-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_21/scaffold_21_5297019-5464273

-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 CodingQuarry_transcript_32483-T1
Valid prediction for GeneMark_model.84794_t
Valid prediction for snap_scaffold_21-snap.1081-T1
Valid prediction for snap_scaffold_21-snap.1059-T1
Valid prediction for GlimmerHMM_glimmerT_48873-T1
Valid prediction for Augustus_model.g32726.t1
Valid prediction for GeneMark_model.84817_t
Valid prediction for HiQ_model.g32731.t1
Valid prediction for snap_scaffold_21-snap.1067-T1
Valid prediction for GlimmerHMM_glimmerT_48867-T1
Valid prediction for GeneMark_model.84815_t
Valid prediction for GeneMark_model.84811_t
Valid prediction for GeneMark_model.84802_t
Valid prediction for GeneMark_model.84785_t
Valid prediction for GeneMark_model.84781_t
Valid prediction for snap_scaffold_21-snap.1057-T1
Valid prediction for snap_scaffold_21-snap.1068-T1
Valid prediction for HiQ_model.g32729.t1
Couldn't classify 79697, 80086
Sorry, prediction pasa_asmbl_28581.p1 fails validation.
(CTG)	 CA	79697-80086	CT	GAC
Valid prediction for GeneMark_model.84775_t
Valid prediction for pasa_asmbl_28591.p1
Valid prediction for snap_scaffold_21-snap.1056-T1
Valid prediction for snap_scaffold_21-snap.1075-T1
Valid prediction for GeneMark_model.84792_t
Valid prediction for GlimmerHMM_glimmerT_48869-T1
Valid prediction for CodingQuarry_transcript_32482-T1
Valid prediction for GlimmerHMM_glimmerT_48870-T1
Valid prediction for snap_scaffold_21-snap.1074-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for Augustus_model.g32730.t1
Valid prediction for pasa_asmbl_28585.p1
Valid prediction for Augustus_model.g32722.t1
Valid prediction for GlimmerHMM_glimmerT_48879-T1
Valid prediction for CodingQuarry_transcript_32481-T1
Valid prediction for GeneMark_model.84782_t
Valid prediction for GeneMark_model.84788_t
Valid prediction for GeneMark_model.84799_t
Valid prediction for Augustus_model.g32723.t1
Valid prediction for snap_scaffold_21-snap.1063-T1
Valid prediction for snap_scaffold_21-snap.1082-T1
Valid prediction for GeneMark_model.84813_t
Valid prediction for Augustus_model.g32732.t1
Valid prediction for GeneMark_model.84786_t
Valid prediction for pasa_asmbl_28582.p1
Valid prediction for GlimmerHMM_glimmerT_48882-T1
Valid prediction for HiQ_model.g32728.t1
Valid prediction for GeneMark_model.84790_t
Couldn't classify 139863, 139979
Sorry, prediction pasa_asmbl_28583.p1 fails validation.
(ACA)	 AC	139863-139979	GT	CGG
(ATA)	 AG	140119-140307	GT	AGG
(GAT)	 AG	140440-140958	AG	AGA
-recovered pasa_asmbl_28583.p1, terminal, 140440, 140958
-recovered pasa_asmbl_28583.p1, internal, 140119, 140307
Valid prediction for GeneMark_model.84798_t
Valid prediction for GeneMark_model.84777_t
Valid prediction for CodingQuarry_transcript_32484-T1
Valid prediction for GlimmerHMM_glimmerT_48880-T1
Valid prediction for GeneMark_model.84784_t
Valid prediction for GlimmerHMM_glimmerT_48875-T1
Valid prediction for snap_scaffold_21-snap.1079-T1
Valid prediction for GeneMark_model.84796_t
Valid prediction for GeneMark_model.84818_t
Valid prediction for GlimmerHMM_glimmerT_48881-T1
Valid prediction for GlimmerHMM_glimmerT_48866-T1
Valid prediction for GlimmerHMM_glimmerT_48877-T1
Valid prediction for snap_scaffold_21-snap.1078-T1
Valid prediction for snap_scaffold_21-snap.1080-T1
Valid prediction for snap_scaffold_21-snap.1062-T1
Valid prediction for snap_scaffold_21-snap.1060-T1
Valid prediction for GeneMark_model.84805_t

-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_21-snap.1058-T1
Valid prediction for GeneMark_model.84812_t
Valid prediction for GeneMark_model.84791_t
Valid prediction for snap_scaffold_21-snap.1055-T1
Valid prediction for snap_scaffold_21-snap.1064-T1
Valid prediction for GeneMark_model.84800_t
Valid prediction for GeneMark_model.84806_t
Valid prediction for snap_scaffold_21-snap.1065-T1
Valid prediction for GeneMark_model.84783_t
Valid prediction for GeneMark_model.84814_t
Valid prediction for GlimmerHMM_glimmerT_48868-T1
Valid prediction for GeneMark_model.84787_t
Valid prediction for GeneMark_model.84797_t
Valid prediction for snap_scaffold_21-snap.1066-T1
Valid prediction for GlimmerHMM_glimmerT_48876-T1
Valid prediction for snap_scaffold_21-snap.1061-T1
Valid prediction for snap_scaffold_21-snap.1073-T1
Valid prediction for GeneMark_model.84804_t
Valid prediction for GeneMark_model.84793_t
Valid prediction for Augustus_model.g32718.t1
Valid prediction for Augustus_model.g32720.t1
Valid prediction for snap_scaffold_21-snap.1070-T1
Valid prediction for GeneMark_model.84780_t
Valid prediction for GlimmerHMM_glimmerT_48878-T1
Valid prediction for GeneMark_model.84809_t
Valid prediction for GlimmerHMM_glimmerT_48865-T1
Valid prediction for snap_scaffold_21-snap.1072-T1
Valid prediction for snap_scaffold_21-snap.1071-T1
Valid prediction for GeneMark_model.84816_t
Valid prediction for GlimmerHMM_glimmerT_48872-T1
Valid prediction for HiQ_model.g32721.t1
Valid prediction for CodingQuarry_transcript_32480-T1
Valid prediction for snap_scaffold_21-snap.1077-T1
Valid prediction for Augustus_model.g32724.t1
Valid prediction for Augustus_model.g32727.t1
Valid prediction for GlimmerHMM_glimmerT_48874-T1
Valid prediction for GeneMark_model.84789_t
Valid prediction for GeneMark_model.84795_t
Valid prediction for Augustus_model.g32717.t1
Valid prediction for GeneMark_model.84807_t
Valid prediction for Augustus_model.g32719.t1
Couldn't classify 88717, 88863
Sorry, prediction pasa_asmbl_27673.p1 fails validation.
(GTG)	 CA	88717-88863	GT	AGG
(GGT)	 AG	89783-89879	GT	TGG
(GGT)	 AG	90124-90193	GT	AGG
(GCA)	 AG	90916-91033	GT	TGG
(ATC)	 AG	91266-91373	AC	AGA
-recovered pasa_asmbl_27673.p1, terminal, 91266, 91373
-recovered pasa_asmbl_27673.p1, internal, 89783, 89879
-recovered pasa_asmbl_27673.p1, internal, 90124, 90193
-recovered pasa_asmbl_27673.p1, internal, 90916, 91033
Valid prediction for GlimmerHMM_glimmerT_48871-T1
Valid prediction for GeneMark_model.84810_t
Valid prediction for GeneMark_model.84801_t
Valid prediction for snap_scaffold_21-snap.1076-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GeneMark_model.84776_t
Valid prediction for GeneMark_model.84803_t
Valid prediction for snap_scaffold_21-snap.1069-T1
Valid prediction for Augustus_model.g32725.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13757, rend_intergenic: 3518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36110, rend_intergenic: 20556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39660, rend_intergenic: 36206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47531, rend_intergenic: 39945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74443, rend_intergenic: 47565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116288, rend_intergenic: 114086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124377, rend_intergenic: 123576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 167255
-exon list size: 533


building trellis

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98.5    
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98.9    
99.1    
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99.4    
99.6    
99.8    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 13757, rend_intergenic: 3518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36110, rend_intergenic: 20556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39660, rend_intergenic: 36206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47531, rend_intergenic: 39945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74443, rend_intergenic: 47565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116288, rend_intergenic: 114086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124377, rend_intergenic: 123576  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