-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_4978392-5194538

-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_20158-T1
Valid prediction for snap_scaffold_8-snap.1020-T1
Valid prediction for snap_scaffold_8-snap.1032-T1
Valid prediction for GeneMark_model.34481_t
Valid prediction for GeneMark_model.34544_t
Valid prediction for GeneMark_model.34491_t
Valid prediction for snap_scaffold_8-snap.1053-T1
Valid prediction for Augustus_model.g13467.t1
Valid prediction for GeneMark_model.34504_t
Valid prediction for snap_scaffold_8-snap.1042-T1
Valid prediction for GeneMark_model.34533_t
Valid prediction for GeneMark_model.34508_t
Valid prediction for GeneMark_model.34489_t
Valid prediction for GlimmerHMM_glimmerT_20140-T1
Valid prediction for Augustus_model.g13455.t1
Valid prediction for GeneMark_model.34527_t
Valid prediction for Augustus_model.g13464.t1
Valid prediction for GeneMark_model.34525_t
Valid prediction for snap_scaffold_8-snap.1012-T1
Valid prediction for GeneMark_model.34546_t
Valid prediction for GeneMark_model.34529_t
Valid prediction for snap_scaffold_8-snap.1023-T1
Valid prediction for GeneMark_model.34501_t
Valid prediction for snap_scaffold_8-snap.1056-T1
Valid prediction for snap_scaffold_8-snap.1036-T1
Valid prediction for snap_scaffold_8-snap.1013-T1
Valid prediction for GeneMark_model.34510_t
Valid prediction for Augustus_model.g13476.t1
Valid prediction for snap_scaffold_8-snap.1045-T1
Valid prediction for Augustus_model.g13472.t1
Valid prediction for snap_scaffold_8-snap.1049-T1
Valid prediction for Augustus_model.g13465.t1
Valid prediction for snap_scaffold_8-snap.1050-T1
Valid prediction for snap_scaffold_8-snap.1035-T1
Valid prediction for GeneMark_model.34485_t
Valid prediction for GeneMark_model.34521_t
Valid prediction for Augustus_model.g13468.t1
Valid prediction for GlimmerHMM_glimmerT_20167-T1
Valid prediction for GeneMark_model.34547_t
Valid prediction for snap_scaffold_8-snap.1024-T1
Valid prediction for GlimmerHMM_glimmerT_20156-T1
Valid prediction for GeneMark_model.34498_t
Valid prediction for Augustus_model.g13463.t1
Valid prediction for GlimmerHMM_glimmerT_20160-T1
Valid prediction for GeneMark_model.34515_t
Valid prediction for Augustus_model.g13471.t1
Valid prediction for GeneMark_model.34496_t
Valid prediction for snap_scaffold_8-snap.1029-T1
Valid prediction for GeneMark_model.34531_t
Valid prediction for GlimmerHMM_glimmerT_20157-T1
Valid prediction for GeneMark_model.34512_t
Valid prediction for snap_scaffold_8-snap.1039-T1
Valid prediction for GlimmerHMM_glimmerT_20138-T1
Valid prediction for snap_scaffold_8-snap.1019-T1
Valid prediction for GeneMark_model.34517_t
Valid prediction for GeneMark_model.34528_t
Valid prediction for Augustus_model.g13466.t1
Valid prediction for GlimmerHMM_glimmerT_20141-T1
Valid prediction for GeneMark_model.34483_t
Valid prediction for GeneMark_model.34519_t
Valid prediction for GlimmerHMM_glimmerT_20135-T1
Valid prediction for snap_scaffold_8-snap.1011-T1
Valid prediction for GlimmerHMM_glimmerT_20153-T1
Valid prediction for Augustus_model.g13462.t1
Valid prediction for GeneMark_model.34523_t
Valid prediction for snap_scaffold_8-snap.1015-T1
Valid prediction for GeneMark_model.34536_t
Valid prediction for snap_scaffold_8-snap.1055-T1
Valid prediction for GlimmerHMM_glimmerT_20162-T1
Valid prediction for snap_scaffold_8-snap.1048-T1
Valid prediction for snap_scaffold_8-snap.1031-T1
Valid prediction for GeneMark_model.34506_t
Valid prediction for snap_scaffold_8-snap.1054-T1
Valid prediction for GeneMark_model.34514_t
Valid prediction for GlimmerHMM_glimmerT_20166-T1
Valid prediction for GlimmerHMM_glimmerT_20152-T1
Valid prediction for GeneMark_model.34539_t
Valid prediction for Augustus_model.g13470.t1
Valid prediction for snap_scaffold_8-snap.1027-T1
Valid prediction for snap_scaffold_8-snap.1028-T1
Valid prediction for snap_scaffold_8-snap.1014-T1
Valid prediction for GlimmerHMM_glimmerT_20150-T1
Valid prediction for snap_scaffold_8-snap.1008-T1
Valid prediction for snap_scaffold_8-snap.1009-T1
Valid prediction for GlimmerHMM_glimmerT_20149-T1
Valid prediction for snap_scaffold_8-snap.1041-T1
Valid prediction for GlimmerHMM_glimmerT_20142-T1
Valid prediction for snap_scaffold_8-snap.1005-T1
Valid prediction for Augustus_model.g13469.t1
Valid prediction for GeneMark_model.34541_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.g13458.t1
Valid prediction for GeneMark_model.34486_t
Valid prediction for Augustus_model.g13474.t1
Valid prediction for GeneMark_model.34524_t
Valid prediction for GeneMark_model.34511_t
Valid prediction for GlimmerHMM_glimmerT_20147-T1
Valid prediction for snap_scaffold_8-snap.1051-T1
Valid prediction for GeneMark_model.34543_t
Valid prediction for GlimmerHMM_glimmerT_20164-T1
Valid prediction for snap_scaffold_8-snap.1017-T1
Valid prediction for GlimmerHMM_glimmerT_20136-T1
Valid prediction for snap_scaffold_8-snap.1038-T1
Valid prediction for GeneMark_model.34490_t
Valid prediction for Augustus_model.g13475.t1
Valid prediction for GeneMark_model.34499_t
Valid prediction for GeneMark_model.34537_t
Couldn't classify 23772, 23799
Couldn't classify 25342, 25460
Sorry, prediction pasa_asmbl_53624.p1 fails validation.
(ACG)	 AC	23772-23799	GT	GGG
(TGA)	 AG	24533-24760	GT	GGG
(TGC)	 AG	24992-25093	GT	GGG
(GGC)	 AG	25342-25460	AT	TCA
-recovered pasa_asmbl_53624.p1, internal, 24533, 24760
-recovered pasa_asmbl_53624.p1, internal, 24992, 25093
Valid prediction for GeneMark_model.34507_t
Valid prediction for snap_scaffold_8-snap.1010-T1
Valid prediction for GlimmerHMM_glimmerT_20165-T1
Valid prediction for GeneMark_model.34532_t
Valid prediction for snap_scaffold_8-snap.1006-T1
Valid prediction for GlimmerHMM_glimmerT_20168-T1
Valid prediction for GlimmerHMM_glimmerT_20159-T1
Valid prediction for GeneMark_model.34516_t
Valid prediction for GeneMark_model.34520_t
Valid prediction for GeneMark_model.34484_t
Valid prediction for snap_scaffold_8-snap.1043-T1
Valid prediction for GeneMark_model.34492_t
Valid prediction for GeneMark_model.34487_t
Valid prediction for snap_scaffold_8-snap.1007-T1
Valid prediction for snap_scaffold_8-snap.1022-T1
Valid prediction for GeneMark_model.34542_t
Valid prediction for Augustus_model.g13461.t1
Valid prediction for snap_scaffold_8-snap.1046-T1
Valid prediction for snap_scaffold_8-snap.1021-T1
Valid prediction for snap_scaffold_8-snap.1026-T1
Valid prediction for GlimmerHMM_glimmerT_20148-T1
Valid prediction for GeneMark_model.34503_t
Valid prediction for GeneMark_model.34535_t
Valid prediction for GeneMark_model.34545_t
Valid prediction for GlimmerHMM_glimmerT_20154-T1
Valid prediction for Augustus_model.g13459.t1
Valid prediction for GlimmerHMM_glimmerT_20143-T1
Valid prediction for GlimmerHMM_glimmerT_20144-T1
Valid prediction for GeneMark_model.34480_t
Valid prediction for snap_scaffold_8-snap.1018-T1
Valid prediction for snap_scaffold_8-snap.1044-T1
Valid prediction for GeneMark_model.34509_t
Valid prediction for GlimmerHMM_glimmerT_20155-T1
Valid prediction for GlimmerHMM_glimmerT_20161-T1
Valid prediction for snap_scaffold_8-snap.1047-T1
Valid prediction for snap_scaffold_8-snap.1037-T1
Valid prediction for snap_scaffold_8-snap.1052-T1
Valid prediction for snap_scaffold_8-snap.1030-T1
Valid prediction for GlimmerHMM_glimmerT_20145-T1
Valid prediction for GlimmerHMM_glimmerT_20151-T1
Valid prediction for GeneMark_model.34534_t
Valid prediction for GeneMark_model.34518_t
Valid prediction for GeneMark_model.34502_t
Valid prediction for Augustus_model.g13454.t1
Valid prediction for GeneMark_model.34522_t
Valid prediction for GeneMark_model.34505_t
Valid prediction for Augustus_model.g13456.t1
Valid prediction for GlimmerHMM_glimmerT_20137-T1
Valid prediction for GlimmerHMM_glimmerT_20139-T1
Valid prediction for Augustus_model.g13473.t1
Valid prediction for GeneMark_model.34497_t
Valid prediction for GeneMark_model.34530_t
Valid prediction for GeneMark_model.34538_t
Valid prediction for GlimmerHMM_glimmerT_20163-T1
Valid prediction for snap_scaffold_8-snap.1004-T1
Valid prediction for Augustus_model.g13457.t1
Valid prediction for GeneMark_model.34488_t
Valid prediction for GeneMark_model.34494_t
Valid prediction for snap_scaffold_8-snap.1034-T1
Valid prediction for snap_scaffold_8-snap.1003-T1
Valid prediction for GeneMark_model.34526_t
Valid prediction for GeneMark_model.34513_t
Valid prediction for GeneMark_model.34482_t
Valid prediction for snap_scaffold_8-snap.1033-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GeneMark_model.34500_t
Valid prediction for snap_scaffold_8-snap.1040-T1
Valid prediction for snap_scaffold_8-snap.1016-T1
Valid prediction for snap_scaffold_8-snap.1025-T1
Valid prediction for GeneMark_model.34493_t
Valid prediction for GeneMark_model.34495_t
Valid prediction for GeneMark_model.34540_t
Valid prediction for GlimmerHMM_glimmerT_20146-T1
Valid prediction for Augustus_model.g13460.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 23991, rend_intergenic: 16589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29846, rend_intergenic: 24047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36036, rend_intergenic: 30545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56487, rend_intergenic: 36097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63635, rend_intergenic: 59517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76335, rend_intergenic: 66988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81461, rend_intergenic: 78409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86524, rend_intergenic: 81464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92007, rend_intergenic: 89508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122183, rend_intergenic: 112265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130577, rend_intergenic: 122642  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134400, rend_intergenic: 131503  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144014, rend_intergenic: 135750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147076, rend_intergenic: 145157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149047, rend_intergenic: 147218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164901, rend_intergenic: 154807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169901, rend_intergenic: 168649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173917, rend_intergenic: 171880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206783, rend_intergenic: 190689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 216147
-exon list size: 877


building trellis

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69.7    
69.9    
70.0    
70.1    
70.2    
70.3    
70.4    
70.5    
70.6    
70.8    
70.9    
71.0    
71.1    
71.2    
71.3    
71.4    
71.6    
71.7    
71.8    
71.9    
72.0    
72.1    
72.2    
72.4    
72.5    
72.6    
72.7    
72.8    
72.9    
73.0    
73.2    
73.3    
73.4    
73.5    
73.6    
73.7    
73.8    
73.9    
74.1    
74.2    
74.3    
74.4    
74.5    
74.6    
74.7    
74.9    
75.0    
75.1    
75.2    
75.3    
75.4    
75.5    
75.7    
75.8    
75.9    
76.0    
76.1    
76.2    
76.3    
76.5    
76.6    
76.7    
76.8    
76.9    
77.0    
77.1    
77.2    
77.4    
77.5    
77.6    
77.7    
77.8    
77.9    
78.0    
78.2    
78.3    
78.4    
78.5    
78.6    
78.7    
78.8    
79.0    
79.1    
79.2    
79.3    
79.4    
79.5    
79.6    
79.7    
79.9    
80.0    
80.1    
80.2    
80.3    
80.4    
80.5    
80.7    
80.8    
80.9    
81.0    
81.1    
81.2    
81.3    
81.5    
81.6    
81.7    
81.8    
81.9    
82.0    
82.1    
82.3    
82.4    
82.5    
82.6    
82.7    
82.8    
82.9    
83.0    
83.2    
83.3    
83.4    
83.5    
83.6    
83.7    
83.8    
84.0    
84.1    
84.2    
84.3    
84.4    
84.5    
84.6    
84.8    
84.9    
85.0    
85.1    
85.2    
85.3    
85.4    
85.6    
85.7    
85.8    
85.9    
86.0    
86.1    
86.2    
86.3    
86.5    
86.6    
86.7    
86.8    
86.9    
87.0    
87.1    
87.3    
87.4    
87.5    
87.6    
87.7    
87.8    
87.9    
88.1    
88.2    
88.3    
88.4    
88.5    
88.6    
88.7    
88.9    
89.0    
89.1    
89.2    
89.3    
89.4    
89.5    
89.6    
89.8    
89.9    
90.0    
90.1    
90.2    
90.3    
90.4    
90.6    
90.7    
90.8    
90.9    
91.0    
91.1    
91.2    
91.4    
91.5    
91.6    
91.7    
91.8    
91.9    
92.0    
92.2    
92.3    
92.4    
92.5    
92.6    
92.7    
92.8    
92.9    
93.1    
93.2    
93.3    
93.4    
93.5    
93.6    
93.7    
93.9    
94.0    
94.1    
94.2    
94.3    
94.4    
94.5    
94.7    
94.8    
94.9    
95.0    
95.1    
95.2    
95.3    
95.4    
95.6    
95.7    
95.8    
95.9    
96.0    
96.1    
96.2    
96.4    
96.5    
96.6    
96.7    
96.8    
96.9    
97.0    
97.2    
97.3    
97.4    
97.5    
97.6    
97.7    
97.8    
98.0    
98.1    
98.2    
98.3    
98.4    
98.5    
98.6    
98.7    
98.9    
99.0    
99.1    
99.2    
99.3    
99.4    
99.5    
99.7    
99.8    
99.9    
-found 42 predictions from path traversal
Error with prediction: snap lend_intergenic: 23991, rend_intergenic: 16589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29846, rend_intergenic: 24047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36036, rend_intergenic: 30545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56487, rend_intergenic: 36097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63635, rend_intergenic: 59517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76335, rend_intergenic: 66988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81461, rend_intergenic: 78409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86524, rend_intergenic: 81464  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92007, rend_intergenic: 89508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122183, rend_intergenic: 112265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130577, rend_intergenic: 122642  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134400, rend_intergenic: 131503  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144014, rend_intergenic: 135750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147076, rend_intergenic: 145157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149047, rend_intergenic: 147218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164901, rend_intergenic: 154807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169901, rend_intergenic: 168649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173917, rend_intergenic: 171880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206783, rend_intergenic: 190689  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support