-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_17/scaffold_17_13334338-13533388

-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_17-snap.2788-T1
Valid prediction for snap_scaffold_17-snap.2792-T1
Valid prediction for GeneMark_model.73175_t
Valid prediction for GeneMark_model.73166_t
Valid prediction for GlimmerHMM_glimmerT_42314-T1
Valid prediction for GeneMark_model.73167_t
Valid prediction for GeneMark_model.73142_t
Valid prediction for GlimmerHMM_glimmerT_42315-T1
Valid prediction for Augustus_model.g28322.t1
Valid prediction for GeneMark_model.73135_t
Valid prediction for GeneMark_model.73160_t
Valid prediction for snap_scaffold_17-snap.2791-T1
Valid prediction for CodingQuarry_transcript_22192-T1
Valid prediction for snap_scaffold_17-snap.2783-T1
Valid prediction for GeneMark_model.73127_t
Valid prediction for GeneMark_model.73147_t
Valid prediction for Augustus_model.g28333.t1
Valid prediction for GlimmerHMM_glimmerT_42319-T1
Valid prediction for GeneMark_model.73144_t
Valid prediction for snap_scaffold_17-snap.2762-T1
Valid prediction for GlimmerHMM_glimmerT_42294-T1
Valid prediction for snap_scaffold_17-snap.2774-T1
Valid prediction for snap_scaffold_17-snap.2767-T1
Valid prediction for snap_scaffold_17-snap.2772-T1
Valid prediction for GeneMark_model.73145_t
Valid prediction for snap_scaffold_17-snap.2797-T1
Valid prediction for GeneMark_model.73138_t
Valid prediction for snap_scaffold_17-snap.2781-T1
Valid prediction for snap_scaffold_17-snap.2785-T1
Valid prediction for GeneMark_model.73165_t
Valid prediction for GlimmerHMM_glimmerT_42313-T1
Valid prediction for snap_scaffold_17-snap.2759-T1
Valid prediction for GlimmerHMM_glimmerT_42308-T1
Valid prediction for snap_scaffold_17-snap.2778-T1
Valid prediction for GeneMark_model.73125_t
Valid prediction for snap_scaffold_17-snap.2770-T1
Valid prediction for GeneMark_model.73169_t
Valid prediction for Augustus_model.g28332.t1
Valid prediction for snap_scaffold_17-snap.2800-T1
Valid prediction for GeneMark_model.73173_t
Valid prediction for GlimmerHMM_glimmerT_42295-T1
Valid prediction for GlimmerHMM_glimmerT_42289-T1
Valid prediction for HiQ_model.g28331.t1
Valid prediction for Augustus_model.g28324.t1
Valid prediction for GeneMark_model.73161_t
Valid prediction for GeneMark_model.73149_t
Valid prediction for GlimmerHMM_glimmerT_42307-T1
Valid prediction for GeneMark_model.73171_t
Valid prediction for snap_scaffold_17-snap.2794-T1
Valid prediction for snap_scaffold_17-snap.2786-T1
Valid prediction for snap_scaffold_17-snap.2798-T1
Valid prediction for GlimmerHMM_glimmerT_42301-T1
Couldn't classify 10420, 10562
Couldn't classify 14362, 14520
Sorry, prediction pasa_asmbl_18565.p1 fails validation.
(GAG)	 AG	10420-10562	GT	CTG
(GGT)	 AG	13073-13169	GT	AGG
(ACT)	 AG	14362-14520	GT	AGG
-recovered pasa_asmbl_18565.p1, internal, 10420, 10562
-recovered pasa_asmbl_18565.p1, internal, 13073, 13169
-recovered pasa_asmbl_18565.p1, internal, 14362, 14520
Valid prediction for pasa_asmbl_18453.p1
Valid prediction for GlimmerHMM_glimmerT_42300-T1
Valid prediction for GeneMark_model.73154_t
Valid prediction for snap_scaffold_17-snap.2766-T1
Valid prediction for GeneMark_model.73150_t
Valid prediction for GlimmerHMM_glimmerT_42306-T1
Valid prediction for GlimmerHMM_glimmerT_42290-T1
Valid prediction for pasa_asmbl_18448.p1
Valid prediction for GeneMark_model.73164_t
Valid prediction for GeneMark_model.73129_t
Valid prediction for snap_scaffold_17-snap.2764-T1
Valid prediction for CodingQuarry_transcript_22194-T1
Valid prediction for GlimmerHMM_glimmerT_42302-T1
Couldn't classify 25244, 25432
Sorry, prediction pasa_asmbl_18575.p2 fails validation.
(TAT)	 GC	25244-25432	GT	GGG
(GAG)	 AG	25735-25854	AT	AGA
-recovered pasa_asmbl_18575.p2, terminal, 25735, 25854
Valid prediction for GeneMark_model.73163_t
Valid prediction for GeneMark_model.73140_t
Valid prediction for snap_scaffold_17-snap.2795-T1
Valid prediction for GeneMark_model.73156_t
Valid prediction for snap_scaffold_17-snap.2776-T1
Valid prediction for snap_scaffold_17-snap.2756-T1
Valid prediction for GeneMark_model.73132_t
Valid prediction for GlimmerHMM_glimmerT_42318-T1
Valid prediction for HiQ_model.g28337.t1
Valid prediction for GlimmerHMM_glimmerT_42305-T1
Valid prediction for GeneMark_model.73152_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_42292-T1
Valid prediction for GeneMark_model.73134_t
Valid prediction for snap_scaffold_17-snap.2760-T1
Valid prediction for GlimmerHMM_glimmerT_42304-T1
Valid prediction for GlimmerHMM_glimmerT_42299-T1
Valid prediction for GeneMark_model.73148_t
Valid prediction for snap_scaffold_17-snap.2782-T1
Valid prediction for GeneMark_model.73126_t
Valid prediction for snap_scaffold_17-snap.2775-T1
Valid prediction for snap_scaffold_17-snap.2761-T1
Valid prediction for CodingQuarry_transcript_22191-T1
Valid prediction for Augustus_model.g28336.t1
Valid prediction for snap_scaffold_17-snap.2768-T1
Valid prediction for snap_scaffold_17-snap.2777-T1
Valid prediction for Augustus_model.g28330.t1
Valid prediction for HiQ_model.g28334.t1
Valid prediction for snap_scaffold_17-snap.2773-T1
Valid prediction for Augustus_model.g28326.t1
Valid prediction for GlimmerHMM_glimmerT_42317-T1
Valid prediction for GlimmerHMM_glimmerT_42296-T1
Valid prediction for snap_scaffold_17-snap.2787-T1
Valid prediction for GeneMark_model.73136_t
Valid prediction for GeneMark_model.73157_t
Valid prediction for snap_scaffold_17-snap.2763-T1
Valid prediction for GeneMark_model.73168_t
Valid prediction for GeneMark_model.73131_t
Valid prediction for GeneMark_model.73146_t
Valid prediction for snap_scaffold_17-snap.2790-T1
Valid prediction for Augustus_model.g28328.t1
Valid prediction for snap_scaffold_17-snap.2779-T1
Valid prediction for GeneMark_model.73143_t
Valid prediction for snap_scaffold_17-snap.2780-T1
Valid prediction for snap_scaffold_17-snap.2771-T1
Valid prediction for GlimmerHMM_glimmerT_42312-T1
Valid prediction for snap_scaffold_17-snap.2758-T1
Valid prediction for GlimmerHMM_glimmerT_42297-T1
Valid prediction for GeneMark_model.73151_t
Valid prediction for GlimmerHMM_glimmerT_42298-T1
Valid prediction for snap_scaffold_17-snap.2765-T1
Valid prediction for GeneMark_model.73159_t
Valid prediction for GlimmerHMM_glimmerT_42303-T1
Valid prediction for pasa_asmbl_19416.p1
Valid prediction for snap_scaffold_17-snap.2796-T1
Valid prediction for GeneMark_model.73141_t
Valid prediction for snap_scaffold_17-snap.2793-T1
Valid prediction for GeneMark_model.73170_t
Valid prediction for GeneMark_model.73155_t
Valid prediction for GeneMark_model.73137_t
Valid prediction for GeneMark_model.73158_t
Valid prediction for Augustus_model.g28335.t1
Valid prediction for snap_scaffold_17-snap.2757-T1
Valid prediction for snap_scaffold_17-snap.2769-T1
Valid prediction for snap_scaffold_17-snap.2799-T1
Valid prediction for GeneMark_model.73172_t
Valid prediction for pasa_asmbl_19413.p1
Valid prediction for GeneMark_model.73162_t
Valid prediction for GlimmerHMM_glimmerT_42309-T1
Valid prediction for snap_scaffold_17-snap.2784-T1
Valid prediction for GlimmerHMM_glimmerT_42293-T1
Valid prediction for GeneMark_model.73133_t
Valid prediction for GeneMark_model.73153_t
Valid prediction for Augustus_model.g28323.t1
Valid prediction for CodingQuarry_transcript_22193-T1
Valid prediction for GeneMark_model.73128_t
Valid prediction for GeneMark_model.73174_t
Valid prediction for snap_scaffold_17-snap.2789-T1
Valid prediction for Augustus_model.g28327.t1
Valid prediction for GlimmerHMM_glimmerT_42316-T1
Valid prediction for GlimmerHMM_glimmerT_42291-T1
Valid prediction for Augustus_model.g28325.t1
Valid prediction for GeneMark_model.73139_t
Valid prediction for GlimmerHMM_glimmerT_42311-T1
Valid prediction for Augustus_model.g28329.t1
Valid prediction for GlimmerHMM_glimmerT_42310-T1
Valid prediction for GeneMark_model.73130_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17363, rend_intergenic: 12608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19492, rend_intergenic: 17580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21750, rend_intergenic: 19533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23870, rend_intergenic: 22116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26734, rend_intergenic: 23894  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37400, rend_intergenic: 35405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52389, rend_intergenic: 47347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56257, rend_intergenic: 54115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71390, rend_intergenic: 70475  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72192, rend_intergenic: 72093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80735, rend_intergenic: 73259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89264, rend_intergenic: 83345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130740, rend_intergenic: 123257  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151728, rend_intergenic: 150283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 175413, rend_intergenic: 153574  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182663, rend_intergenic: 179060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184222, rend_intergenic: 183591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187912, rend_intergenic: 184223  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191922, rend_intergenic: 189911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195796, rend_intergenic: 192182  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 199051
-exon list size: 794


building trellis

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83.8    
83.9    
84.0    
84.2    
84.3    
84.4    
84.5    
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    
87.1    
87.2    
87.3    
87.4    
87.6    
87.7    
87.8    
87.9    
88.1    
88.2    
88.3    
88.4    
88.6    
88.7    
88.8    
88.9    
89.1    
89.2    
89.3    
89.4    
89.6    
89.7    
89.8    
89.9    
90.1    
90.2    
90.3    
90.5    
90.6    
90.7    
90.8    
91.0    
91.1    
91.2    
91.3    
91.5    
91.6    
91.7    
91.8    
92.0    
92.1    
92.2    
92.3    
92.5    
92.6    
92.7    
92.8    
93.0    
93.1    
93.2    
93.3    
93.5    
93.6    
93.7    
93.8    
94.0    
94.1    
94.2    
94.3    
94.5    
94.6    
94.7    
94.8    
95.0    
95.1    
95.2    
95.4    
95.5    
95.6    
95.7    
95.9    
96.0    
96.1    
96.2    
96.4    
96.5    
96.6    
96.7    
96.9    
97.0    
97.1    
97.2    
97.4    
97.5    
97.6    
97.7    
97.9    
98.0    
98.1    
98.2    
98.4    
98.5    
98.6    
98.7    
98.9    
99.0    
99.1    
99.2    
99.4    
99.5    
99.6    
99.7    
99.9    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 17363, rend_intergenic: 12608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19492, rend_intergenic: 17580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21750, rend_intergenic: 19533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23870, rend_intergenic: 22116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26734, rend_intergenic: 23894  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37400, rend_intergenic: 35405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52389, rend_intergenic: 47347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56257, rend_intergenic: 54115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71390, rend_intergenic: 70475  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72192, rend_intergenic: 72093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80735, rend_intergenic: 73259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89264, rend_intergenic: 83345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130740, rend_intergenic: 123257  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151728, rend_intergenic: 150283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 175413, rend_intergenic: 153574  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182663, rend_intergenic: 179060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184222, rend_intergenic: 183591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187912, rend_intergenic: 184223  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191922, rend_intergenic: 189911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195796, rend_intergenic: 192182  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