-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_9/scaffold_9_13655896-13855895

-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.40686_t
Valid prediction for GeneMark_model.40659_t
Valid prediction for GeneMark_model.40699_t
Valid prediction for Augustus_model.g15916.t1
Valid prediction for GeneMark_model.40684_t
Valid prediction for snap_scaffold_9-snap.2772-T1
Valid prediction for snap_scaffold_9-snap.2752-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_9-snap.2767-T1
Valid prediction for snap_scaffold_9-snap.2739-T1
Valid prediction for snap_scaffold_9-snap.2737-T1
Valid prediction for Augustus_model.g15918.t1
Valid prediction for snap_scaffold_9-snap.2747-T1
Valid prediction for GeneMark_model.40673_t
Valid prediction for GeneMark_model.40703_t
Valid prediction for GeneMark_model.40663_t
Valid prediction for GlimmerHMM_glimmerT_23730-T1
Valid prediction for snap_scaffold_9-snap.2744-T1
Valid prediction for snap_scaffold_9-snap.2760-T1
Valid prediction for GeneMark_model.40671_t
Valid prediction for GlimmerHMM_glimmerT_23738-T1
Valid prediction for snap_scaffold_9-snap.2741-T1
Valid prediction for snap_scaffold_9-snap.2755-T1
Valid prediction for snap_scaffold_9-snap.2753-T1
Valid prediction for snap_scaffold_9-snap.2762-T1
Valid prediction for GlimmerHMM_glimmerT_23735-T1
Valid prediction for GeneMark_model.40665_t
Valid prediction for GeneMark_model.40657_t
Valid prediction for GeneMark_model.40675_t
Valid prediction for snap_scaffold_9-snap.2766-T1
Valid prediction for GlimmerHMM_glimmerT_23722-T1
Valid prediction for GeneMark_model.40669_t
Valid prediction for snap_scaffold_9-snap.2749-T1
Valid prediction for GeneMark_model.40649_t
Valid prediction for GeneMark_model.40695_t
Valid prediction for snap_scaffold_9-snap.2748-T1
Valid prediction for GeneMark_model.40691_t
Valid prediction for GeneMark_model.40646_t
Valid prediction for GeneMark_model.40682_t
Valid prediction for GeneMark_model.40655_t
Valid prediction for snap_scaffold_9-snap.2736-T1
Valid prediction for GlimmerHMM_glimmerT_23729-T1
Valid prediction for Augustus_model.g15915.t1
Valid prediction for GeneMark_model.40687_t
Valid prediction for snap_scaffold_9-snap.2764-T1
Valid prediction for GlimmerHMM_glimmerT_23733-T1
Valid prediction for GeneMark_model.40693_t
Valid prediction for GlimmerHMM_glimmerT_23724-T1
Valid prediction for GeneMark_model.40651_t
Valid prediction for Augustus_model.g15921.t1
Valid prediction for GlimmerHMM_glimmerT_23734-T1
Valid prediction for Augustus_model.g15913.t1
Valid prediction for GeneMark_model.40661_t
Valid prediction for snap_scaffold_9-snap.2756-T1
Valid prediction for Augustus_model.g15920.t1
Valid prediction for GlimmerHMM_glimmerT_23719-T1
Valid prediction for GeneMark_model.40647_t
Valid prediction for GeneMark_model.40644_t
Valid prediction for GeneMark_model.40667_t
Valid prediction for Augustus_model.g15910.t1
Valid prediction for GlimmerHMM_glimmerT_23728-T1
Valid prediction for snap_scaffold_9-snap.2734-T1
Valid prediction for GeneMark_model.40653_t
Valid prediction for GeneMark_model.40681_t
Valid prediction for Augustus_model.g15914.t1
Valid prediction for GlimmerHMM_glimmerT_23718-T1
Valid prediction for GeneMark_model.40701_t
Valid prediction for GeneMark_model.40697_t
Valid prediction for snap_scaffold_9-snap.2745-T1
Valid prediction for GeneMark_model.40700_t
Valid prediction for Augustus_model.g15917.t1
Valid prediction for GeneMark_model.40689_t
Valid prediction for GlimmerHMM_glimmerT_23740-T1
Valid prediction for GlimmerHMM_glimmerT_23732-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 GlimmerHMM_glimmerT_23723-T1
Valid prediction for GeneMark_model.40658_t
Valid prediction for GeneMark_model.40670_t
Valid prediction for snap_scaffold_9-snap.2768-T1
Valid prediction for Augustus_model.g15919.t1
Valid prediction for GlimmerHMM_glimmerT_23736-T1
Valid prediction for GlimmerHMM_glimmerT_23726-T1
Valid prediction for snap_scaffold_9-snap.2735-T1
Valid prediction for GlimmerHMM_glimmerT_23721-T1
Valid prediction for snap_scaffold_9-snap.2759-T1
Valid prediction for GeneMark_model.40683_t
Valid prediction for GlimmerHMM_glimmerT_23739-T1
Valid prediction for snap_scaffold_9-snap.2743-T1
Valid prediction for snap_scaffold_9-snap.2763-T1
Valid prediction for GlimmerHMM_glimmerT_23717-T1
Valid prediction for GeneMark_model.40645_t
Valid prediction for GeneMark_model.40650_t
Valid prediction for snap_scaffold_9-snap.2765-T1
Valid prediction for GeneMark_model.40648_t
Valid prediction for GeneMark_model.40652_t
Valid prediction for GeneMark_model.40662_t
Valid prediction for GlimmerHMM_glimmerT_23737-T1
Valid prediction for GlimmerHMM_glimmerT_23720-T1
Valid prediction for Augustus_model.g15911.t1
Valid prediction for snap_scaffold_9-snap.2761-T1
Valid prediction for GeneMark_model.40668_t
Valid prediction for snap_scaffold_9-snap.2754-T1
Valid prediction for snap_scaffold_9-snap.2769-T1
Valid prediction for snap_scaffold_9-snap.2740-T1
Valid prediction for GeneMark_model.40680_t
Valid prediction for GlimmerHMM_glimmerT_23731-T1
Valid prediction for snap_scaffold_9-snap.2751-T1
Valid prediction for GeneMark_model.40660_t
Valid prediction for GeneMark_model.40654_t
Valid prediction for GeneMark_model.40679_t
Valid prediction for GeneMark_model.40692_t
Valid prediction for GlimmerHMM_glimmerT_23727-T1
Valid prediction for GeneMark_model.40698_t
Valid prediction for GeneMark_model.40677_t
Valid prediction for GlimmerHMM_glimmerT_23725-T1
Valid prediction for GeneMark_model.40678_t
Valid prediction for snap_scaffold_9-snap.2738-T1
Valid prediction for snap_scaffold_9-snap.2750-T1
Valid prediction for GeneMark_model.40666_t
Valid prediction for GeneMark_model.40676_t
Valid prediction for GeneMark_model.40688_t
Valid prediction for GeneMark_model.40672_t
Valid prediction for GeneMark_model.40694_t
Valid prediction for snap_scaffold_9-snap.2733-T1
Valid prediction for GeneMark_model.40643_t
Valid prediction for GeneMark_model.40674_t
Valid prediction for GeneMark_model.40702_t
Valid prediction for snap_scaffold_9-snap.2757-T1
Valid prediction for GeneMark_model.40690_t
Valid prediction for snap_scaffold_9-snap.2758-T1
Valid prediction for GlimmerHMM_glimmerT_23716-T1
Valid prediction for GeneMark_model.40685_t
Valid prediction for snap_scaffold_9-snap.2770-T1
Valid prediction for Augustus_model.g15912.t1
Valid prediction for snap_scaffold_9-snap.2746-T1
Valid prediction for GeneMark_model.40664_t
Valid prediction for snap_scaffold_9-snap.2742-T1
Valid prediction for GeneMark_model.40656_t
Valid prediction for GeneMark_model.40696_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8090, rend_intergenic: 3556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17278, rend_intergenic: 8873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31319, rend_intergenic: 29259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41264, rend_intergenic: 31472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51166, rend_intergenic: 45209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67250, rend_intergenic: 63673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79387, rend_intergenic: 68795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86009, rend_intergenic: 80267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117080, rend_intergenic: 86736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118456, rend_intergenic: 117144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126770, rend_intergenic: 118939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137080, rend_intergenic: 127515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145089, rend_intergenic: 144250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150354, rend_intergenic: 145697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156950, rend_intergenic: 151087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165317, rend_intergenic: 157948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190465, rend_intergenic: 176535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 200000
-exon list size: 811


building trellis

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95.9    
96.1    
96.2    
96.3    
96.4    
96.6    
96.7    
96.8    
96.9    
97.0    
97.2    
97.3    
97.4    
97.5    
97.7    
97.8    
97.9    
98.0    
98.2    
98.3    
98.4    
98.5    
98.6    
98.8    
98.9    
99.0    
99.1    
99.3    
99.4    
99.5    
99.6    
99.8    
99.9    
-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 8090, rend_intergenic: 3556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17278, rend_intergenic: 8873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31319, rend_intergenic: 29259  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41264, rend_intergenic: 31472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51166, rend_intergenic: 45209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67250, rend_intergenic: 63673  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79387, rend_intergenic: 68795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86009, rend_intergenic: 80267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117080, rend_intergenic: 86736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118456, rend_intergenic: 117144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126770, rend_intergenic: 118939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137080, rend_intergenic: 127515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145089, rend_intergenic: 144250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150354, rend_intergenic: 145697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156950, rend_intergenic: 151087  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165317, rend_intergenic: 157948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190465, rend_intergenic: 176535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 189834 - 200000
-exon list size: 27


building trellis

3.4    
6.9    
10.3    
13.8    
17.2    
20.7    
24.1    
27.6    
31.0    
34.5    
37.9    
41.4    
44.8    
48.3    
51.7    
55.2    
58.6    
62.1    
65.5    
69.0    
72.4    
75.9    
79.3    
82.8    
86.2    
89.7    
93.1    
96.6    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support