-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_749974-917567

-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_7-snap.195-T1
Valid prediction for snap_scaffold_7-snap.208-T1
Valid prediction for GlimmerHMM_glimmerT_17192-T1
Valid prediction for Augustus_model.g11530.t1
Valid prediction for GlimmerHMM_glimmerT_17207-T1
Valid prediction for GeneMark_model.28909_t
Valid prediction for snap_scaffold_7-snap.207-T1
Valid prediction for GeneMark_model.28946_t
Valid prediction for Augustus_model.g11522.t1
Valid prediction for Augustus_model.g11523.t1
Valid prediction for GeneMark_model.28945_t
Valid prediction for GlimmerHMM_glimmerT_17203-T1
Valid prediction for snap_scaffold_7-snap.214-T1
Valid prediction for GeneMark_model.28917_t
Valid prediction for snap_scaffold_7-snap.198-T1
Valid prediction for GlimmerHMM_glimmerT_17204-T1
Valid prediction for Augustus_model.g11529.t1
Valid prediction for GlimmerHMM_glimmerT_17210-T1
Valid prediction for snap_scaffold_7-snap.204-T1
Couldn't classify 62202, 62376
Sorry, prediction pasa_asmbl_50447.p1 fails validation.
(CGC)	 TC	62202-62376	GT	TAG
(TTG)	 AG	62946-63119	GT	TGG
(ATG)	 AG	63237-63364	GT	AGG
(TGT)	 AG	63546-63698	GT	AGG
(GTG)	 AG	64471-64689	GT	AGG
(GAC)	 AG	64917-65024	GT	GAG
(GAC)	 AG	65159-65318	GT	CGG
(AGA)	 AG	65396-65514	GT	AGG
(GCG)	 AG	65957-66191	GT	TGG
(GAG)	 AG	66687-66914	GT	GGG
(GCT)	 AG	67010-67281	GT	AGG
(GTG)	 AG	67599-67700	AC	GAA
-recovered pasa_asmbl_50447.p1, initial, 63237, 63364
-recovered pasa_asmbl_50447.p1, terminal, 67599, 67700
-recovered pasa_asmbl_50447.p1, internal, 62946, 63119
-recovered pasa_asmbl_50447.p1, internal, 63237, 63364
-recovered pasa_asmbl_50447.p1, internal, 63546, 63698
-recovered pasa_asmbl_50447.p1, internal, 64471, 64689
-recovered pasa_asmbl_50447.p1, internal, 64917, 65024
-recovered pasa_asmbl_50447.p1, internal, 65159, 65318
-recovered pasa_asmbl_50447.p1, internal, 65396, 65514
-recovered pasa_asmbl_50447.p1, internal, 65957, 66191
-recovered pasa_asmbl_50447.p1, internal, 66687, 66914
-recovered pasa_asmbl_50447.p1, internal, 67010, 67281
Valid prediction for snap_scaffold_7-snap.189-T1
Valid prediction for GeneMark_model.28921_t
Valid prediction for snap_scaffold_7-snap.218-T1
Valid prediction for GeneMark_model.28943_t
Valid prediction for snap_scaffold_7-snap.215-T1
Valid prediction for pasa_asmbl_50449.p1
Valid prediction for snap_scaffold_7-snap.219-T1
Valid prediction for GeneMark_model.28923_t
Valid prediction for GlimmerHMM_glimmerT_17189-T1
Valid prediction for snap_scaffold_7-snap.188-T1
Valid prediction for GeneMark_model.28910_t
Valid prediction for snap_scaffold_7-snap.210-T1
Valid prediction for Augustus_model.g11527.t1
Valid prediction for Augustus_model.g11537.t1
Valid prediction for GlimmerHMM_glimmerT_17191-T1
Valid prediction for Augustus_model.g11539.t1
Valid prediction for GlimmerHMM_glimmerT_17200-T1
Valid prediction for GeneMark_model.28930_t
Valid prediction for CodingQuarry_transcript_57273-T1
Valid prediction for HiQ_model.g11524.t1
Valid prediction for GeneMark_model.28924_t
Valid prediction for snap_scaffold_7-snap.206-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_17193-T1
Valid prediction for Augustus_model.g11533.t1
Valid prediction for HiQ_model.g11536.t1
Valid prediction for snap_scaffold_7-snap.197-T1
Valid prediction for GeneMark_model.28926_t
Valid prediction for snap_scaffold_7-snap.211-T1
Valid prediction for GlimmerHMM_glimmerT_17208-T1
Valid prediction for Augustus_model.g11531.t1
Valid prediction for pasa_asmbl_50443.p1
Valid prediction for GlimmerHMM_glimmerT_17211-T1
Valid prediction for GlimmerHMM_glimmerT_17197-T1
Valid prediction for GlimmerHMM_glimmerT_17198-T1
Valid prediction for snap_scaffold_7-snap.203-T1
Valid prediction for GlimmerHMM_glimmerT_17201-T1
Valid prediction for GeneMark_model.28914_t
Valid prediction for GeneMark_model.28916_t
Valid prediction for GeneMark_model.28941_t
Valid prediction for snap_scaffold_7-snap.192-T1
Couldn't classify 150289, 150363
Couldn't classify 152545, 152601
Sorry, prediction pasa_asmbl_50451.p1 fails validation.
(ATC)	 AC	150289-150363	GT	AGG
(GAG)	 AG	151811-151856	GT	AGG
(AGA)	 AG	151968-152058	GT	AGG
(GTT)	 AG	152271-152412	GT	AGG
(AGG)	 AG	152545-152601	GA	GCG
-recovered pasa_asmbl_50451.p1, internal, 151811, 151856
-recovered pasa_asmbl_50451.p1, internal, 151968, 152058
-recovered pasa_asmbl_50451.p1, internal, 152271, 152412
Valid prediction for GeneMark_model.28919_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 Augustus_model.g11535.t1
Valid prediction for snap_scaffold_7-snap.190-T1
Valid prediction for GlimmerHMM_glimmerT_17206-T1
Valid prediction for snap_scaffold_7-snap.193-T1
Valid prediction for GlimmerHMM_glimmerT_17209-T1
Valid prediction for GeneMark_model.28928_t
Valid prediction for snap_scaffold_7-snap.191-T1
Valid prediction for GeneMark_model.28939_t
Valid prediction for Augustus_model.g11521.t1
Valid prediction for GlimmerHMM_glimmerT_17196-T1
Valid prediction for GeneMark_model.28947_t
Valid prediction for snap_scaffold_7-snap.213-T1
Valid prediction for GlimmerHMM_glimmerT_17194-T1
Valid prediction for GeneMark_model.28912_t
Valid prediction for GeneMark_model.28922_t
Valid prediction for GlimmerHMM_glimmerT_17190-T1
Valid prediction for GlimmerHMM_glimmerT_17205-T1
Valid prediction for snap_scaffold_7-snap.216-T1
Valid prediction for snap_scaffold_7-snap.202-T1
Valid prediction for GeneMark_model.28925_t
Valid prediction for GlimmerHMM_glimmerT_17195-T1
Valid prediction for snap_scaffold_7-snap.217-T1
Valid prediction for GeneMark_model.28944_t
Valid prediction for Augustus_model.g11526.t1
Valid prediction for snap_scaffold_7-snap.201-T1
Valid prediction for Augustus_model.g11534.t1
Valid prediction for GlimmerHMM_glimmerT_17212-T1
Valid prediction for GeneMark_model.28931_t
Valid prediction for GeneMark_model.28908_t
Valid prediction for snap_scaffold_7-snap.200-T1
Valid prediction for GeneMark_model.28913_t
Valid prediction for GeneMark_model.28942_t
Valid prediction for GeneMark_model.28911_t
Valid prediction for GeneMark_model.28915_t
Valid prediction for GeneMark_model.28927_t
Valid prediction for GeneMark_model.28940_t
Valid prediction for GeneMark_model.28918_t
Valid prediction for snap_scaffold_7-snap.199-T1
Valid prediction for snap_scaffold_7-snap.205-T1
Valid prediction for Augustus_model.g11538.t1
Valid prediction for GlimmerHMM_glimmerT_17202-T1
Valid prediction for Augustus_model.g11528.t1
Valid prediction for snap_scaffold_7-snap.194-T1
Valid prediction for GlimmerHMM_glimmerT_17188-T1
Valid prediction for GeneMark_model.28920_t
Valid prediction for snap_scaffold_7-snap.209-T1
Valid prediction for snap_scaffold_7-snap.212-T1
Valid prediction for snap_scaffold_7-snap.196-T1
Valid prediction for Augustus_model.g11525.t1
Valid prediction for GlimmerHMM_glimmerT_17199-T1
Valid prediction for GeneMark_model.28936_t
Valid prediction for Augustus_model.g11532.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19789, rend_intergenic: 9425  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38669, rend_intergenic: 23556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45500, rend_intergenic: 40359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49533, rend_intergenic: 45647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68627, rend_intergenic: 56936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154685, rend_intergenic: 146094  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 167594
-exon list size: 532


building trellis

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88.4    
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93.8    
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98.1    
98.3    
98.5    
98.7    
98.9    
99.1    
99.3    
99.4    
99.6    
99.8    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 19789, rend_intergenic: 9425  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38669, rend_intergenic: 23556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45500, rend_intergenic: 40359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49533, rend_intergenic: 45647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68627, rend_intergenic: 56936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154685, rend_intergenic: 146094  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support