-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_2930434-3207280

-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: +)Couldn't classify 53148, 53585
Sorry, prediction pasa_asmbl_49676.p1 fails validation.
(GCA)	 TG	53148-53585	GA	AGG
Valid prediction for GlimmerHMM_glimmerT_17126-T1
Valid prediction for GlimmerHMM_glimmerT_17130-T1
Valid prediction for snap_scaffold_7-snap.712-T1
Valid prediction for GlimmerHMM_glimmerT_17116-T1
Couldn't classify 2831, 2977
Couldn't classify 4730, 4820
Sorry, prediction pasa_asmbl_49671.p1 fails validation.
(ATC)	 AC	2831-2977	GT	GGG
(CCC)	 AG	3201-3335	GT	AGG
(TTT)	 AG	4053-4195	GT	GAG
(GCT)	 AG	4730-4820	CA	ACC
-recovered pasa_asmbl_49671.p1, internal, 3201, 3335
-recovered pasa_asmbl_49671.p1, internal, 4053, 4195
Valid prediction for snap_scaffold_7-snap.753-T1
Valid prediction for snap_scaffold_7-snap.719-T1
Valid prediction for snap_scaffold_7-snap.704-T1
Valid prediction for snap_scaffold_7-snap.711-T1
Valid prediction for Augustus_model.g11412.t1
Valid prediction for snap_scaffold_7-snap.755-T1
Couldn't classify 9077, 9114
Couldn't classify 9502, 9646
Sorry, prediction pasa_asmbl_49672.p1 fails validation.
(CTG)	 TC	9077-9114	AT	TCA
(GTA)	 AC	9502-9646	GT	AGG
(GTG)	 AG	9740-9853	GT	CGG
(GGG)	 AG	10006-10088	GT	AGG
(GAA)	 AG	10429-10591	AC	AGA
-recovered pasa_asmbl_49672.p1, terminal, 10429, 10591
-recovered pasa_asmbl_49672.p1, internal, 9740, 9853
-recovered pasa_asmbl_49672.p1, internal, 10006, 10088
Valid prediction for GlimmerHMM_glimmerT_17114-T1
Valid prediction for GlimmerHMM_glimmerT_17102-T1
Valid prediction for Augustus_model.g11410.t1
Valid prediction for snap_scaffold_7-snap.706-T1
Valid prediction for snap_scaffold_7-snap.717-T1
Valid prediction for GlimmerHMM_glimmerT_17105-T1
Valid prediction for snap_scaffold_7-snap.714-T1
Valid prediction for snap_scaffold_7-snap.707-T1
Valid prediction for Augustus_model.g11408.t1
Valid prediction for GlimmerHMM_glimmerT_17110-T1
Valid prediction for Augustus_model.g11413.t1
Valid prediction for snap_scaffold_7-snap.743-T1
Valid prediction for GlimmerHMM_glimmerT_17104-T1
Valid prediction for snap_scaffold_7-snap.750-T1
Valid prediction for snap_scaffold_7-snap.727-T1
Valid prediction for GlimmerHMM_glimmerT_17099-T1
Valid prediction for GlimmerHMM_glimmerT_17112-T1
Valid prediction for snap_scaffold_7-snap.726-T1
Valid prediction for snap_scaffold_7-snap.715-T1
Valid prediction for snap_scaffold_7-snap.709-T1
Valid prediction for snap_scaffold_7-snap.721-T1
Valid prediction for GlimmerHMM_glimmerT_17101-T1
Valid prediction for GlimmerHMM_glimmerT_17123-T1
Valid prediction for snap_scaffold_7-snap.745-T1
Valid prediction for snap_scaffold_7-snap.734-T1
Valid prediction for Augustus_model.g11414.t1
Valid prediction for snap_scaffold_7-snap.723-T1
Valid prediction for snap_scaffold_7-snap.720-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_7-snap.736-T1
Valid prediction for snap_scaffold_7-snap.710-T1
Valid prediction for snap_scaffold_7-snap.724-T1
Valid prediction for CodingQuarry_transcript_57458-T1
Valid prediction for GlimmerHMM_glimmerT_17124-T1
Valid prediction for HiQ_model.g11424.t1
Valid prediction for GlimmerHMM_glimmerT_17122-T1
Valid prediction for snap_scaffold_7-snap.739-T1
Valid prediction for GlimmerHMM_glimmerT_17127-T1
Valid prediction for snap_scaffold_7-snap.748-T1
Valid prediction for pasa_asmbl_49678.p1
Valid prediction for snap_scaffold_7-snap.718-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: -)Couldn't classify 62936, 62952
Couldn't classify 65384, 65522
Sorry, prediction pasa_asmbl_50782.p1 fails validation.
(TTC)	 CG	62936-62952	GT	AGG
(TAT)	 AG	63044-63152	GT	AGG
(GTT)	 AG	63460-63594	GT	TGG
(GAA)	 AG	64226-64416	GT	AAG
(ATT)	 AG	65384-65522	CA	TGC
-recovered pasa_asmbl_50782.p1, internal, 63044, 63152
-recovered pasa_asmbl_50782.p1, internal, 63460, 63594
-recovered pasa_asmbl_50782.p1, internal, 64226, 64416
Couldn't classify 74619, 74746
Couldn't classify 78611, 78708
Sorry, prediction pasa_asmbl_50781.p1 fails validation.
(GCA)	 AA	74619-74746	GT	AGG
(TGT)	 AG	75673-75775	GT	AGG
(GTG)	 AG	75899-76118	GT	AGG
(GGT)	 AG	78611-78708	CC	TGC
-recovered pasa_asmbl_50781.p1, internal, 75673, 75775
-recovered pasa_asmbl_50781.p1, internal, 75899, 76118
Valid prediction for Augustus_model.g11409.t1
Valid prediction for GlimmerHMM_glimmerT_17121-T1
Valid prediction for GlimmerHMM_glimmerT_17117-T1
Valid prediction for snap_scaffold_7-snap.729-T1
Valid prediction for GlimmerHMM_glimmerT_17108-T1
Valid prediction for snap_scaffold_7-snap.752-T1
Valid prediction for snap_scaffold_7-snap.744-T1
Valid prediction for snap_scaffold_7-snap.737-T1
Valid prediction for GlimmerHMM_glimmerT_17106-T1
Couldn't classify 79210, 79263
Couldn't classify 87846, 88035
Sorry, prediction pasa_asmbl_50780.p1 fails validation.
(CCC)	 CA	79210-79263	GT	AGG
(CGT)	 AG	80517-80716	GT	AGG
(GTG)	 AG	80981-81107	GT	ACG
(GTG)	 AG	81757-81858	GT	AGG
(GCT)	 AG	82788-82931	GT	AGG
(ATT)	 AG	83982-84140	GT	AGG
(GAC)	 AG	84837-85003	GT	AGG
(TGT)	 AG	87846-88035	AG	GCA
-recovered pasa_asmbl_50780.p1, internal, 80517, 80716
-recovered pasa_asmbl_50780.p1, internal, 80981, 81107
-recovered pasa_asmbl_50780.p1, internal, 81757, 81858
-recovered pasa_asmbl_50780.p1, internal, 82788, 82931
-recovered pasa_asmbl_50780.p1, internal, 83982, 84140
-recovered pasa_asmbl_50780.p1, internal, 84837, 85003
Valid prediction for snap_scaffold_7-snap.738-T1
Couldn't classify 69187, 69270
Sorry, prediction pasa_asmbl_51560.p1 fails validation.
(ATG)	 AC	67560-67616	GT	AGG
(ATT)	 AG	68068-68205	GT	TGG
(GTG)	 AG	68928-69074	GT	AGG
(ACG)	 AG	69187-69270	AG	TCA
-recovered pasa_asmbl_51560.p1, initial, 67560, 67616
-recovered pasa_asmbl_51560.p1, internal, 68068, 68205
-recovered pasa_asmbl_51560.p1, internal, 68928, 69074
Valid prediction for snap_scaffold_7-snap.731-T1
Valid prediction for GlimmerHMM_glimmerT_17109-T1
Valid prediction for snap_scaffold_7-snap.754-T1
Valid prediction for snap_scaffold_7-snap.713-T1
Valid prediction for CodingQuarry_transcript_57457-T1
Valid prediction for GlimmerHMM_glimmerT_17107-T1
Valid prediction for GlimmerHMM_glimmerT_17119-T1
Valid prediction for CodingQuarry_transcript_57455-T1
Valid prediction for GlimmerHMM_glimmerT_17125-T1
Valid prediction for snap_scaffold_7-snap.756-T1
Valid prediction for GlimmerHMM_glimmerT_17113-T1
Valid prediction for snap_scaffold_7-snap.747-T1
Valid prediction for Augustus_model.g11421.t1
Valid prediction for snap_scaffold_7-snap.741-T1
Valid prediction for pasa_asmbl_50783.p1
Valid prediction for Augustus_model.g11418.t1
Valid prediction for snap_scaffold_7-snap.716-T1
Valid prediction for Augustus_model.g11420.t1
Valid prediction for snap_scaffold_7-snap.705-T1
Valid prediction for snap_scaffold_7-snap.742-T1
Valid prediction for snap_scaffold_7-snap.749-T1
Valid prediction for snap_scaffold_7-snap.740-T1
Valid prediction for GlimmerHMM_glimmerT_17115-T1
Valid prediction for GlimmerHMM_glimmerT_17103-T1
Valid prediction for snap_scaffold_7-snap.703-T1
Valid prediction for Augustus_model.g11417.t1
Valid prediction for snap_scaffold_7-snap.746-T1
Valid prediction for Augustus_model.g11411.t1
Valid prediction for GlimmerHMM_glimmerT_17111-T1
Valid prediction for snap_scaffold_7-snap.725-T1
Couldn't classify 250676, 250999
Sorry, prediction pasa_asmbl_50775.p1 fails validation.
(CTT)	 CC	250676-250999	AT	GAA
Valid prediction for pasa_asmbl_50777.p1
Valid prediction for GlimmerHMM_glimmerT_17120-T1
Valid prediction for GlimmerHMM_glimmerT_17129-T1
Valid prediction for snap_scaffold_7-snap.732-T1
Valid prediction for snap_scaffold_7-snap.733-T1
Valid prediction for snap_scaffold_7-snap.708-T1
Valid prediction for snap_scaffold_7-snap.735-T1
Valid prediction for GlimmerHMM_glimmerT_17128-T1
Valid prediction for Augustus_model.g11422.t1
Valid prediction for HiQ_model.g11423.t1
Valid prediction for GlimmerHMM_glimmerT_17100-T1
Valid prediction for snap_scaffold_7-snap.751-T1
Valid prediction for Augustus_model.g11425.t1
Valid prediction for CodingQuarry_transcript_57456-T1
Valid prediction for GlimmerHMM_glimmerT_17118-T1
Valid prediction for Augustus_model.g11419.t1
Valid prediction for snap_scaffold_7-snap.730-T1
Valid prediction for snap_scaffold_7-snap.728-T1
Valid prediction for Augustus_model.g11416.t1
Valid prediction for Augustus_model.g11415.t1
Valid prediction for snap_scaffold_7-snap.722-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9532, rend_intergenic: 2861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16494, rend_intergenic: 13880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74259, rend_intergenic: 64859  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74616, rend_intergenic: 74481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96152, rend_intergenic: 75561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100580, rend_intergenic: 96881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108597, rend_intergenic: 100583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114368, rend_intergenic: 110464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124054, rend_intergenic: 115093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159273, rend_intergenic: 124069  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167897, rend_intergenic: 163978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190546, rend_intergenic: 188823  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196421, rend_intergenic: 191772  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 209288, rend_intergenic: 204876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218504, rend_intergenic: 215353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237372, rend_intergenic: 234544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 252391, rend_intergenic: 248531  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 256545, rend_intergenic: 253860  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 267954, rend_intergenic: 257726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 272889, rend_intergenic: 268224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 128766, rend_intergenic: 128763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 276847
-exon list size: 496


building trellis

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-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 9532, rend_intergenic: 2861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16494, rend_intergenic: 13880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74259, rend_intergenic: 64859  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74616, rend_intergenic: 74481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96152, rend_intergenic: 75561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100580, rend_intergenic: 96881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108597, rend_intergenic: 100583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114368, rend_intergenic: 110464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124054, rend_intergenic: 115093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159273, rend_intergenic: 124069  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167897, rend_intergenic: 163978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190546, rend_intergenic: 188823  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196421, rend_intergenic: 191772  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 209288, rend_intergenic: 204876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218504, rend_intergenic: 215353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237372, rend_intergenic: 234544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 252391, rend_intergenic: 248531  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 256545, rend_intergenic: 253860  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 267954, rend_intergenic: 257726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 272889, rend_intergenic: 268224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 128766, rend_intergenic: 128763  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