-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_4034900-4221242

-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.g13373.t1
Valid prediction for GeneMark_model.34246_t
Valid prediction for HiQ_model.g13368.t1
Valid prediction for GeneMark_model.34258_t
Valid prediction for Augustus_model.g13367.t1
Valid prediction for snap_scaffold_8-snap.812-T1
Valid prediction for GeneMark_model.34277_t
Valid prediction for CodingQuarry_transcript_59475-T1
Valid prediction for snap_scaffold_8-snap.799-T1
Valid prediction for snap_scaffold_8-snap.827-T1
Valid prediction for GeneMark_model.34241_t
Valid prediction for snap_scaffold_8-snap.793-T1
Valid prediction for GeneMark_model.34276_t
Valid prediction for snap_scaffold_8-snap.811-T1
Valid prediction for GlimmerHMM_glimmerT_20001-T1
Valid prediction for GeneMark_model.34238_t
Valid prediction for GlimmerHMM_glimmerT_19997-T1
Valid prediction for GeneMark_model.34265_t
Valid prediction for GlimmerHMM_glimmerT_20002-T1
Valid prediction for snap_scaffold_8-snap.809-T1
Valid prediction for CodingQuarry_transcript_59474-T1
Valid prediction for GeneMark_model.34243_t
Valid prediction for GlimmerHMM_glimmerT_20022-T1
Valid prediction for snap_scaffold_8-snap.794-T1
Valid prediction for snap_scaffold_8-snap.806-T1
Valid prediction for Augustus_model.g13363.t1
Valid prediction for GeneMark_model.34259_t
Valid prediction for GeneMark_model.34284_t
Valid prediction for snap_scaffold_8-snap.801-T1
Valid prediction for GeneMark_model.34237_t
Couldn't classify 142550, 142672
Sorry, prediction pasa_asmbl_51800.p1 fails validation.
(ATG)	 AG	140372-140455	GT	GGG
(ATT)	 AG	141092-141168	GT	ACG
(TGC)	 AG	141295-141433	GT	AGG
(GCC)	 AG	141527-141691	GT	AGG
(AAG)	 AG	142550-142672	AC	CCA
-recovered pasa_asmbl_51800.p1, initial, 140372, 140455
-recovered pasa_asmbl_51800.p1, internal, 140372, 140455
-recovered pasa_asmbl_51800.p1, internal, 141092, 141168
-recovered pasa_asmbl_51800.p1, internal, 141295, 141433
-recovered pasa_asmbl_51800.p1, internal, 141527, 141691
Valid prediction for snap_scaffold_8-snap.831-T1
Valid prediction for snap_scaffold_8-snap.826-T1
Valid prediction for snap_scaffold_8-snap.789-T1
Valid prediction for snap_scaffold_8-snap.825-T1
Valid prediction for GeneMark_model.34267_t
Valid prediction for GeneMark_model.34263_t
Valid prediction for GlimmerHMM_glimmerT_20014-T1
Valid prediction for Augustus_model.g13364.t1
Valid prediction for GlimmerHMM_glimmerT_20008-T1
Valid prediction for GeneMark_model.34286_t
Valid prediction for GeneMark_model.34239_t
Valid prediction for pasa_asmbl_51805.p1
Valid prediction for GeneMark_model.34256_t
Valid prediction for GlimmerHMM_glimmerT_20018-T1
Valid prediction for GlimmerHMM_glimmerT_20020-T1
Valid prediction for HiQ_model.g13379.t1
Valid prediction for snap_scaffold_8-snap.823-T1
Valid prediction for GeneMark_model.34279_t
Valid prediction for Augustus_model.g13376.t1
Valid prediction for GeneMark_model.34248_t
Valid prediction for GeneMark_model.34254_t
Valid prediction for GlimmerHMM_glimmerT_19994-T1
Valid prediction for GeneMark_model.34261_t
Valid prediction for GeneMark_model.34280_t
Valid prediction for GeneMark_model.34274_t
Valid prediction for snap_scaffold_8-snap.804-T1
Valid prediction for Augustus_model.g13370.t1
Valid prediction for snap_scaffold_8-snap.807-T1
Valid prediction for snap_scaffold_8-snap.817-T1
Valid prediction for pasa_asmbl_51797.p1
Valid prediction for GeneMark_model.34270_t
Valid prediction for Augustus_model.g13365.t1
Valid prediction for GeneMark_model.34244_t
Valid prediction for GlimmerHMM_glimmerT_20010-T1
Valid prediction for GeneMark_model.34252_t
Valid prediction for snap_scaffold_8-snap.790-T1
Valid prediction for GlimmerHMM_glimmerT_20017-T1
Valid prediction for GlimmerHMM_glimmerT_20016-T1
Valid prediction for GlimmerHMM_glimmerT_20013-T1
Valid prediction for GeneMark_model.34288_t
Valid prediction for GlimmerHMM_glimmerT_19998-T1
Valid prediction for Augustus_model.g13362.t1
Valid prediction for Augustus_model.g13381.t1
Valid prediction for snap_scaffold_8-snap.822-T1
Valid prediction for snap_scaffold_8-snap.833-T1
Valid prediction for GlimmerHMM_glimmerT_20021-T1
Valid prediction for GlimmerHMM_glimmerT_19993-T1
Valid prediction for GeneMark_model.34272_t
Valid prediction for Augustus_model.g13377.t1
Valid prediction for GeneMark_model.34262_t
Valid prediction for snap_scaffold_8-snap.797-T1
Valid prediction for GeneMark_model.34249_t
Valid prediction for pasa_asmbl_51808.p1

-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 GeneMark_model.34266_t
Valid prediction for GeneMark_model.34275_t
Valid prediction for Augustus_model.g13375.t1
Valid prediction for GeneMark_model.34253_t
Valid prediction for GlimmerHMM_glimmerT_20000-T1
Valid prediction for snap_scaffold_8-snap.819-T1
Valid prediction for GlimmerHMM_glimmerT_20005-T1
Valid prediction for GeneMark_model.34245_t
Valid prediction for GeneMark_model.34268_t
Valid prediction for Augustus_model.g13378.t1
Valid prediction for snap_scaffold_8-snap.828-T1
Valid prediction for Augustus_model.g13374.t1
Valid prediction for Augustus_model.g13369.t1
Valid prediction for snap_scaffold_8-snap.787-T1
Couldn't classify 120861, 120981
Couldn't classify 122421, 122489
Sorry, prediction pasa_asmbl_52748.p1 fails validation.
(CTG)	 TG	120861-120981	GT	CGG
(GAT)	 AG	121579-121712	GT	CGG
(CAC)	 AG	122004-122162	GT	ACG
(GTG)	 AG	122421-122489	AT	AGA
-recovered pasa_asmbl_52748.p1, internal, 121579, 121712
-recovered pasa_asmbl_52748.p1, internal, 122004, 122162
Valid prediction for pasa_asmbl_52750.p1
Valid prediction for GlimmerHMM_glimmerT_19995-T1
Valid prediction for snap_scaffold_8-snap.808-T1
Valid prediction for snap_scaffold_8-snap.815-T1
Valid prediction for GlimmerHMM_glimmerT_20004-T1
Valid prediction for snap_scaffold_8-snap.798-T1
Valid prediction for GlimmerHMM_glimmerT_20012-T1
Valid prediction for snap_scaffold_8-snap.791-T1
Valid prediction for snap_scaffold_8-snap.795-T1
Valid prediction for GeneMark_model.34242_t
Valid prediction for GlimmerHMM_glimmerT_20003-T1
Valid prediction for snap_scaffold_8-snap.813-T1
Valid prediction for snap_scaffold_8-snap.810-T1
Valid prediction for snap_scaffold_8-snap.786-T1
Valid prediction for snap_scaffold_8-snap.820-T1
Valid prediction for snap_scaffold_8-snap.805-T1
Valid prediction for snap_scaffold_8-snap.824-T1
Valid prediction for snap_scaffold_8-snap.803-T1
Valid prediction for GlimmerHMM_glimmerT_20009-T1
Valid prediction for snap_scaffold_8-snap.814-T1
Valid prediction for GlimmerHMM_glimmerT_20007-T1
Valid prediction for Augustus_model.g13372.t1
Valid prediction for GeneMark_model.34278_t
Valid prediction for snap_scaffold_8-snap.818-T1
Valid prediction for GlimmerHMM_glimmerT_20015-T1
Valid prediction for GeneMark_model.34269_t
Valid prediction for snap_scaffold_8-snap.821-T1
Valid prediction for snap_scaffold_8-snap.816-T1
Valid prediction for GeneMark_model.34235_t
Valid prediction for GeneMark_model.34260_t
Valid prediction for GeneMark_model.34251_t
Valid prediction for GlimmerHMM_glimmerT_20011-T1
Valid prediction for GeneMark_model.34247_t
Valid prediction for snap_scaffold_8-snap.830-T1
Valid prediction for GeneMark_model.34282_t
Valid prediction for GeneMark_model.34287_t
Valid prediction for GlimmerHMM_glimmerT_19999-T1
Valid prediction for GeneMark_model.34257_t
Valid prediction for GeneMark_model.34240_t
Valid prediction for snap_scaffold_8-snap.829-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GeneMark_model.34236_t
Valid prediction for snap_scaffold_8-snap.802-T1
Valid prediction for snap_scaffold_8-snap.788-T1
Valid prediction for CodingQuarry_transcript_59477-T1
Valid prediction for snap_scaffold_8-snap.796-T1
Valid prediction for GeneMark_model.34285_t
Valid prediction for CodingQuarry_transcript_59476-T1
Valid prediction for GeneMark_model.34283_t
Valid prediction for snap_scaffold_8-snap.800-T1
Valid prediction for Augustus_model.g13380.t1
Valid prediction for GlimmerHMM_glimmerT_19996-T1
Valid prediction for Augustus_model.g13366.t1
Valid prediction for GeneMark_model.34271_t
Valid prediction for snap_scaffold_8-snap.792-T1
Valid prediction for GeneMark_model.34250_t
Valid prediction for Augustus_model.g13371.t1
Valid prediction for GlimmerHMM_glimmerT_20006-T1
Valid prediction for GeneMark_model.34264_t
Valid prediction for GeneMark_model.34255_t
Valid prediction for GeneMark_model.34273_t
Valid prediction for GeneMark_model.34281_t
Valid prediction for snap_scaffold_8-snap.832-T1
Valid prediction for GlimmerHMM_glimmerT_20019-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17930, rend_intergenic: 13148  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26213, rend_intergenic: 19336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36947, rend_intergenic: 27116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48865, rend_intergenic: 44206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53223, rend_intergenic: 50691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54607, rend_intergenic: 53234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56748, rend_intergenic: 55769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57982, rend_intergenic: 56765  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65598, rend_intergenic: 62465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67710, rend_intergenic: 65752  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72913, rend_intergenic: 68758  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91441, rend_intergenic: 84999  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102092, rend_intergenic: 93729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117587, rend_intergenic: 102272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126273, rend_intergenic: 125248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147957, rend_intergenic: 145162  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158271, rend_intergenic: 153643  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171570, rend_intergenic: 166394  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172260, rend_intergenic: 171988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174483, rend_intergenic: 173384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 186343
-exon list size: 801


building trellis

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76.8    
77.0    
77.1    
77.2    
77.3    
77.5    
77.6    
77.7    
77.8    
78.0    
78.1    
78.2    
78.3    
78.5    
78.6    
78.7    
78.8    
79.0    
79.1    
79.2    
79.3    
79.5    
79.6    
79.7    
79.8    
80.0    
80.1    
80.2    
80.3    
80.4    
80.6    
80.7    
80.8    
80.9    
81.1    
81.2    
81.3    
81.4    
81.6    
81.7    
81.8    
81.9    
82.1    
82.2    
82.3    
82.4    
82.6    
82.7    
82.8    
82.9    
83.1    
83.2    
83.3    
83.4    
83.6    
83.7    
83.8    
83.9    
84.1    
84.2    
84.3    
84.4    
84.6    
84.7    
84.8    
84.9    
85.1    
85.2    
85.3    
85.4    
85.6    
85.7    
85.8    
85.9    
86.1    
86.2    
86.3    
86.4    
86.6    
86.7    
86.8    
86.9    
87.0    
87.2    
87.3    
87.4    
87.5    
87.7    
87.8    
87.9    
88.0    
88.2    
88.3    
88.4    
88.5    
88.7    
88.8    
88.9    
89.0    
89.2    
89.3    
89.4    
89.5    
89.7    
89.8    
89.9    
90.0    
90.2    
90.3    
90.4    
90.5    
90.7    
90.8    
90.9    
91.0    
91.2    
91.3    
91.4    
91.5    
91.7    
91.8    
91.9    
92.0    
92.2    
92.3    
92.4    
92.5    
92.7    
92.8    
92.9    
93.0    
93.2    
93.3    
93.4    
93.5    
93.6    
93.8    
93.9    
94.0    
94.1    
94.3    
94.4    
94.5    
94.6    
94.8    
94.9    
95.0    
95.1    
95.3    
95.4    
95.5    
95.6    
95.8    
95.9    
96.0    
96.1    
96.3    
96.4    
96.5    
96.6    
96.8    
96.9    
97.0    
97.1    
97.3    
97.4    
97.5    
97.6    
97.8    
97.9    
98.0    
98.1    
98.3    
98.4    
98.5    
98.6    
98.8    
98.9    
99.0    
99.1    
99.3    
99.4    
99.5    
99.6    
99.8    
99.9    
-found 36 predictions from path traversal
Error with prediction: snap lend_intergenic: 17930, rend_intergenic: 13148  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26213, rend_intergenic: 19336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36947, rend_intergenic: 27116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48865, rend_intergenic: 44206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53223, rend_intergenic: 50691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54607, rend_intergenic: 53234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56748, rend_intergenic: 55769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57982, rend_intergenic: 56765  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65598, rend_intergenic: 62465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67710, rend_intergenic: 65752  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72913, rend_intergenic: 68758  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91441, rend_intergenic: 84999  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102092, rend_intergenic: 93729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117587, rend_intergenic: 102272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126273, rend_intergenic: 125248  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147957, rend_intergenic: 145162  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158271, rend_intergenic: 153643  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171570, rend_intergenic: 166394  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172260, rend_intergenic: 171988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174483, rend_intergenic: 173384  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support