-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_14/scaffold_14_14844730-15054918

-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_14-snap.3108-T1
Valid prediction for snap_scaffold_14-snap.3117-T1
Valid prediction for GlimmerHMM_glimmerT_35960-T1
Valid prediction for Augustus_model.g24208.t1
Valid prediction for snap_scaffold_14-snap.3115-T1
Valid prediction for GeneMark_model.61698_t
Valid prediction for GlimmerHMM_glimmerT_35970-T1
Valid prediction for snap_scaffold_14-snap.3097-T1
Valid prediction for GeneMark_model.61685_t
Valid prediction for GeneMark_model.61689_t
Valid prediction for snap_scaffold_14-snap.3123-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_14-snap.3120-T1
Valid prediction for GeneMark_model.61695_t
Valid prediction for snap_scaffold_14-snap.3104-T1
Valid prediction for GeneMark_model.61703_t
Valid prediction for snap_scaffold_14-snap.3093-T1
Valid prediction for snap_scaffold_14-snap.3105-T1
Valid prediction for Augustus_model.g24215.t1
Valid prediction for snap_scaffold_14-snap.3101-T1
Valid prediction for Augustus_model.g24206.t1
Valid prediction for GlimmerHMM_glimmerT_35948-T1
Valid prediction for GeneMark_model.61669_t
Valid prediction for GlimmerHMM_glimmerT_35951-T1
Valid prediction for GeneMark_model.61675_t
Valid prediction for GeneMark_model.61663_t
Valid prediction for snap_scaffold_14-snap.3096-T1
Valid prediction for snap_scaffold_14-snap.3090-T1
Valid prediction for snap_scaffold_14-snap.3086-T1
Valid prediction for GeneMark_model.61705_t
Valid prediction for snap_scaffold_14-snap.3103-T1
Valid prediction for GlimmerHMM_glimmerT_35968-T1
Valid prediction for GlimmerHMM_glimmerT_35946-T1
Valid prediction for GeneMark_model.61655_t
Valid prediction for snap_scaffold_14-snap.3122-T1
Valid prediction for GeneMark_model.61707_t
Valid prediction for GeneMark_model.61681_t
Valid prediction for snap_scaffold_14-snap.3092-T1
Valid prediction for GeneMark_model.61654_t
Valid prediction for GeneMark_model.61671_t
Valid prediction for snap_scaffold_14-snap.3100-T1
Valid prediction for snap_scaffold_14-snap.3112-T1
Valid prediction for GlimmerHMM_glimmerT_35955-T1
Valid prediction for GeneMark_model.61677_t
Valid prediction for GeneMark_model.61673_t
Valid prediction for Augustus_model.g24210.t1
Valid prediction for GeneMark_model.61664_t
Valid prediction for GeneMark_model.61665_t
Valid prediction for GeneMark_model.61667_t
Valid prediction for Augustus_model.g24213.t1
Valid prediction for snap_scaffold_14-snap.3126-T1
Valid prediction for GlimmerHMM_glimmerT_35966-T1
Valid prediction for GeneMark_model.61696_t
Valid prediction for GeneMark_model.61659_t
Valid prediction for GeneMark_model.61651_t
Valid prediction for GeneMark_model.61653_t
Valid prediction for GeneMark_model.61687_t
Valid prediction for GeneMark_model.61679_t
Valid prediction for snap_scaffold_14-snap.3128-T1
Valid prediction for GlimmerHMM_glimmerT_35952-T1
Valid prediction for GlimmerHMM_glimmerT_35947-T1
Valid prediction for snap_scaffold_14-snap.3099-T1
Valid prediction for GeneMark_model.61682_t
Valid prediction for GeneMark_model.61691_t
Valid prediction for GeneMark_model.61693_t
Valid prediction for GeneMark_model.61661_t
Valid prediction for GeneMark_model.61700_t
Valid prediction for GeneMark_model.61657_t
Valid prediction for GlimmerHMM_glimmerT_35965-T1
Valid prediction for Augustus_model.g24205.t1
Valid prediction for Augustus_model.g24203.t1
Valid prediction for GeneMark_model.61694_t
Valid prediction for GlimmerHMM_glimmerT_35962-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.61683_t
Valid prediction for snap_scaffold_14-snap.3109-T1
Valid prediction for GeneMark_model.61709_t
Valid prediction for GeneMark_model.61678_t
Couldn't classify 30245, 30260
Sorry, prediction GeneMark_model.61701_t fails validation.
(GCA)	 AG	30245-30260	GT	CAG
(ACA)	 AG	33011-33088	GT	CTG
(GAC)	 AG	33347-33570	GT	AGG
(ACA)	 AG	33617-33674	GT	AGG
(ACC)	 AG	33731-33829	TG	GAT
-recovered GeneMark_model.61701_t, terminal, 33731, 33829
-recovered GeneMark_model.61701_t, internal, 30245, 30260
-recovered GeneMark_model.61701_t, internal, 33011, 33088
-recovered GeneMark_model.61701_t, internal, 33347, 33570
-recovered GeneMark_model.61701_t, internal, 33617, 33674
Valid prediction for snap_scaffold_14-snap.3107-T1
Valid prediction for GeneMark_model.61706_t
Valid prediction for GlimmerHMM_glimmerT_35957-T1
Valid prediction for GeneMark_model.61692_t
Valid prediction for GeneMark_model.61658_t
Valid prediction for snap_scaffold_14-snap.3111-T1
Valid prediction for GeneMark_model.61666_t
Couldn't classify 20696, 20848
Sorry, prediction GeneMark_model.61702_t fails validation.
(ATG)	 CT	20522-20646	GT	GTG
(TAG)	 AG	20696-20848	GT	TGG
-recovered GeneMark_model.61702_t, initial, 20522, 20646
-recovered GeneMark_model.61702_t, internal, 20696, 20848
Valid prediction for snap_scaffold_14-snap.3124-T1
Valid prediction for snap_scaffold_14-snap.3094-T1
Valid prediction for GlimmerHMM_glimmerT_35956-T1
Valid prediction for GlimmerHMM_glimmerT_35950-T1
Valid prediction for snap_scaffold_14-snap.3087-T1
Valid prediction for snap_scaffold_14-snap.3106-T1
Valid prediction for snap_scaffold_14-snap.3125-T1
Valid prediction for GlimmerHMM_glimmerT_35958-T1
Valid prediction for snap_scaffold_14-snap.3095-T1
Couldn't classify 8391, 8476
Couldn't classify 9954, 9990
Sorry, prediction pasa_asmbl_13688.p1 fails validation.
(AGG)	 AC	8391-8476	GT	TAG
(TCC)	 AG	9199-9312	GT	AGG
(TGG)	 AG	9545-9673	GT	TCG
(GAT)	 AG	9954-9990	AA	GGA
-recovered pasa_asmbl_13688.p1, internal, 9199, 9312
-recovered pasa_asmbl_13688.p1, internal, 9545, 9673
Valid prediction for GlimmerHMM_glimmerT_35963-T1
Valid prediction for GeneMark_model.61680_t
Valid prediction for snap_scaffold_14-snap.3119-T1
Valid prediction for GeneMark_model.61697_t
Valid prediction for GeneMark_model.61652_t
Valid prediction for snap_scaffold_14-snap.3121-T1
Valid prediction for GlimmerHMM_glimmerT_35949-T1
Valid prediction for Augustus_model.g24204.t1
Valid prediction for GlimmerHMM_glimmerT_35953-T1
Valid prediction for GeneMark_model.61688_t
Valid prediction for GeneMark_model.61699_t
Valid prediction for GeneMark_model.61708_t
Valid prediction for GeneMark_model.61676_t
Valid prediction for GlimmerHMM_glimmerT_35975-T1
Valid prediction for Augustus_model.g24209.t1
Valid prediction for Augustus_model.g24207.t1
Valid prediction for snap_scaffold_14-snap.3098-T1
Valid prediction for snap_scaffold_14-snap.3113-T1
Valid prediction for GeneMark_model.61656_t
Valid prediction for GeneMark_model.61674_t
Valid prediction for Augustus_model.g24211.t1
Valid prediction for Augustus_model.g24217.t1
Valid prediction for GeneMark_model.61690_t
Valid prediction for GlimmerHMM_glimmerT_35961-T1
Couldn't classify 59804, 60109
Sorry, prediction pasa_asmbl_13686.p1 fails validation.
(ATG)	 GG	59804-60109	CG	CCC
Valid prediction for snap_scaffold_14-snap.3091-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_35959-T1
Valid prediction for snap_scaffold_14-snap.3088-T1
Valid prediction for snap_scaffold_14-snap.3118-T1
Valid prediction for snap_scaffold_14-snap.3114-T1
Valid prediction for snap_scaffold_14-snap.3102-T1
Valid prediction for Augustus_model.g24214.t1
Valid prediction for Augustus_model.g24216.t1
Valid prediction for snap_scaffold_14-snap.3127-T1
Valid prediction for GeneMark_model.61672_t
Valid prediction for GeneMark_model.61704_t
Valid prediction for GeneMark_model.61710_t
Valid prediction for GlimmerHMM_glimmerT_35969-T1
Valid prediction for snap_scaffold_14-snap.3110-T1
Valid prediction for GlimmerHMM_glimmerT_35971-T1
Valid prediction for GeneMark_model.61660_t
Valid prediction for GeneMark_model.61670_t
Valid prediction for GlimmerHMM_glimmerT_35954-T1
Valid prediction for Augustus_model.g24212.t1
Valid prediction for GlimmerHMM_glimmerT_35973-T1
Valid prediction for GlimmerHMM_glimmerT_35967-T1
Valid prediction for snap_scaffold_14-snap.3116-T1
Valid prediction for GlimmerHMM_glimmerT_35972-T1
Valid prediction for GlimmerHMM_glimmerT_35974-T1
Valid prediction for GeneMark_model.61662_t
Valid prediction for snap_scaffold_14-snap.3089-T1
Valid prediction for GlimmerHMM_glimmerT_35964-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12070, rend_intergenic: 9769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23503, rend_intergenic: 22890  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32175, rend_intergenic: 24279  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35882, rend_intergenic: 33141  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44112, rend_intergenic: 39598  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61383, rend_intergenic: 50764  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80538, rend_intergenic: 61456  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82813, rend_intergenic: 81427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99276, rend_intergenic: 82850  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120622, rend_intergenic: 114731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143462, rend_intergenic: 128372  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145331, rend_intergenic: 144185  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157350, rend_intergenic: 149895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170799, rend_intergenic: 162656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177074, rend_intergenic: 171225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195136, rend_intergenic: 189338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199965, rend_intergenic: 196116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200972, rend_intergenic: 199981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 210189
-exon list size: 844


building trellis

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77.4    
77.5    
77.7    
77.8    
77.9    
78.0    
78.1    
78.3    
78.4    
78.5    
78.6    
78.7    
78.8    
79.0    
79.1    
79.2    
79.3    
79.4    
79.6    
79.7    
79.8    
79.9    
80.0    
80.1    
80.3    
80.4    
80.5    
80.6    
80.7    
80.9    
81.0    
81.1    
81.2    
81.3    
81.4    
81.6    
81.7    
81.8    
81.9    
82.0    
82.2    
82.3    
82.4    
82.5    
82.6    
82.7    
82.9    
83.0    
83.1    
83.2    
83.3    
83.5    
83.6    
83.7    
83.8    
83.9    
84.0    
84.2    
84.3    
84.4    
84.5    
84.6    
84.8    
84.9    
85.0    
85.1    
85.2    
85.3    
85.5    
85.6    
85.7    
85.8    
85.9    
86.1    
86.2    
86.3    
86.4    
86.5    
86.6    
86.8    
86.9    
87.0    
87.1    
87.2    
87.4    
87.5    
87.6    
87.7    
87.8    
87.9    
88.1    
88.2    
88.3    
88.4    
88.5    
88.7    
88.8    
88.9    
89.0    
89.1    
89.2    
89.4    
89.5    
89.6    
89.7    
89.8    
90.0    
90.1    
90.2    
90.3    
90.4    
90.5    
90.7    
90.8    
90.9    
91.0    
91.1    
91.3    
91.4    
91.5    
91.6    
91.7    
91.8    
92.0    
92.1    
92.2    
92.3    
92.4    
92.6    
92.7    
92.8    
92.9    
93.0    
93.1    
93.3    
93.4    
93.5    
93.6    
93.7    
93.9    
94.0    
94.1    
94.2    
94.3    
94.4    
94.6    
94.7    
94.8    
94.9    
95.0    
95.2    
95.3    
95.4    
95.5    
95.6    
95.7    
95.9    
96.0    
96.1    
96.2    
96.3    
96.5    
96.6    
96.7    
96.8    
96.9    
97.0    
97.2    
97.3    
97.4    
97.5    
97.6    
97.8    
97.9    
98.0    
98.1    
98.2    
98.3    
98.5    
98.6    
98.7    
98.8    
98.9    
99.1    
99.2    
99.3    
99.4    
99.5    
99.6    
99.8    
99.9    
-found 46 predictions from path traversal
Error with prediction: snap lend_intergenic: 12070, rend_intergenic: 9769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23503, rend_intergenic: 22890  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32175, rend_intergenic: 24279  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35882, rend_intergenic: 33141  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44112, rend_intergenic: 39598  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61383, rend_intergenic: 50764  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80538, rend_intergenic: 61456  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82813, rend_intergenic: 81427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99276, rend_intergenic: 82850  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120622, rend_intergenic: 114731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143462, rend_intergenic: 128372  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145331, rend_intergenic: 144185  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157350, rend_intergenic: 149895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170799, rend_intergenic: 162656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177074, rend_intergenic: 171225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195136, rend_intergenic: 189338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199965, rend_intergenic: 196116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200972, rend_intergenic: 199981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support