-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_5/scaffold_5_17609262-17758877

-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_13872-T1
Valid prediction for Augustus_model.g9258.t1
Valid prediction for GeneMark_model.23260_t
Valid prediction for GlimmerHMM_glimmerT_13875-T1
Valid prediction for GeneMark_model.23251_t
Valid prediction for GlimmerHMM_glimmerT_13867-T1
Valid prediction for snap_scaffold_5-snap.3315-T1
Valid prediction for GlimmerHMM_glimmerT_13868-T1
Valid prediction for snap_scaffold_5-snap.3309-T1
Valid prediction for GlimmerHMM_glimmerT_13855-T1
Valid prediction for GlimmerHMM_glimmerT_13854-T1
Valid prediction for GeneMark_model.23247_t
Valid prediction for GeneMark_model.23230_t
Couldn't classify 1002, 1994
Sorry, prediction pasa_asmbl_44842.p1 fails validation.
(ACC)	 AC	1002-1994	TT	TGT
Valid prediction for Augustus_model.g9262.t1
Valid prediction for GeneMark_model.23255_t
Valid prediction for GeneMark_model.23234_t
Valid prediction for Augustus_model.g9257.t1
Valid prediction for snap_scaffold_5-snap.3317-T1
Valid prediction for GlimmerHMM_glimmerT_13856-T1
Valid prediction for GeneMark_model.23240_t
Valid prediction for GeneMark_model.23232_t
Valid prediction for snap_scaffold_5-snap.3324-T1
Valid prediction for Augustus_model.g9260.t1
Valid prediction for GlimmerHMM_glimmerT_13877-T1
Valid prediction for GeneMark_model.23252_t
Valid prediction for snap_scaffold_5-snap.3308-T1
Valid prediction for snap_scaffold_5-snap.3313-T1
Valid prediction for snap_scaffold_5-snap.3303-T1
Valid prediction for snap_scaffold_5-snap.3306-T1
Valid prediction for GeneMark_model.23237_t
Valid prediction for GlimmerHMM_glimmerT_13861-T1
Valid prediction for snap_scaffold_5-snap.3328-T1
Valid prediction for GlimmerHMM_glimmerT_13865-T1
Valid prediction for GeneMark_model.23245_t
Valid prediction for GeneMark_model.23253_t
Valid prediction for snap_scaffold_5-snap.3320-T1
Valid prediction for GeneMark_model.23267_t
Valid prediction for GeneMark_model.23258_t
Valid prediction for GeneMark_model.23263_t
Valid prediction for GlimmerHMM_glimmerT_13863-T1
Valid prediction for GlimmerHMM_glimmerT_13876-T1
Valid prediction for snap_scaffold_5-snap.3312-T1
Valid prediction for GeneMark_model.23244_t
Valid prediction for GlimmerHMM_glimmerT_13864-T1
Valid prediction for GeneMark_model.23243_t
Valid prediction for GeneMark_model.23228_t
Valid prediction for Augustus_model.g9256.t1
Valid prediction for snap_scaffold_5-snap.3318-T1
Valid prediction for snap_scaffold_5-snap.3322-T1
Valid prediction for GeneMark_model.23238_t
Valid prediction for GeneMark_model.23250_t
Valid prediction for GlimmerHMM_glimmerT_13857-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_5-snap.3302-T1
Valid prediction for snap_scaffold_5-snap.3314-T1
Valid prediction for HiQ_model.g9259.t1
Couldn't classify 29897, 30023
Sorry, prediction pasa_asmbl_46187.p1 fails validation.
(ATG)	 AG	28343-28430	GT	TGG
(GTG)	 AG	29121-29283	GT	AGG
(GTG)	 AG	29897-30023	GG	ACG
-recovered pasa_asmbl_46187.p1, initial, 28343, 28430
-recovered pasa_asmbl_46187.p1, internal, 28343, 28430
-recovered pasa_asmbl_46187.p1, internal, 29121, 29283
Valid prediction for Augustus_model.g9261.t1
Valid prediction for snap_scaffold_5-snap.3326-T1
Valid prediction for GeneMark_model.23266_t
Valid prediction for GeneMark_model.23246_t
Valid prediction for snap_scaffold_5-snap.3305-T1
Valid prediction for GlimmerHMM_glimmerT_13871-T1
Valid prediction for snap_scaffold_5-snap.3304-T1
Valid prediction for GeneMark_model.23257_t
Valid prediction for GeneMark_model.23241_t
Valid prediction for snap_scaffold_5-snap.3325-T1
Valid prediction for GlimmerHMM_glimmerT_13858-T1
Valid prediction for GeneMark_model.23229_t
Valid prediction for GeneMark_model.23254_t
Valid prediction for snap_scaffold_5-snap.3311-T1
Valid prediction for snap_scaffold_5-snap.3316-T1
Valid prediction for snap_scaffold_5-snap.3319-T1
Valid prediction for GeneMark_model.23262_t
Valid prediction for GlimmerHMM_glimmerT_13853-T1
Valid prediction for GlimmerHMM_glimmerT_13873-T1
Couldn't classify 38164, 38496
Sorry, prediction pasa_asmbl_46186.p1 fails validation.
(AGC)	 AA	38164-38496	GT	AGG
(CTC)	 AG	38962-39462	GC	AGG
-recovered pasa_asmbl_46186.p1, terminal, 38962, 39462
-recovered pasa_asmbl_46186.p1, internal, 38962, 39462
Valid prediction for GlimmerHMM_glimmerT_13869-T1
Valid prediction for Augustus_model.g9255.t1
Couldn't classify 139976, 141166
Sorry, prediction pasa_asmbl_46180.p1 fails validation.
(CGG)	 AA	139976-141166	GT	GAG
Valid prediction for GlimmerHMM_glimmerT_13866-T1
Valid prediction for snap_scaffold_5-snap.3301-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_5-snap.3307-T1
Valid prediction for GeneMark_model.23249_t
Valid prediction for GeneMark_model.23226_t
Valid prediction for GeneMark_model.23265_t
Valid prediction for GlimmerHMM_glimmerT_13862-T1
Valid prediction for GlimmerHMM_glimmerT_13852-T1
Valid prediction for GlimmerHMM_glimmerT_13874-T1
Valid prediction for GeneMark_model.23227_t
Valid prediction for GeneMark_model.23242_t
Valid prediction for GeneMark_model.23239_t
Valid prediction for GeneMark_model.23231_t
Valid prediction for Augustus_model.g9263.t1
Valid prediction for snap_scaffold_5-snap.3310-T1
Valid prediction for GlimmerHMM_glimmerT_13859-T1
Valid prediction for GeneMark_model.23235_t
Valid prediction for snap_scaffold_5-snap.3321-T1
Valid prediction for GeneMark_model.23233_t
Valid prediction for GeneMark_model.23264_t
Valid prediction for Augustus_model.g9264.t1
Valid prediction for snap_scaffold_5-snap.3329-T1
Valid prediction for GeneMark_model.23259_t
Valid prediction for GeneMark_model.23236_t
Valid prediction for GeneMark_model.23261_t
Valid prediction for GeneMark_model.23248_t
Valid prediction for GlimmerHMM_glimmerT_13860-T1
Valid prediction for snap_scaffold_5-snap.3327-T1
Valid prediction for GeneMark_model.23256_t
Valid prediction for snap_scaffold_5-snap.3323-T1
Valid prediction for GlimmerHMM_glimmerT_13870-T1
Couldn't classify 88920, 89027
Sorry, prediction pasa_asmbl_46182.p1 fails validation.
(ATG)	 AA	86755-86891	GT	ACG
(GTT)	 AG	87359-87509	GT	AGG
(GTG)	 AG	87596-87702	GT	AGG
(TCC)	 AG	88245-88359	GT	TGG
(GTG)	 AG	88920-89027	GT	TGG
-recovered pasa_asmbl_46182.p1, initial, 86755, 86891
-recovered pasa_asmbl_46182.p1, internal, 87359, 87509
-recovered pasa_asmbl_46182.p1, internal, 87596, 87702
-recovered pasa_asmbl_46182.p1, internal, 88245, 88359
-recovered pasa_asmbl_46182.p1, internal, 88920, 89027

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 21697, rend_intergenic: 17625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28790, rend_intergenic: 26303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30851, rend_intergenic: 29156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41760, rend_intergenic: 35112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47337, rend_intergenic: 41882  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51870, rend_intergenic: 50314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57515, rend_intergenic: 52517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 149616
-exon list size: 486


building trellis

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99.6    
99.8    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 21697, rend_intergenic: 17625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28790, rend_intergenic: 26303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30851, rend_intergenic: 29156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41760, rend_intergenic: 35112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47337, rend_intergenic: 41882  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51870, rend_intergenic: 50314  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57515, rend_intergenic: 52517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support