-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_16/scaffold_16_1881840-2057950

-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 GeneMark_model.66168_t
Valid prediction for GeneMark_model.66162_t
Valid prediction for GeneMark_model.66204_t
Valid prediction for GlimmerHMM_glimmerT_38688-T1
Valid prediction for GeneMark_model.66188_t
Valid prediction for snap_scaffold_16-snap.293-T1
Valid prediction for GlimmerHMM_glimmerT_38698-T1
Valid prediction for GeneMark_model.66157_t
Valid prediction for GeneMark_model.66181_t
Valid prediction for GeneMark_model.66166_t
Valid prediction for GlimmerHMM_glimmerT_38703-T1
Valid prediction for Augustus_model.g25963.t1
Valid prediction for GlimmerHMM_glimmerT_38699-T1
Valid prediction for snap_scaffold_16-snap.300-T1
Valid prediction for GeneMark_model.66171_t
Valid prediction for GeneMark_model.66194_t
Valid prediction for snap_scaffold_16-snap.308-T1
Valid prediction for snap_scaffold_16-snap.312-T1
Valid prediction for snap_scaffold_16-snap.301-T1
Valid prediction for Augustus_model.g25968.t1
Valid prediction for GeneMark_model.66202_t
Valid prediction for GlimmerHMM_glimmerT_38716-T1
Valid prediction for snap_scaffold_16-snap.325-T1
Valid prediction for snap_scaffold_16-snap.319-T1
Valid prediction for GlimmerHMM_glimmerT_38719-T1
Valid prediction for snap_scaffold_16-snap.318-T1
Valid prediction for snap_scaffold_16-snap.307-T1
Valid prediction for GlimmerHMM_glimmerT_38714-T1
Valid prediction for GeneMark_model.66159_t
Valid prediction for GeneMark_model.66207_t
Valid prediction for GlimmerHMM_glimmerT_38687-T1
Valid prediction for Augustus_model.g25974.t1
Valid prediction for snap_scaffold_16-snap.334-T1
Valid prediction for GeneMark_model.66183_t
Valid prediction for snap_scaffold_16-snap.317-T1
Valid prediction for snap_scaffold_16-snap.315-T1
Valid prediction for snap_scaffold_16-snap.302-T1
Valid prediction for snap_scaffold_16-snap.287-T1
Valid prediction for GeneMark_model.66164_t
Valid prediction for snap_scaffold_16-snap.309-T1
Valid prediction for GeneMark_model.66175_t
Valid prediction for GeneMark_model.66185_t
Valid prediction for snap_scaffold_16-snap.290-T1
Valid prediction for GeneMark_model.66192_t
Valid prediction for GeneMark_model.66182_t
Valid prediction for snap_scaffold_16-snap.298-T1
Valid prediction for snap_scaffold_16-snap.328-T1
Valid prediction for snap_scaffold_16-snap.336-T1
Valid prediction for snap_scaffold_16-snap.296-T1
Valid prediction for GeneMark_model.66179_t
Valid prediction for Augustus_model.g25977.t1
Valid prediction for GeneMark_model.66190_t
Valid prediction for GlimmerHMM_glimmerT_38715-T1
Valid prediction for snap_scaffold_16-snap.331-T1
Valid prediction for Augustus_model.g25960.t1
Valid prediction for snap_scaffold_16-snap.299-T1
Valid prediction for GeneMark_model.66155_t
Valid prediction for GeneMark_model.66169_t
Valid prediction for snap_scaffold_16-snap.321-T1
Valid prediction for snap_scaffold_16-snap.306-T1
Valid prediction for Augustus_model.g25959.t1
Valid prediction for GlimmerHMM_glimmerT_38712-T1
Valid prediction for Augustus_model.g25973.t1
Valid prediction for GlimmerHMM_glimmerT_38695-T1
Valid prediction for GeneMark_model.66186_t
Valid prediction for snap_scaffold_16-snap.335-T1
Valid prediction for snap_scaffold_16-snap.322-T1
Valid prediction for GlimmerHMM_glimmerT_38701-T1
Valid prediction for GeneMark_model.66196_t
Valid prediction for GlimmerHMM_glimmerT_38702-T1
Valid prediction for GeneMark_model.66177_t
Valid prediction for snap_scaffold_16-snap.304-T1
Valid prediction for snap_scaffold_16-snap.327-T1
Valid prediction for GeneMark_model.66199_t
Valid prediction for GeneMark_model.66200_t
Valid prediction for snap_scaffold_16-snap.311-T1
Valid prediction for GlimmerHMM_glimmerT_38692-T1
Valid prediction for GeneMark_model.66173_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 GlimmerHMM_glimmerT_38700-T1
Valid prediction for GeneMark_model.66170_t
Valid prediction for GeneMark_model.66161_t
Valid prediction for snap_scaffold_16-snap.329-T1
Valid prediction for GlimmerHMM_glimmerT_38704-T1
Valid prediction for GeneMark_model.66197_t
Valid prediction for snap_scaffold_16-snap.303-T1
Valid prediction for GlimmerHMM_glimmerT_38697-T1
Valid prediction for GlimmerHMM_glimmerT_38706-T1
Couldn't classify 68375, 68571
Couldn't classify 70202, 70288
Sorry, prediction pasa_asmbl_16746.p1 fails validation.
(GTG)	 AG	68375-68571	GT	AGG
(CTC)	 AG	69133-69214	GT	AGG
(GTT)	 AG	70202-70288	GG	TCG
-recovered pasa_asmbl_16746.p1, internal, 68375, 68571
-recovered pasa_asmbl_16746.p1, internal, 69133, 69214
Valid prediction for Augustus_model.g25970.t1
Valid prediction for snap_scaffold_16-snap.324-T1
Valid prediction for snap_scaffold_16-snap.288-T1
Valid prediction for GlimmerHMM_glimmerT_38705-T1
Valid prediction for GeneMark_model.66158_t
Valid prediction for HiQ_model.g25962.t1
Valid prediction for snap_scaffold_16-snap.323-T1
Valid prediction for Augustus_model.g25965.t1
Valid prediction for snap_scaffold_16-snap.333-T1
Valid prediction for GeneMark_model.66205_t
Valid prediction for GlimmerHMM_glimmerT_38690-T1
Valid prediction for GeneMark_model.66163_t
Valid prediction for Augustus_model.g25972.t1
Valid prediction for Augustus_model.g25967.t1
Valid prediction for GeneMark_model.66156_t
Valid prediction for GeneMark_model.66180_t
Valid prediction for GlimmerHMM_glimmerT_38718-T1
Valid prediction for GlimmerHMM_glimmerT_38691-T1
Valid prediction for Augustus_model.g25964.t1
Valid prediction for Augustus_model.g25961.t1
Valid prediction for GeneMark_model.66184_t
Valid prediction for Augustus_model.g25971.t1
Valid prediction for GeneMark_model.66174_t
Valid prediction for snap_scaffold_16-snap.330-T1
Valid prediction for GeneMark_model.66198_t
Valid prediction for GlimmerHMM_glimmerT_38713-T1
Valid prediction for GeneMark_model.66195_t
Valid prediction for GeneMark_model.66206_t
Valid prediction for GeneMark_model.66178_t
Valid prediction for snap_scaffold_16-snap.316-T1
Valid prediction for GeneMark_model.66201_t
Valid prediction for Augustus_model.g25966.t1
Valid prediction for GlimmerHMM_glimmerT_38711-T1
Valid prediction for snap_scaffold_16-snap.286-T1
Valid prediction for GeneMark_model.66172_t
Valid prediction for snap_scaffold_16-snap.326-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.295-T1
Valid prediction for snap_scaffold_16-snap.289-T1
Valid prediction for snap_scaffold_16-snap.294-T1
Valid prediction for GeneMark_model.66187_t
Valid prediction for GlimmerHMM_glimmerT_38710-T1
Valid prediction for GeneMark_model.66189_t
Valid prediction for GeneMark_model.66191_t
Valid prediction for snap_scaffold_16-snap.305-T1
Valid prediction for snap_scaffold_16-snap.292-T1
Couldn't classify 151443, 151592
Couldn't classify 153302, 153442
Sorry, prediction pasa_asmbl_16128.p1 fails validation.
(ACT)	 AG	151443-151592	GT	AGG
(GAT)	 AG	151793-151933	GT	AGG
(GCT)	 AG	153302-153442	CT	GCC
-recovered pasa_asmbl_16128.p1, internal, 151443, 151592
-recovered pasa_asmbl_16128.p1, internal, 151793, 151933
Valid prediction for snap_scaffold_16-snap.320-T1
Valid prediction for GeneMark_model.66165_t
Valid prediction for Augustus_model.g25969.t1
Valid prediction for GlimmerHMM_glimmerT_38689-T1
Valid prediction for GlimmerHMM_glimmerT_38694-T1
Valid prediction for GlimmerHMM_glimmerT_38708-T1
Valid prediction for snap_scaffold_16-snap.283-T1
Valid prediction for snap_scaffold_16-snap.314-T1
Valid prediction for GeneMark_model.66160_t
Valid prediction for GeneMark_model.66176_t
Valid prediction for snap_scaffold_16-snap.332-T1
Valid prediction for GlimmerHMM_glimmerT_38709-T1
Valid prediction for GeneMark_model.66203_t
Valid prediction for snap_scaffold_16-snap.291-T1
Valid prediction for snap_scaffold_16-snap.285-T1
Valid prediction for GeneMark_model.66193_t
Valid prediction for Augustus_model.g25976.t1
Valid prediction for GlimmerHMM_glimmerT_38696-T1
Valid prediction for snap_scaffold_16-snap.297-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.313-T1
Valid prediction for snap_scaffold_16-snap.284-T1
Valid prediction for Augustus_model.g25975.t1
Valid prediction for GlimmerHMM_glimmerT_38717-T1
Valid prediction for GeneMark_model.66167_t
Valid prediction for GlimmerHMM_glimmerT_38693-T1
Valid prediction for snap_scaffold_16-snap.310-T1
Valid prediction for GlimmerHMM_glimmerT_38707-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15150, rend_intergenic: 11325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39426, rend_intergenic: 29282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47071, rend_intergenic: 42954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51166, rend_intergenic: 48062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67300, rend_intergenic: 52779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75013, rend_intergenic: 74636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79608, rend_intergenic: 78229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97170, rend_intergenic: 92935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101327, rend_intergenic: 99545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109541, rend_intergenic: 104051  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123290, rend_intergenic: 122286  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126160, rend_intergenic: 124107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142260, rend_intergenic: 139239  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155721, rend_intergenic: 153923  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170876, rend_intergenic: 167284  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 176111
-exon list size: 814


building trellis

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83.2    
83.3    
83.5    
83.6    
83.7    
83.8    
83.9    
84.1    
84.2    
84.3    
84.4    
84.6    
84.7    
84.8    
84.9    
85.0    
85.2    
85.3    
85.4    
85.5    
85.7    
85.8    
85.9    
86.0    
86.2    
86.3    
86.4    
86.5    
86.6    
86.8    
86.9    
87.0    
87.1    
87.3    
87.4    
87.5    
87.6    
87.7    
87.9    
88.0    
88.1    
88.2    
88.4    
88.5    
88.6    
88.7    
88.8    
89.0    
89.1    
89.2    
89.3    
89.5    
89.6    
89.7    
89.8    
90.0    
90.1    
90.2    
90.3    
90.4    
90.6    
90.7    
90.8    
90.9    
91.1    
91.2    
91.3    
91.4    
91.5    
91.7    
91.8    
91.9    
92.0    
92.2    
92.3    
92.4    
92.5    
92.6    
92.8    
92.9    
93.0    
93.1    
93.3    
93.4    
93.5    
93.6    
93.8    
93.9    
94.0    
94.1    
94.2    
94.4    
94.5    
94.6    
94.7    
94.9    
95.0    
95.1    
95.2    
95.3    
95.5    
95.6    
95.7    
95.8    
96.0    
96.1    
96.2    
96.3    
96.4    
96.6    
96.7    
96.8    
96.9    
97.1    
97.2    
97.3    
97.4    
97.5    
97.7    
97.8    
97.9    
98.0    
98.2    
98.3    
98.4    
98.5    
98.7    
98.8    
98.9    
99.0    
99.1    
99.3    
99.4    
99.5    
99.6    
99.8    
99.9    
-found 47 predictions from path traversal
Error with prediction: snap lend_intergenic: 15150, rend_intergenic: 11325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39426, rend_intergenic: 29282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47071, rend_intergenic: 42954  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51166, rend_intergenic: 48062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67300, rend_intergenic: 52779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75013, rend_intergenic: 74636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79608, rend_intergenic: 78229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97170, rend_intergenic: 92935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101327, rend_intergenic: 99545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109541, rend_intergenic: 104051  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123290, rend_intergenic: 122286  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126160, rend_intergenic: 124107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142260, rend_intergenic: 139239  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155721, rend_intergenic: 153923  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170876, rend_intergenic: 167284  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support