-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_3244241-3514679

-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_8-snap.650-T1
Valid prediction for snap_scaffold_8-snap.634-T1
Valid prediction for GlimmerHMM_glimmerT_19489-T1
Valid prediction for GlimmerHMM_glimmerT_19500-T1
Valid prediction for snap_scaffold_8-snap.628-T1
Valid prediction for snap_scaffold_8-snap.624-T1
Valid prediction for snap_scaffold_8-snap.653-T1
Valid prediction for GlimmerHMM_glimmerT_19491-T1
Valid prediction for GlimmerHMM_glimmerT_19497-T1
Valid prediction for snap_scaffold_8-snap.643-T1
Couldn't classify 209425, 209429
Couldn't classify 212108, 212272
Sorry, prediction pasa_asmbl_52766.p1 fails validation.
(GTC)	 GC	209425-209429	GT	GAG
(AGA)	 AG	209659-209797	GT	AGG
(GTC)	 AG	210844-210966	GT	ACG
(GAG)	 AG	212108-212272	GT	CCG
-recovered pasa_asmbl_52766.p1, internal, 209659, 209797
-recovered pasa_asmbl_52766.p1, internal, 210844, 210966
-recovered pasa_asmbl_52766.p1, internal, 212108, 212272
Valid prediction for Augustus_model.g12958.t1
Valid prediction for snap_scaffold_8-snap.651-T1
Valid prediction for GlimmerHMM_glimmerT_19496-T1
Valid prediction for snap_scaffold_8-snap.648-T1
Sorry, intron length (8) is less than minimum required (10)
Couldn't classify 89273, 89443
Couldn't classify 94712, 94858
Sorry, prediction pasa_asmbl_53665.p1 fails validation.
(AAA)	 AG	89273-89443	GT	AGG
(AAA)	 AG	90204-90359	GT	AGG
(AAG)	 AG	90870-91052	GT	AGG
(GAG)	 AG	91717-91836	GT	GCG
(GCC)	 AG	92665-92826	GC	AGG
(GTG)	 AG	93392-93582	GT	AGG
(GTT)	 AG	94277-94469	GT	AGG
(ACT)	 AG	94712-94858	CG	GCC
-recovered pasa_asmbl_53665.p1, internal, 89273, 89443
-recovered pasa_asmbl_53665.p1, internal, 90204, 90359
-recovered pasa_asmbl_53665.p1, internal, 90870, 91052
-recovered pasa_asmbl_53665.p1, internal, 91717, 91836
-recovered pasa_asmbl_53665.p1, internal, 92665, 92826
-recovered pasa_asmbl_53665.p1, internal, 93392, 93582
-recovered pasa_asmbl_53665.p1, internal, 94277, 94469
Valid prediction for GlimmerHMM_glimmerT_19502-T1
Valid prediction for GlimmerHMM_glimmerT_19494-T1
Valid prediction for snap_scaffold_8-snap.636-T1
Valid prediction for snap_scaffold_8-snap.662-T1
Valid prediction for Augustus_model.g12955.t1
Valid prediction for Augustus_model.g12964.t1
Valid prediction for snap_scaffold_8-snap.631-T1
Valid prediction for snap_scaffold_8-snap.627-T1
Couldn't classify 88495, 88757
Sorry, prediction pasa_asmbl_52753.p1 fails validation.
(ATG)	 AT	82809-82837	GT	GCG
(AGA)	 AG	84747-84907	GT	AGG
(CTT)	 AG	87020-87157	GC	AGG
(GTG)	 AG	88495-88757	GA	AGG
-recovered pasa_asmbl_52753.p1, initial, 82809, 82837
-recovered pasa_asmbl_52753.p1, internal, 84747, 84907
-recovered pasa_asmbl_52753.p1, internal, 87020, 87157
Valid prediction for GlimmerHMM_glimmerT_19487-T1
Couldn't classify 188781, 189827
Sorry, prediction pasa_asmbl_52761.p1 fails validation.
(GAC)	 CA	188781-189827	AC	AAA
Valid prediction for HiQ_model.g12953.t1
Valid prediction for Augustus_model.g12963.t1
Couldn't classify 232745, 233455
Sorry, prediction pasa_asmbl_52767.p1 fails validation.
(GCG)	 AG	232745-233455	CT	CCC
Valid prediction for Augustus_model.g12956.t1
Couldn't classify 238396, 238650
Sorry, prediction pasa_asmbl_52768.p1 fails validation.
(AGC)	 CC	238396-238650	GT	ACG
(CAA)	 AG	241203-241292	GT	GAG
(AAC)	 AG	241576-241800	GT	ACG
(GTG)	 AG	242180-242350	GT	AGG
(ACG)	 AG	244031-244211	GT	AGG
(AAA)	 AG	244623-244739	GT	AGG
(GGG)	 AG	245001-245255	GT	GAG
(CCA)	 AG	245462-245676	GT	CCG
(GTT)	 AG	246518-246523	TA	GAT
-recovered pasa_asmbl_52768.p1, terminal, 245001, 245255
-recovered pasa_asmbl_52768.p1, terminal, 246518, 246523
-recovered pasa_asmbl_52768.p1, internal, 241203, 241292
-recovered pasa_asmbl_52768.p1, internal, 241576, 241800
-recovered pasa_asmbl_52768.p1, internal, 242180, 242350
-recovered pasa_asmbl_52768.p1, internal, 244031, 244211
-recovered pasa_asmbl_52768.p1, internal, 244623, 244739
-recovered pasa_asmbl_52768.p1, internal, 245001, 245255
-recovered pasa_asmbl_52768.p1, internal, 245462, 245676
Valid prediction for Augustus_model.g12954.t1
Valid prediction for snap_scaffold_8-snap.656-T1
Valid prediction for snap_scaffold_8-snap.613-T1
Valid prediction for HiQ_model.g12952.t1
Valid prediction for GlimmerHMM_glimmerT_19486-T1
Valid prediction for snap_scaffold_8-snap.657-T1
Valid prediction for GlimmerHMM_glimmerT_19498-T1
Valid prediction for snap_scaffold_8-snap.626-T1
Valid prediction for Augustus_model.g12960.t1
Couldn't classify 67100, 67168
Couldn't classify 73733, 74155
Sorry, prediction pasa_asmbl_52751.p1 fails validation.
(GAG)	 CA	67100-67168	GT	AGG
(GAT)	 AG	67673-67778	GT	AGG
(CCC)	 AG	70052-70146	GT	TGG
(TCC)	 AG	70899-71010	GT	AGG
(GTG)	 AG	71464-71558	GT	AGG
(ACC)	 AG	72332-72475	GT	AGG
(GCT)	 AG	73733-74155	TA	CGT
-recovered pasa_asmbl_52751.p1, internal, 67673, 67778
-recovered pasa_asmbl_52751.p1, internal, 70052, 70146
-recovered pasa_asmbl_52751.p1, internal, 70899, 71010
-recovered pasa_asmbl_52751.p1, internal, 71464, 71558
-recovered pasa_asmbl_52751.p1, internal, 72332, 72475
Valid prediction for Augustus_model.g12962.t1
Valid prediction for snap_scaffold_8-snap.630-T1
Couldn't classify 186235, 187761
Sorry, prediction pasa_asmbl_52760.p1 fails validation.
(CAC)	 GT	186235-187761	GT	AGG
Valid prediction for snap_scaffold_8-snap.622-T1
Valid prediction for Augustus_model.g12959.t1
Valid prediction for GlimmerHMM_glimmerT_19499-T1
Valid prediction for snap_scaffold_8-snap.639-T1
Couldn't classify 191870, 192065
Couldn't classify 192891, 192984
Sorry, prediction pasa_asmbl_52763.p1 fails validation.
(TCT)	 AG	191870-192065	GT	TGG
(GTA)	 AG	192656-192779	GT	CGG
(GAA)	 AG	192891-192984	GT	AGG
-recovered pasa_asmbl_52763.p1, internal, 191870, 192065
-recovered pasa_asmbl_52763.p1, internal, 192656, 192779
-recovered pasa_asmbl_52763.p1, internal, 192891, 192984
Valid prediction for GlimmerHMM_glimmerT_19488-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.659-T1
Valid prediction for snap_scaffold_8-snap.615-T1
Couldn't classify 97307, 97492
Sorry, prediction pasa_asmbl_52758.p2 fails validation.
(TCG)	 AC	97307-97492	GT	AGG
(ACT)	 AG	97730-97889	GT	CAG
(GTC)	 AG	98928-99104	GT	GTG
(TGC)	 AG	100406-100488	CC	GAC
-recovered pasa_asmbl_52758.p2, terminal, 100406, 100488
-recovered pasa_asmbl_52758.p2, internal, 97730, 97889
-recovered pasa_asmbl_52758.p2, internal, 98928, 99104
Valid prediction for snap_scaffold_8-snap.638-T1
Valid prediction for Augustus_model.g12957.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_8-snap.623-T1
Valid prediction for snap_scaffold_8-snap.621-T1
Valid prediction for snap_scaffold_8-snap.642-T1
Valid prediction for Augustus_model.g12961.t1
Valid prediction for GlimmerHMM_glimmerT_19490-T1
Valid prediction for snap_scaffold_8-snap.633-T1
Valid prediction for Augustus_model.g12965.t1
Valid prediction for GlimmerHMM_glimmerT_19501-T1
Valid prediction for snap_scaffold_8-snap.625-T1
Valid prediction for snap_scaffold_8-snap.652-T1
Valid prediction for snap_scaffold_8-snap.637-T1
Valid prediction for GlimmerHMM_glimmerT_19485-T1
Valid prediction for snap_scaffold_8-snap.641-T1
Valid prediction for GlimmerHMM_glimmerT_19483-T1
Valid prediction for snap_scaffold_8-snap.647-T1
Valid prediction for snap_scaffold_8-snap.644-T1
Valid prediction for snap_scaffold_8-snap.658-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.660-T1
Valid prediction for snap_scaffold_8-snap.620-T1
Valid prediction for snap_scaffold_8-snap.617-T1
Valid prediction for snap_scaffold_8-snap.646-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.619-T1
Valid prediction for snap_scaffold_8-snap.629-T1
Valid prediction for snap_scaffold_8-snap.645-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_19503-T1
Valid prediction for GlimmerHMM_glimmerT_19484-T1
Valid prediction for GlimmerHMM_glimmerT_19492-T1
Valid prediction for Augustus_model.g12951.t1
Valid prediction for snap_scaffold_8-snap.640-T1
Valid prediction for snap_scaffold_8-snap.654-T1
Valid prediction for snap_scaffold_8-snap.632-T1
Valid prediction for snap_scaffold_8-snap.614-T1
Valid prediction for GlimmerHMM_glimmerT_19495-T1
Valid prediction for snap_scaffold_8-snap.649-T1
Valid prediction for snap_scaffold_8-snap.618-T1
Valid prediction for GlimmerHMM_glimmerT_19493-T1
Valid prediction for GlimmerHMM_glimmerT_19482-T1
Valid prediction for snap_scaffold_8-snap.612-T1
Valid prediction for snap_scaffold_8-snap.616-T1
Valid prediction for snap_scaffold_8-snap.635-T1
Valid prediction for snap_scaffold_8-snap.655-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 122608, rend_intergenic: 122605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7529, rend_intergenic: 2127  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14080, rend_intergenic: 9083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22036, rend_intergenic: 18341  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48518, rend_intergenic: 40313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55924, rend_intergenic: 53327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74867, rend_intergenic: 70895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95673, rend_intergenic: 85394  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100488, rend_intergenic: 97651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106820, rend_intergenic: 103027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111775, rend_intergenic: 107704  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125767, rend_intergenic: 115048  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137938, rend_intergenic: 126474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170651, rend_intergenic: 163924  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193561, rend_intergenic: 179438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226768, rend_intergenic: 193635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237371, rend_intergenic: 226848  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245148, rend_intergenic: 237785  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 255106, rend_intergenic: 250081  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 270439
-exon list size: 471


building trellis

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33.6    
33.8    
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36.8    
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38.7    
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97.9    
98.1    
98.3    
98.5    
98.7    
98.9    
99.2    
99.4    
99.6    
99.8    
-found 24 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 122608, rend_intergenic: 122605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7529, rend_intergenic: 2127  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14080, rend_intergenic: 9083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22036, rend_intergenic: 18341  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48518, rend_intergenic: 40313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55924, rend_intergenic: 53327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74867, rend_intergenic: 70895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95673, rend_intergenic: 85394  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100488, rend_intergenic: 97651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106820, rend_intergenic: 103027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111775, rend_intergenic: 107704  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125767, rend_intergenic: 115048  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137938, rend_intergenic: 126474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170651, rend_intergenic: 163924  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193561, rend_intergenic: 179438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226768, rend_intergenic: 193635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237371, rend_intergenic: 226848  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245148, rend_intergenic: 237785  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 255106, rend_intergenic: 250081  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support