-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_15354907-15538256

-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 Augustus_model.g14339.t1
Valid prediction for GlimmerHMM_glimmerT_21410-T1
Valid prediction for GeneMark_model.36571_t
Valid prediction for snap_scaffold_8-snap.2827-T1
Valid prediction for Augustus_model.g14327.t1
Valid prediction for Augustus_model.g14332.t1
Valid prediction for GlimmerHMM_glimmerT_21420-T1
Valid prediction for Augustus_model.g14333.t1
Valid prediction for GeneMark_model.36573_t
Valid prediction for GeneMark_model.36545_t
Valid prediction for snap_scaffold_8-snap.2791-T1
Valid prediction for GeneMark_model.36519_t
Valid prediction for snap_scaffold_8-snap.2787-T1
Valid prediction for snap_scaffold_8-snap.2823-T1
Valid prediction for Augustus_model.g14337.t1
Valid prediction for Augustus_model.g14340.t1
Valid prediction for snap_scaffold_8-snap.2820-T1
Valid prediction for GeneMark_model.36522_t
Valid prediction for GlimmerHMM_glimmerT_21418-T1
Valid prediction for snap_scaffold_8-snap.2812-T1
Valid prediction for Augustus_model.g14341.t1
Valid prediction for GeneMark_model.36535_t
Valid prediction for GlimmerHMM_glimmerT_21421-T1
Valid prediction for GlimmerHMM_glimmerT_21422-T1
Valid prediction for snap_scaffold_8-snap.2815-T1
Valid prediction for GeneMark_model.36547_t
Valid prediction for GeneMark_model.36526_t
Valid prediction for GeneMark_model.36568_t
Valid prediction for snap_scaffold_8-snap.2797-T1
Valid prediction for Augustus_model.g14328.t1
Valid prediction for GlimmerHMM_glimmerT_21416-T1
Valid prediction for snap_scaffold_8-snap.2798-T1
Valid prediction for snap_scaffold_8-snap.2802-T1
Valid prediction for snap_scaffold_8-snap.2799-T1
Valid prediction for Augustus_model.g14345.t1
Valid prediction for snap_scaffold_8-snap.2829-T1
Valid prediction for GeneMark_model.36564_t
Couldn't classify 54241, 54409
Couldn't classify 56550, 56759
Sorry, prediction pasa_asmbl_52399.p1 fails validation.
(CAG)	 AG	54241-54409	GT	AGG
(AGA)	 AG	54859-55058	GT	TGG
(GGT)	 AG	55349-55537	GT	AGG
(GTG)	 AG	55622-55739	GT	AGG
(GAC)	 AG	56040-56134	GT	AGG
(GAG)	 AG	56550-56759	GA	CCG
-recovered pasa_asmbl_52399.p1, internal, 54241, 54409
-recovered pasa_asmbl_52399.p1, internal, 54859, 55058
-recovered pasa_asmbl_52399.p1, internal, 55349, 55537
-recovered pasa_asmbl_52399.p1, internal, 55622, 55739
-recovered pasa_asmbl_52399.p1, internal, 56040, 56134
Valid prediction for GeneMark_model.36540_t
Couldn't classify 52185, 52223
Couldn't classify 54244, 54258
Sorry, prediction pasa_asmbl_52398.p1 fails validation.
(CCT)	 GG	52185-52223	GT	ATG
(GTG)	 AG	53268-53348	GT	AGG
(GAC)	 AG	53470-53619	GT	CGG
(GAG)	 AG	53836-53937	GT	AGG
(CAA)	 AG	54244-54258	GT	AGG
-recovered pasa_asmbl_52398.p1, internal, 53268, 53348
-recovered pasa_asmbl_52398.p1, internal, 53470, 53619
-recovered pasa_asmbl_52398.p1, internal, 53836, 53937
-recovered pasa_asmbl_52398.p1, internal, 54244, 54258
Valid prediction for GeneMark_model.36555_t
Valid prediction for snap_scaffold_8-snap.2793-T1
Valid prediction for GeneMark_model.36532_t
Couldn't classify 45398, 45715
Sorry, prediction pasa_asmbl_52397.p1 fails validation.
(AGG)	 AC	45398-45715	GG	GAG
Valid prediction for snap_scaffold_8-snap.2821-T1
Valid prediction for snap_scaffold_8-snap.2789-T1
Valid prediction for snap_scaffold_8-snap.2809-T1
Valid prediction for snap_scaffold_8-snap.2813-T1
Valid prediction for GeneMark_model.36530_t
Valid prediction for GeneMark_model.36563_t
Valid prediction for snap_scaffold_8-snap.2817-T1
Valid prediction for GeneMark_model.36557_t
Valid prediction for Augustus_model.g14342.t1
Valid prediction for GeneMark_model.36533_t
Valid prediction for GeneMark_model.36544_t
Valid prediction for GeneMark_model.36538_t
Valid prediction for GeneMark_model.36553_t
Valid prediction for GeneMark_model.36549_t
Valid prediction for Augustus_model.g14334.t1
Valid prediction for snap_scaffold_8-snap.2808-T1
Valid prediction for GeneMark_model.36566_t
Valid prediction for snap_scaffold_8-snap.2828-T1
Valid prediction for Augustus_model.g14335.t1
Valid prediction for GeneMark_model.36541_t
Valid prediction for snap_scaffold_8-snap.2805-T1
Valid prediction for Augustus_model.g14331.t1
Valid prediction for GeneMark_model.36559_t
Valid prediction for GeneMark_model.36561_t
Valid prediction for GeneMark_model.36524_t
Valid prediction for GlimmerHMM_glimmerT_21423-T1
Valid prediction for GeneMark_model.36542_t
Couldn't classify 58825, 59025
Couldn't classify 59698, 59839
Sorry, prediction pasa_asmbl_52567.p1 fails validation.
(GAG)	 AA	58825-59025	GT	AGG
(CTC)	 AG	59379-59512	GT	AGG
(CGT)	 AG	59698-59839	GG	CAG
-recovered pasa_asmbl_52567.p1, internal, 59379, 59512
Valid prediction for GlimmerHMM_glimmerT_21415-T1
Valid prediction for GlimmerHMM_glimmerT_21411-T1
Valid prediction for GeneMark_model.36551_t
Valid prediction for GeneMark_model.36520_t
Valid prediction for Augustus_model.g14343.t1
Valid prediction for snap_scaffold_8-snap.2796-T1
Valid prediction for GlimmerHMM_glimmerT_21413-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.2811-T1
Valid prediction for GeneMark_model.36527_t
Valid prediction for GeneMark_model.36562_t
Valid prediction for GeneMark_model.36531_t
Valid prediction for GeneMark_model.36548_t
Valid prediction for GeneMark_model.36565_t
Valid prediction for snap_scaffold_8-snap.2810-T1
Valid prediction for Augustus_model.g14336.t1
Valid prediction for GlimmerHMM_glimmerT_21409-T1
Valid prediction for GeneMark_model.36546_t
Valid prediction for GlimmerHMM_glimmerT_21414-T1
Valid prediction for snap_scaffold_8-snap.2804-T1
Valid prediction for Augustus_model.g14329.t1
Valid prediction for GeneMark_model.36569_t
Valid prediction for snap_scaffold_8-snap.2818-T1
Valid prediction for GeneMark_model.36534_t
Valid prediction for GeneMark_model.36570_t
Valid prediction for snap_scaffold_8-snap.2800-T1
Valid prediction for snap_scaffold_8-snap.2824-T1
Valid prediction for GlimmerHMM_glimmerT_21424-T1
Valid prediction for GeneMark_model.36523_t
Valid prediction for GeneMark_model.36539_t
Valid prediction for GeneMark_model.36518_t
Valid prediction for snap_scaffold_8-snap.2794-T1
Valid prediction for GeneMark_model.36521_t
Valid prediction for GeneMark_model.36560_t
Valid prediction for snap_scaffold_8-snap.2816-T1
Valid prediction for GeneMark_model.36550_t
Valid prediction for snap_scaffold_8-snap.2795-T1
Valid prediction for GeneMark_model.36529_t
Valid prediction for snap_scaffold_8-snap.2801-T1
Valid prediction for Augustus_model.g14330.t1
Valid prediction for snap_scaffold_8-snap.2825-T1
Valid prediction for GeneMark_model.36556_t
Valid prediction for GeneMark_model.36574_t
Valid prediction for GeneMark_model.36543_t
Valid prediction for snap_scaffold_8-snap.2806-T1
Valid prediction for Augustus_model.g14344.t1
Valid prediction for GeneMark_model.36552_t
Valid prediction for GeneMark_model.36525_t
Valid prediction for snap_scaffold_8-snap.2792-T1
Valid prediction for snap_scaffold_8-snap.2822-T1
Valid prediction for GlimmerHMM_glimmerT_21408-T1
Valid prediction for GeneMark_model.36554_t
Valid prediction for snap_scaffold_8-snap.2814-T1
Valid prediction for snap_scaffold_8-snap.2786-T1
Valid prediction for snap_scaffold_8-snap.2803-T1
Valid prediction for snap_scaffold_8-snap.2790-T1
Valid prediction for GeneMark_model.36572_t
Valid prediction for GlimmerHMM_glimmerT_21419-T1
Valid prediction for GlimmerHMM_glimmerT_21417-T1
Valid prediction for snap_scaffold_8-snap.2830-T1
Valid prediction for GeneMark_model.36537_t
Valid prediction for Augustus_model.g14338.t1
Valid prediction for GlimmerHMM_glimmerT_21412-T1
Valid prediction for GeneMark_model.36567_t
Valid prediction for snap_scaffold_8-snap.2826-T1
Valid prediction for snap_scaffold_8-snap.2788-T1
Valid prediction for GeneMark_model.36528_t
Valid prediction for snap_scaffold_8-snap.2807-T1
Valid prediction for snap_scaffold_8-snap.2819-T1
Valid prediction for GeneMark_model.36536_t
Valid prediction for GeneMark_model.36558_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8619, rend_intergenic: 4097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13618, rend_intergenic: 10469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14414, rend_intergenic: 14028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16795, rend_intergenic: 15917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41081, rend_intergenic: 30647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63015, rend_intergenic: 53101  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92974, rend_intergenic: 83865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100492, rend_intergenic: 98290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116479, rend_intergenic: 109627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122490, rend_intergenic: 117054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128470, rend_intergenic: 123792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135911, rend_intergenic: 130917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142897, rend_intergenic: 139289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154990, rend_intergenic: 152756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158735, rend_intergenic: 157855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161775, rend_intergenic: 158862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169908, rend_intergenic: 167076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181631, rend_intergenic: 175302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 183350
-exon list size: 689


building trellis

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95.9    
96.1    
96.2    
96.4    
96.5    
96.7    
96.8    
97.0    
97.1    
97.3    
97.4    
97.5    
97.7    
97.8    
98.0    
98.1    
98.3    
98.4    
98.6    
98.7    
98.8    
99.0    
99.1    
99.3    
99.4    
99.6    
99.7    
99.9    
-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 8619, rend_intergenic: 4097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13618, rend_intergenic: 10469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14414, rend_intergenic: 14028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16795, rend_intergenic: 15917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41081, rend_intergenic: 30647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63015, rend_intergenic: 53101  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92974, rend_intergenic: 83865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100492, rend_intergenic: 98290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116479, rend_intergenic: 109627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122490, rend_intergenic: 117054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128470, rend_intergenic: 123792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135911, rend_intergenic: 130917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142897, rend_intergenic: 139289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154990, rend_intergenic: 152756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158735, rend_intergenic: 157855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161775, rend_intergenic: 158862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169908, rend_intergenic: 167076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181631, rend_intergenic: 175302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support