-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_14/scaffold_14_10851426-11050870

-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_35389-T1
Valid prediction for Augustus_model.g23786.t1
Valid prediction for GlimmerHMM_glimmerT_35392-T1
Valid prediction for GeneMark_model.60684_t
Valid prediction for GeneMark_model.60698_t
Valid prediction for Augustus_model.g23800.t1
Valid prediction for snap_scaffold_14-snap.2267-T1
Valid prediction for snap_scaffold_14-snap.2241-T1
Valid prediction for GeneMark_model.60689_t
Valid prediction for snap_scaffold_14-snap.2257-T1
Valid prediction for GlimmerHMM_glimmerT_35370-T1
Valid prediction for Augustus_model.g23799.t1
Valid prediction for GlimmerHMM_glimmerT_35397-T1
Valid prediction for snap_scaffold_14-snap.2275-T1
Valid prediction for GeneMark_model.60723_t
Valid prediction for GlimmerHMM_glimmerT_35374-T1
Valid prediction for GlimmerHMM_glimmerT_35388-T1
Valid prediction for snap_scaffold_14-snap.2263-T1
Valid prediction for GeneMark_model.60701_t
Valid prediction for GeneMark_model.60707_t
Valid prediction for Augustus_model.g23788.t1
Valid prediction for GeneMark_model.60715_t
Valid prediction for GeneMark_model.60704_t
Valid prediction for snap_scaffold_14-snap.2255-T1
Valid prediction for GeneMark_model.60728_t
Valid prediction for GeneMark_model.60726_t
Valid prediction for GeneMark_model.60682_t
Valid prediction for Augustus_model.g23793.t1
Valid prediction for snap_scaffold_14-snap.2243-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_14-snap.2265-T1
Valid prediction for Augustus_model.g23789.t1
Valid prediction for GlimmerHMM_glimmerT_35377-T1
Valid prediction for GeneMark_model.60719_t
Valid prediction for Augustus_model.g23790.t1
Valid prediction for snap_scaffold_14-snap.2262-T1
Valid prediction for GlimmerHMM_glimmerT_35385-T1
Valid prediction for Augustus_model.g23795.t1
Valid prediction for GeneMark_model.60732_t
Valid prediction for GeneMark_model.60702_t
Valid prediction for GlimmerHMM_glimmerT_35391-T1
Valid prediction for snap_scaffold_14-snap.2239-T1
Valid prediction for snap_scaffold_14-snap.2270-T1
Couldn't classify 113525, 113683
Sorry, prediction pasa_asmbl_12337.p1 fails validation.
(GTG)	 CG	113525-113683	GT	CGG
(AGT)	 AG	113968-114144	GT	TGG
(ATT)	 AG	114298-114502	GT	AGG
(ACC)	 AG	114849-115007	GT	AGG
(GAG)	 AG	115144-115340	CA	AGC
-recovered pasa_asmbl_12337.p1, terminal, 115144, 115340
-recovered pasa_asmbl_12337.p1, internal, 113968, 114144
-recovered pasa_asmbl_12337.p1, internal, 114298, 114502
-recovered pasa_asmbl_12337.p1, internal, 114849, 115007
Valid prediction for GlimmerHMM_glimmerT_35369-T1
Valid prediction for GeneMark_model.60716_t
Valid prediction for Augustus_model.g23803.t1
Valid prediction for GeneMark_model.60730_t
Valid prediction for GeneMark_model.60691_t
Valid prediction for GlimmerHMM_glimmerT_35380-T1
Valid prediction for GlimmerHMM_glimmerT_35387-T1
Valid prediction for Augustus_model.g23798.t1
Valid prediction for GlimmerHMM_glimmerT_35393-T1
Valid prediction for snap_scaffold_14-snap.2269-T1
Valid prediction for snap_scaffold_14-snap.2273-T1
Valid prediction for GeneMark_model.60685_t
Valid prediction for GeneMark_model.60713_t
Valid prediction for GlimmerHMM_glimmerT_35382-T1
Valid prediction for snap_scaffold_14-snap.2238-T1
Valid prediction for GeneMark_model.60711_t
Valid prediction for GeneMark_model.60724_t
Valid prediction for GeneMark_model.60696_t
Valid prediction for GeneMark_model.60717_t
Valid prediction for GlimmerHMM_glimmerT_35396-T1
Valid prediction for snap_scaffold_14-snap.2272-T1
Valid prediction for snap_scaffold_14-snap.2247-T1
Valid prediction for snap_scaffold_14-snap.2249-T1
Valid prediction for GeneMark_model.60695_t
Valid prediction for snap_scaffold_14-snap.2266-T1
Valid prediction for GeneMark_model.60709_t
Valid prediction for snap_scaffold_14-snap.2259-T1
Valid prediction for GeneMark_model.60721_t
Valid prediction for Augustus_model.g23794.t1
Valid prediction for Augustus_model.g23796.t1
Valid prediction for snap_scaffold_14-snap.2251-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 GeneMark_model.60694_t
Valid prediction for GlimmerHMM_glimmerT_35373-T1
Valid prediction for snap_scaffold_14-snap.2276-T1
Valid prediction for GlimmerHMM_glimmerT_35386-T1
Valid prediction for snap_scaffold_14-snap.2274-T1
Valid prediction for GlimmerHMM_glimmerT_35372-T1
Valid prediction for Augustus_model.g23802.t1
Valid prediction for GeneMark_model.60697_t
Valid prediction for GeneMark_model.60686_t
Valid prediction for GeneMark_model.60693_t
Valid prediction for GlimmerHMM_glimmerT_35375-T1
Valid prediction for snap_scaffold_14-snap.2256-T1
Valid prediction for GeneMark_model.60718_t
Valid prediction for snap_scaffold_14-snap.2250-T1
Valid prediction for Augustus_model.g23791.t1
Valid prediction for GlimmerHMM_glimmerT_35371-T1
Valid prediction for snap_scaffold_14-snap.2245-T1
Valid prediction for GlimmerHMM_glimmerT_35381-T1
Valid prediction for GeneMark_model.60688_t
Valid prediction for GeneMark_model.60725_t
Valid prediction for GeneMark_model.60706_t
Valid prediction for snap_scaffold_14-snap.2261-T1
Valid prediction for snap_scaffold_14-snap.2264-T1
Valid prediction for snap_scaffold_14-snap.2268-T1
Valid prediction for snap_scaffold_14-snap.2248-T1
Valid prediction for GeneMark_model.60708_t
Valid prediction for snap_scaffold_14-snap.2260-T1
Valid prediction for GeneMark_model.60710_t
Valid prediction for snap_scaffold_14-snap.2252-T1
Valid prediction for GeneMark_model.60683_t
Valid prediction for Augustus_model.g23792.t1
Valid prediction for GeneMark_model.60720_t
Valid prediction for GeneMark_model.60699_t
Valid prediction for GlimmerHMM_glimmerT_35394-T1
Valid prediction for GlimmerHMM_glimmerT_35390-T1
Valid prediction for snap_scaffold_14-snap.2242-T1
Valid prediction for snap_scaffold_14-snap.2278-T1
Valid prediction for Augustus_model.g23801.t1
Valid prediction for GeneMark_model.60727_t
Valid prediction for GlimmerHMM_glimmerT_35376-T1
Valid prediction for Augustus_model.g23797.t1
Valid prediction for snap_scaffold_14-snap.2258-T1
Valid prediction for GeneMark_model.60722_t
Valid prediction for Augustus_model.g23787.t1
Valid prediction for GeneMark_model.60687_t
Valid prediction for GeneMark_model.60712_t
Valid prediction for GeneMark_model.60690_t
Valid prediction for GlimmerHMM_glimmerT_35383-T1
Valid prediction for GlimmerHMM_glimmerT_35378-T1
Valid prediction for GeneMark_model.60692_t
Valid prediction for GeneMark_model.60681_t
Valid prediction for GeneMark_model.60705_t
Valid prediction for snap_scaffold_14-snap.2240-T1
Valid prediction for GlimmerHMM_glimmerT_35384-T1
Valid prediction for snap_scaffold_14-snap.2246-T1
Valid prediction for GlimmerHMM_glimmerT_35368-T1
Valid prediction for snap_scaffold_14-snap.2254-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GeneMark_model.60729_t
Valid prediction for GeneMark_model.60703_t
Valid prediction for GlimmerHMM_glimmerT_35395-T1
Valid prediction for Augustus_model.g23804.t1
Valid prediction for snap_scaffold_14-snap.2244-T1
Valid prediction for GeneMark_model.60731_t
Valid prediction for snap_scaffold_14-snap.2253-T1
Valid prediction for GeneMark_model.60714_t
Valid prediction for GeneMark_model.60700_t
Valid prediction for Augustus_model.g23785.t1
Valid prediction for snap_scaffold_14-snap.2271-T1
Valid prediction for GlimmerHMM_glimmerT_35379-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18643, rend_intergenic: 10040  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23628, rend_intergenic: 22301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48472, rend_intergenic: 24499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53484, rend_intergenic: 48714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59275, rend_intergenic: 54237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61533, rend_intergenic: 60280  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63296, rend_intergenic: 61807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79723, rend_intergenic: 65617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90155, rend_intergenic: 87182  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96462, rend_intergenic: 90256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98983, rend_intergenic: 96898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102935, rend_intergenic: 99348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115734, rend_intergenic: 103854  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163796, rend_intergenic: 155492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179175, rend_intergenic: 178265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183182, rend_intergenic: 181238  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188879, rend_intergenic: 186064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 130698, rend_intergenic: 130695  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 199445
-exon list size: 743


building trellis

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95.4    
95.6    
95.7    
95.8    
96.0    
96.1    
96.2    
96.4    
96.5    
96.6    
96.8    
96.9    
97.0    
97.2    
97.3    
97.4    
97.6    
97.7    
97.9    
98.0    
98.1    
98.3    
98.4    
98.5    
98.7    
98.8    
98.9    
99.1    
99.2    
99.3    
99.5    
99.6    
99.7    
99.9    
-found 45 predictions from path traversal
Error with prediction: snap lend_intergenic: 18643, rend_intergenic: 10040  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23628, rend_intergenic: 22301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48472, rend_intergenic: 24499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53484, rend_intergenic: 48714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59275, rend_intergenic: 54237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61533, rend_intergenic: 60280  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63296, rend_intergenic: 61807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79723, rend_intergenic: 65617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90155, rend_intergenic: 87182  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96462, rend_intergenic: 90256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98983, rend_intergenic: 96898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102935, rend_intergenic: 99348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115734, rend_intergenic: 103854  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163796, rend_intergenic: 155492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179175, rend_intergenic: 178265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183182, rend_intergenic: 181238  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188879, rend_intergenic: 186064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 130698, rend_intergenic: 130695  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support