmerT_21539-T1
Valid prediction for GlimmerHMM_glimmerT_21540-T1
Valid prediction for GeneMark_model.36742_t
Valid prediction for snap_scaffold_8-snap.2988-T1
Valid prediction for Augustus_model.g14403.t1
Valid prediction for snap_scaffold_8-snap.2987-T1
Valid prediction for GeneMark_model.36722_t
Valid prediction for Augustus_model.g14406.t1
Valid prediction for Augustus_model.g14408.t1
Valid prediction for GlimmerHMM_glimmerT_21529-T1
Valid prediction for snap_scaffold_8-snap.2978-T1
Sorry, intron length (4) is less than minimum required (10)

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15401, rend_intergenic: 12798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41094, rend_intergenic: 35342  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73290, rend_intergenic: 72656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91684, rend_intergenic: 89401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105365, rend_intergenic: 102339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114573, rend_intergenic: 111112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151022, rend_intergenic: 148715  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 186195
-exon list size: 642


building trellis

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71.0    
71.1    
71.3    
71.4    
71.6    
71.7    
71.9    
72.0    
72.2    
72.4    
72.5    
72.7    
72.8    
73.0    
73.1    
73.3    
73.4    
73.6    
73.8    
73.9    
74.1    
74.2    
74.4    
74.5    
74.7    
74.8    
75.0    
75.2    
75.3    
75.5    
75.6    
75.8    
75.9    
76.1    
76.2    
76.4    
76.6    
76.7    
76.9    
77.0    
77.2    
77.3    
77.5    
77.6    
77.8    
78.0    
78.1    
78.3    
78.4    
78.6    
78.7    
78.9    
79.0    
79.2    
79.3    
79.5    
79.7    
79.8    
80.0    
80.1    
80.3    
80.4    
80.6    
80.7    
80.9    
81.1    
81.2    
81.4    
81.5    
81.7    
81.8    
82.0    
82.1    
82.3    
82.5    
82.6    
82.8    
82.9    
83.1    
83.2    
83.4    
83.5    
83.7    
83.9    
84.0    
84.2    
84.3    
84.5    
84.6    
84.8    
84.9    
85.1    
85.2    
85.4    
85.6    
85.7    
85.9    
86.0    
86.2    
86.3    
86.5    
86.6    
86.8    
87.0    
87.1    
87.3    
87.4    
87.6    
87.7    
87.9    
88.0    
88.2    
88.4    
88.5    
88.7    
88.8    
89.0    
89.1    
89.3    
89.4    
89.6    
89.8    
89.9    
90.1    
90.2    
90.4    
90.5    
90.7    
90.8    
91.0    
91.1    
91.3    
91.5    
91.6    
91.8    
91.9    
92.1    
92.2    
92.4    
92.5    
92.7    
92.9    
93.0    
93.2    
93.3    
93.5    
93.6    
93.8    
93.9    
94.1    
94.3    
94.4    
94.6    
94.7    
94.9    
95.0    
95.2    
95.3    
95.5    
95.7    
95.8    
96.0    
96.1    
96.3    
96.4    
96.6    
96.7    
96.9    
97.0    
97.2    
97.4    
97.5    
97.7    
97.8    
98.0    
98.1    
98.3    
98.4    
98.6    
98.8    
98.9    
99.1    
99.2    
99.4    
99.5    
99.7    
99.8    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 15401, rend_intergenic: 12798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41094, rend_intergenic: 35342  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73290, rend_intergenic: 72656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91684, rend_intergenic: 89401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105365, rend_intergenic: 102339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114573, rend_intergenic: 111112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151022, rend_intergenic: 148715  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support