-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_21/scaffold_21_3870782-4082590

-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_47448-T1
Valid prediction for snap_scaffold_21-snap.757-T1
Valid prediction for snap_scaffold_21-snap.739-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_21-snap.778-T1
Valid prediction for snap_scaffold_21-snap.738-T1
Valid prediction for Augustus_model.g31634.t1
Valid prediction for GlimmerHMM_glimmerT_47468-T1
Valid prediction for snap_scaffold_21-snap.774-T1
Valid prediction for GlimmerHMM_glimmerT_47464-T1
Valid prediction for GlimmerHMM_glimmerT_47446-T1
Valid prediction for GlimmerHMM_glimmerT_47440-T1
Valid prediction for snap_scaffold_21-snap.741-T1
Valid prediction for snap_scaffold_21-snap.769-T1
Valid prediction for GlimmerHMM_glimmerT_47452-T1
Valid prediction for GlimmerHMM_glimmerT_47454-T1
Valid prediction for Augustus_model.g31625.t1
Valid prediction for snap_scaffold_21-snap.764-T1
Valid prediction for pasa_asmbl_28493.p1
Valid prediction for GlimmerHMM_glimmerT_47447-T1
Valid prediction for snap_scaffold_21-snap.754-T1
Valid prediction for snap_scaffold_21-snap.753-T1
Valid prediction for HiQ_model.g31633.t1
Couldn't classify 114609, 114741
Couldn't classify 115873, 115930
Sorry, prediction pasa_asmbl_28495.p1 fails validation.
(TCC)	 GC	114609-114741	GT	GAG
(GTA)	 AG	114880-114978	GT	TGG
(CTA)	 AG	115099-115183	GT	CAG
(GCA)	 AG	115364-115487	GT	AGG
(TAC)	 AG	115616-115752	GT	AAG
(ATA)	 AG	115873-115930	AT	AGA
-recovered pasa_asmbl_28495.p1, internal, 114880, 114978
-recovered pasa_asmbl_28495.p1, internal, 115099, 115183
-recovered pasa_asmbl_28495.p1, internal, 115364, 115487
-recovered pasa_asmbl_28495.p1, internal, 115616, 115752
Valid prediction for snap_scaffold_21-snap.748-T1
Valid prediction for GlimmerHMM_glimmerT_47453-T1
Valid prediction for snap_scaffold_21-snap.759-T1
Valid prediction for GlimmerHMM_glimmerT_47457-T1
Valid prediction for GlimmerHMM_glimmerT_47455-T1
Valid prediction for snap_scaffold_21-snap.758-T1
Valid prediction for Augustus_model.g31629.t1
Valid prediction for snap_scaffold_21-snap.749-T1
Valid prediction for snap_scaffold_21-snap.742-T1
Valid prediction for GlimmerHMM_glimmerT_47461-T1
Valid prediction for snap_scaffold_21-snap.776-T1
Valid prediction for GlimmerHMM_glimmerT_47449-T1
Valid prediction for Augustus_model.g31643.t1
Valid prediction for CodingQuarry_transcript_32492-T1
Valid prediction for Augustus_model.g31617.t1
Valid prediction for GlimmerHMM_glimmerT_47466-T1
Valid prediction for snap_scaffold_21-snap.744-T1
Valid prediction for GlimmerHMM_glimmerT_47438-T1
Valid prediction for Augustus_model.g31641.t1
Valid prediction for Augustus_model.g31635.t1
Valid prediction for Augustus_model.g31637.t1
Valid prediction for GlimmerHMM_glimmerT_47463-T1
Valid prediction for Augustus_model.g31636.t1
Valid prediction for snap_scaffold_21-snap.740-T1
Valid prediction for snap_scaffold_21-snap.760-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.g31615.t1
Valid prediction for Augustus_model.g31638.t1
Valid prediction for snap_scaffold_21-snap.761-T1
Valid prediction for Augustus_model.g31618.t1
Valid prediction for snap_scaffold_21-snap.745-T1
Valid prediction for snap_scaffold_21-snap.756-T1
Valid prediction for Augustus_model.g31642.t1
Valid prediction for GlimmerHMM_glimmerT_47465-T1
Valid prediction for GlimmerHMM_glimmerT_47459-T1
Valid prediction for Augustus_model.g31626.t1
Valid prediction for Augustus_model.g31622.t1
Valid prediction for GlimmerHMM_glimmerT_47444-T1
Couldn't classify 162152, 162187
Couldn't classify 170033, 170109
Sorry, prediction pasa_asmbl_27556.p1 fails validation.
(ATT)	 CG	162152-162187	GT	ATG
(GAC)	 AG	162700-162840	GT	AGG
(GCT)	 AG	163826-163947	GT	GGG
(GAG)	 AG	165680-165848	GT	AGG
(AAG)	 AG	166754-166876	GT	AGG
(AGC)	 AG	167028-167103	GT	AGG
(ACC)	 AG	167259-167363	GT	TGG
(ATG)	 AG	170033-170109	AA	GTA
-recovered pasa_asmbl_27556.p1, internal, 162700, 162840
-recovered pasa_asmbl_27556.p1, internal, 163826, 163947
-recovered pasa_asmbl_27556.p1, internal, 165680, 165848
-recovered pasa_asmbl_27556.p1, internal, 166754, 166876
-recovered pasa_asmbl_27556.p1, internal, 167028, 167103
-recovered pasa_asmbl_27556.p1, internal, 167259, 167363
Valid prediction for Augustus_model.g31621.t1
Valid prediction for snap_scaffold_21-snap.775-T1
Valid prediction for GlimmerHMM_glimmerT_47469-T1
Valid prediction for snap_scaffold_21-snap.755-T1
Valid prediction for GlimmerHMM_glimmerT_47443-T1
Valid prediction for Augustus_model.g31639.t1
Valid prediction for Augustus_model.g31630.t1
Valid prediction for GlimmerHMM_glimmerT_47437-T1
Valid prediction for GlimmerHMM_glimmerT_47451-T1
Valid prediction for snap_scaffold_21-snap.747-T1
Valid prediction for Augustus_model.g31624.t1
Valid prediction for Augustus_model.g31628.t1
Valid prediction for HiQ_model.g31631.t1
Valid prediction for pasa_asmbl_27557.p1
Couldn't classify 208715, 208853
Sorry, prediction pasa_asmbl_28205.p1 fails validation.
(ATG)	 AC	208125-208148	GT	GGG
(ATC)	 AG	208465-208574	GT	AAG
(GCG)	 AG	208715-208853	AG	CCA
-recovered pasa_asmbl_28205.p1, initial, 208125, 208148
-recovered pasa_asmbl_28205.p1, internal, 208465, 208574
Valid prediction for GlimmerHMM_glimmerT_47458-T1
Valid prediction for GlimmerHMM_glimmerT_47445-T1
Valid prediction for Augustus_model.g31632.t1
Valid prediction for Augustus_model.g31623.t1
Valid prediction for CodingQuarry_transcript_32491-T1
Valid prediction for snap_scaffold_21-snap.743-T1
Valid prediction for GlimmerHMM_glimmerT_47441-T1
Valid prediction for GlimmerHMM_glimmerT_47462-T1
Valid prediction for snap_scaffold_21-snap.767-T1
Valid prediction for snap_scaffold_21-snap.772-T1
Valid prediction for GlimmerHMM_glimmerT_47442-T1
Valid prediction for snap_scaffold_21-snap.766-T1
Valid prediction for snap_scaffold_21-snap.751-T1
Valid prediction for Augustus_model.g31627.t1
Valid prediction for GlimmerHMM_glimmerT_47470-T1
Valid prediction for snap_scaffold_21-snap.746-T1
Valid prediction for CodingQuarry_transcript_32489-T1
Valid prediction for CodingQuarry_transcript_32490-T1
Valid prediction for GlimmerHMM_glimmerT_47450-T1
Valid prediction for snap_scaffold_21-snap.763-T1
Valid prediction for snap_scaffold_21-snap.752-T1
Valid prediction for GlimmerHMM_glimmerT_47439-T1
Valid prediction for Augustus_model.g31619.t1
Valid prediction for snap_scaffold_21-snap.777-T1
Valid prediction for Augustus_model.g31640.t1
Valid prediction for GlimmerHMM_glimmerT_47456-T1
Valid prediction for GlimmerHMM_glimmerT_47467-T1
Valid prediction for GlimmerHMM_glimmerT_47460-T1
Valid prediction for snap_scaffold_21-snap.771-T1
Valid prediction for Augustus_model.g31616.t1
Valid prediction for snap_scaffold_21-snap.750-T1
Valid prediction for snap_scaffold_21-snap.768-T1
Valid prediction for snap_scaffold_21-snap.773-T1
Valid prediction for snap_scaffold_21-snap.737-T1
Valid prediction for GlimmerHMM_glimmerT_47436-T1
Valid prediction for snap_scaffold_21-snap.770-T1
Valid prediction for snap_scaffold_21-snap.765-T1
Valid prediction for Augustus_model.g31620.t1
Valid prediction for snap_scaffold_21-snap.762-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 35440, rend_intergenic: 9389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53423, rend_intergenic: 37297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67131, rend_intergenic: 54400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72195, rend_intergenic: 67515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80883, rend_intergenic: 72319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97197, rend_intergenic: 80949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140320, rend_intergenic: 137054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159427, rend_intergenic: 140889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167399, rend_intergenic: 160384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183995, rend_intergenic: 178955  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186500, rend_intergenic: 185819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 211809
-exon list size: 492


building trellis

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40.1    
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94.9    
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96.8    
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97.2    
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97.6    
97.8    
98.0    
98.2    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 44 predictions from path traversal
Error with prediction: snap lend_intergenic: 35440, rend_intergenic: 9389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53423, rend_intergenic: 37297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67131, rend_intergenic: 54400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72195, rend_intergenic: 67515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80883, rend_intergenic: 72319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97197, rend_intergenic: 80949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140320, rend_intergenic: 137054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159427, rend_intergenic: 140889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167399, rend_intergenic: 160384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183995, rend_intergenic: 178955  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186500, rend_intergenic: 185819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support