-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_18116951-18333637

-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.32792_t
Valid prediction for snap_scaffold_7-snap.3550-T1
Valid prediction for GeneMark_model.32821_t
Valid prediction for snap_scaffold_7-snap.3543-T1
Valid prediction for GeneMark_model.32788_t
Valid prediction for snap_scaffold_7-snap.3529-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GeneMark_model.32826_t
Valid prediction for HiQ_model.g13045.t1
Valid prediction for GeneMark_model.32838_t
Valid prediction for GlimmerHMM_glimmerT_19393-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_7-snap.3545-T1
Valid prediction for GlimmerHMM_glimmerT_19379-T1
Valid prediction for GeneMark_model.32797_t
Valid prediction for GlimmerHMM_glimmerT_19381-T1
Valid prediction for GlimmerHMM_glimmerT_19370-T1
Valid prediction for GeneMark_model.32812_t
Valid prediction for GeneMark_model.32824_t
Valid prediction for Augustus_model.g13062.t1
Valid prediction for snap_scaffold_7-snap.3555-T1
Valid prediction for GeneMark_model.32807_t
Valid prediction for GeneMark_model.32793_t
Valid prediction for GeneMark_model.32819_t
Valid prediction for snap_scaffold_7-snap.3542-T1
Valid prediction for Augustus_model.g13051.t1
Valid prediction for Augustus_model.g13049.t1
Valid prediction for snap_scaffold_7-snap.3538-T1
Valid prediction for GlimmerHMM_glimmerT_19369-T1
Valid prediction for GlimmerHMM_glimmerT_19391-T1
Valid prediction for Augustus_model.g13052.t1
Valid prediction for snap_scaffold_7-snap.3549-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for snap_scaffold_7-snap.3531-T1
Valid prediction for GlimmerHMM_glimmerT_19366-T1
Valid prediction for GlimmerHMM_glimmerT_19367-T1
Valid prediction for GeneMark_model.32810_t
Valid prediction for GeneMark_model.32818_t
Valid prediction for GlimmerHMM_glimmerT_19374-T1
Valid prediction for GeneMark_model.32839_t
Valid prediction for CodingQuarry_transcript_57609-T1
Valid prediction for GeneMark_model.32814_t
Valid prediction for GeneMark_model.32785_t
Valid prediction for GeneMark_model.32836_t
Valid prediction for GlimmerHMM_glimmerT_19389-T1
Valid prediction for Augustus_model.g13054.t1
Valid prediction for snap_scaffold_7-snap.3524-T1
Valid prediction for GeneMark_model.32791_t
Couldn't classify 39213, 39323
Sorry, prediction pasa_asmbl_51404.p2 fails validation.
(GGG)	 CA	39213-39323	GT	AGG
(GCG)	 AG	41085-41459	AT	AGA
-recovered pasa_asmbl_51404.p2, terminal, 41085, 41459
Valid prediction for GeneMark_model.32822_t
Valid prediction for GeneMark_model.32783_t
Valid prediction for snap_scaffold_7-snap.3520-T1
Valid prediction for snap_scaffold_7-snap.3552-T1
Valid prediction for Augustus_model.g13047.t1
Valid prediction for GlimmerHMM_glimmerT_19394-T1
Valid prediction for GlimmerHMM_glimmerT_19390-T1
Valid prediction for snap_scaffold_7-snap.3553-T1
Valid prediction for GeneMark_model.32789_t
Valid prediction for GeneMark_model.32832_t
Valid prediction for GlimmerHMM_glimmerT_19365-T1
Valid prediction for snap_scaffold_7-snap.3518-T1
Valid prediction for GlimmerHMM_glimmerT_19378-T1
Couldn't classify 35283, 35412
Sorry, prediction pasa_asmbl_51403.p1 fails validation.
(ATG)	 GT	34686-34701	GT	AGG
(GTG)	 AG	34829-34921	GT	AGG
(TTT)	 AG	35074-35188	GT	AGG
(TGT)	 AG	35283-35412	GG	CAG
-recovered pasa_asmbl_51403.p1, initial, 34686, 34701
-recovered pasa_asmbl_51403.p1, internal, 34829, 34921
-recovered pasa_asmbl_51403.p1, internal, 35074, 35188
Valid prediction for Augustus_model.g13048.t1
Valid prediction for snap_scaffold_7-snap.3554-T1
Valid prediction for GlimmerHMM_glimmerT_19384-T1
Valid prediction for GeneMark_model.32801_t
Valid prediction for GlimmerHMM_glimmerT_19372-T1
Valid prediction for GeneMark_model.32795_t
Valid prediction for GeneMark_model.32809_t
Valid prediction for GlimmerHMM_glimmerT_19388-T1
Valid prediction for GlimmerHMM_glimmerT_19375-T1
Valid prediction for snap_scaffold_7-snap.3525-T1
Valid prediction for snap_scaffold_7-snap.3557-T1
Couldn't classify 8325, 8714
Sorry, prediction pasa_asmbl_51401.p1 fails validation.
(TTC)	 CC	8325-8714	GT	AGG
(GTT)	 AG	10376-10425	GT	AGG
(GTT)	 AG	10654-10876	GT	AGG
(GGC)	 AG	11108-11257	GT	AGG
(GCG)	 AG	11673-11801	GT	GGG
(AAT)	 AG	11940-12061	GT	AGG
(TTT)	 AG	12225-12327	GC	GAG
-recovered pasa_asmbl_51401.p1, terminal, 12225, 12327
-recovered pasa_asmbl_51401.p1, internal, 10376, 10425
-recovered pasa_asmbl_51401.p1, internal, 10654, 10876
-recovered pasa_asmbl_51401.p1, internal, 11108, 11257
-recovered pasa_asmbl_51401.p1, internal, 11673, 11801
-recovered pasa_asmbl_51401.p1, internal, 11940, 12061
-recovered pasa_asmbl_51401.p1, internal, 12225, 12327
Valid prediction for snap_scaffold_7-snap.3551-T1
Valid prediction for GeneMark_model.32828_t
Valid prediction for GeneMark_model.32799_t
Valid prediction for snap_scaffold_7-snap.3546-T1
Valid prediction for GeneMark_model.32787_t
Valid prediction for snap_scaffold_7-snap.3515-T1
Valid prediction for CodingQuarry_transcript_57608-T1
Valid prediction for Augustus_model.g13063.t1
Valid prediction for snap_scaffold_7-snap.3517-T1
Valid prediction for snap_scaffold_7-snap.3527-T1
Valid prediction for GeneMark_model.32834_t
Couldn't classify 48625, 49461
Couldn't classify 54560, 54613
Sorry, prediction pasa_asmbl_51508.p1 fails validation.
(ACC)	 CT	48625-49461	GT	AGG
(ATT)	 AG	50011-50080	GT	CGG
(CGG)	 AG	52144-52294	GT	ACG
(TGA)	 AG	53711-53789	GT	AGG
(GCG)	 AG	54560-54613	CA	AGC
-recovered pasa_asmbl_51508.p1, internal, 50011, 50080
-recovered pasa_asmbl_51508.p1, internal, 52144, 52294
-recovered pasa_asmbl_51508.p1, internal, 53711, 53789
Valid prediction for snap_scaffold_7-snap.3547-T1
Valid prediction for snap_scaffold_7-snap.3544-T1
Valid prediction for GeneMark_model.32782_t
Valid prediction for GeneMark_model.32803_t
Valid prediction for snap_scaffold_7-snap.3541-T1
Valid prediction for Augustus_model.g13050.t1
Valid prediction for snap_scaffold_7-snap.3536-T1
Valid prediction for GeneMark_model.32830_t
Couldn't classify 86600, 86644
Couldn't classify 88435, 88552
Couldn't classify 90874, 91082
Sorry, prediction pasa_asmbl_51406.p2 fails validation.
(AAA)	 AG	86600-86644	GT	AGG
(GAT)	 AG	88435-88552	AT	CCA
(AGT)	 AC	90874-91082	CC	GAC
-recovered pasa_asmbl_51406.p2, internal, 86600, 86644
Valid prediction for GeneMark_model.32816_t
Valid prediction for GeneMark_model.32805_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 GeneMark_model.32786_t
Valid prediction for GeneMark_model.32825_t
Valid prediction for GlimmerHMM_glimmerT_19376-T1
Valid prediction for snap_scaffold_7-snap.3526-T1
Valid prediction for GeneMark_model.32815_t
Valid prediction for snap_scaffold_7-snap.3535-T1
Valid prediction for snap_scaffold_7-snap.3539-T1
Valid prediction for snap_scaffold_7-snap.3533-T1
Valid prediction for GeneMark_model.32798_t
Valid prediction for GeneMark_model.32806_t
Valid prediction for snap_scaffold_7-snap.3532-T1
Valid prediction for GlimmerHMM_glimmerT_19373-T1
Valid prediction for Augustus_model.g13046.t1
Valid prediction for GlimmerHMM_glimmerT_19382-T1
Valid prediction for Augustus_model.g13053.t1
Valid prediction for GeneMark_model.32800_t
Valid prediction for GeneMark_model.32835_t
Valid prediction for GeneMark_model.32790_t
Valid prediction for snap_scaffold_7-snap.3548-T1
Valid prediction for GeneMark_model.32813_t
Valid prediction for GeneMark_model.32811_t
Valid prediction for GeneMark_model.32831_t
Valid prediction for snap_scaffold_7-snap.3540-T1
Valid prediction for GeneMark_model.32794_t
Valid prediction for GeneMark_model.32796_t
Valid prediction for snap_scaffold_7-snap.3523-T1
Valid prediction for Augustus_model.g13061.t1
Valid prediction for GeneMark_model.32820_t
Valid prediction for Augustus_model.g13060.t1
Valid prediction for snap_scaffold_7-snap.3534-T1
Valid prediction for GeneMark_model.32808_t
Valid prediction for snap_scaffold_7-snap.3519-T1
Valid prediction for snap_scaffold_7-snap.3530-T1
Valid prediction for pasa_asmbl_50277.p1
Valid prediction for GeneMark_model.32804_t
Valid prediction for GlimmerHMM_glimmerT_19377-T1
Valid prediction for GlimmerHMM_glimmerT_19383-T1
Valid prediction for snap_scaffold_7-snap.3537-T1
Valid prediction for GlimmerHMM_glimmerT_19380-T1
Valid prediction for snap_scaffold_7-snap.3522-T1
Valid prediction for snap_scaffold_7-snap.3559-T1
Valid prediction for GeneMark_model.32823_t
Valid prediction for GeneMark_model.32837_t
Valid prediction for GeneMark_model.32780_t
Valid prediction for GlimmerHMM_glimmerT_19385-T1
Valid prediction for Augustus_model.g13059.t1
Valid prediction for GeneMark_model.32781_t
Valid prediction for Augustus_model.g13058.t1
Valid prediction for GlimmerHMM_glimmerT_19368-T1
Valid prediction for snap_scaffold_7-snap.3556-T1
Valid prediction for snap_scaffold_7-snap.3521-T1
Valid prediction for GeneMark_model.32817_t
Valid prediction for GlimmerHMM_glimmerT_19386-T1
Valid prediction for Augustus_model.g13057.t1
Valid prediction for snap_scaffold_7-snap.3516-T1
Valid prediction for GlimmerHMM_glimmerT_19371-T1
Valid prediction for GeneMark_model.32829_t
Valid prediction for GeneMark_model.32784_t
Valid prediction for Augustus_model.g13055.t1
Valid prediction for GlimmerHMM_glimmerT_19364-T1
Valid prediction for snap_scaffold_7-snap.3528-T1
Valid prediction for GeneMark_model.32827_t
Valid prediction for GeneMark_model.32802_t
Valid prediction for GlimmerHMM_glimmerT_19392-T1
Valid prediction for GlimmerHMM_glimmerT_19387-T1
Valid prediction for GeneMark_model.32833_t
Valid prediction for Augustus_model.g13056.t1
Valid prediction for snap_scaffold_7-snap.3558-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8300, rend_intergenic: 7558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11145, rend_intergenic: 8340  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22700, rend_intergenic: 17862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41552, rend_intergenic: 40249  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52325, rend_intergenic: 44980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70303, rend_intergenic: 56953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97020, rend_intergenic: 74284  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103197, rend_intergenic: 98517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129959, rend_intergenic: 114983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166970, rend_intergenic: 132980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 175147, rend_intergenic: 169195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203313, rend_intergenic: 176005  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206412, rend_intergenic: 203538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210334, rend_intergenic: 207275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 216687
-exon list size: 900


building trellis

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64.4    
64.5    
64.6    
64.7    
64.9    
65.0    
65.1    
65.2    
65.3    
65.4    
65.5    
65.6    
65.7    
65.9    
66.0    
66.1    
66.2    
66.3    
66.4    
66.5    
66.6    
66.7    
66.9    
67.0    
67.1    
67.2    
67.3    
67.4    
67.5    
67.6    
67.7    
67.8    
68.0    
68.1    
68.2    
68.3    
68.4    
68.5    
68.6    
68.7    
68.8    
69.0    
69.1    
69.2    
69.3    
69.4    
69.5    
69.6    
69.7    
69.8    
70.0    
70.1    
70.2    
70.3    
70.4    
70.5    
70.6    
70.7    
70.8    
71.0    
71.1    
71.2    
71.3    
71.4    
71.5    
71.6    
71.7    
71.8    
72.0    
72.1    
72.2    
72.3    
72.4    
72.5    
72.6    
72.7    
72.8    
72.9    
73.1    
73.2    
73.3    
73.4    
73.5    
73.6    
73.7    
73.8    
73.9    
74.1    
74.2    
74.3    
74.4    
74.5    
74.6    
74.7    
74.8    
74.9    
75.1    
75.2    
75.3    
75.4    
75.5    
75.6    
75.7    
75.8    
75.9    
76.1    
76.2    
76.3    
76.4    
76.5    
76.6    
76.7    
76.8    
76.9    
77.1    
77.2    
77.3    
77.4    
77.5    
77.6    
77.7    
77.8    
77.9    
78.0    
78.2    
78.3    
78.4    
78.5    
78.6    
78.7    
78.8    
78.9    
79.0    
79.2    
79.3    
79.4    
79.5    
79.6    
79.7    
79.8    
79.9    
80.0    
80.2    
80.3    
80.4    
80.5    
80.6    
80.7    
80.8    
80.9    
81.0    
81.2    
81.3    
81.4    
81.5    
81.6    
81.7    
81.8    
81.9    
82.0    
82.2    
82.3    
82.4    
82.5    
82.6    
82.7    
82.8    
82.9    
83.0    
83.1    
83.3    
83.4    
83.5    
83.6    
83.7    
83.8    
83.9    
84.0    
84.1    
84.3    
84.4    
84.5    
84.6    
84.7    
84.8    
84.9    
85.0    
85.1    
85.3    
85.4    
85.5    
85.6    
85.7    
85.8    
85.9    
86.0    
86.1    
86.3    
86.4    
86.5    
86.6    
86.7    
86.8    
86.9    
87.0    
87.1    
87.3    
87.4    
87.5    
87.6    
87.7    
87.8    
87.9    
88.0    
88.1    
88.2    
88.4    
88.5    
88.6    
88.7    
88.8    
88.9    
89.0    
89.1    
89.2    
89.4    
89.5    
89.6    
89.7    
89.8    
89.9    
90.0    
90.1    
90.2    
90.4    
90.5    
90.6    
90.7    
90.8    
90.9    
91.0    
91.1    
91.2    
91.4    
91.5    
91.6    
91.7    
91.8    
91.9    
92.0    
92.1    
92.2    
92.4    
92.5    
92.6    
92.7    
92.8    
92.9    
93.0    
93.1    
93.2    
93.3    
93.5    
93.6    
93.7    
93.8    
93.9    
94.0    
94.1    
94.2    
94.3    
94.5    
94.6    
94.7    
94.8    
94.9    
95.0    
95.1    
95.2    
95.3    
95.5    
95.6    
95.7    
95.8    
95.9    
96.0    
96.1    
96.2    
96.3    
96.5    
96.6    
96.7    
96.8    
96.9    
97.0    
97.1    
97.2    
97.3    
97.5    
97.6    
97.7    
97.8    
97.9    
98.0    
98.1    
98.2    
98.3    
98.4    
98.6    
98.7    
98.8    
98.9    
99.0    
99.1    
99.2    
99.3    
99.4    
99.6    
99.7    
99.8    
99.9    
-found 42 predictions from path traversal
Error with prediction: snap lend_intergenic: 8300, rend_intergenic: 7558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11145, rend_intergenic: 8340  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22700, rend_intergenic: 17862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41552, rend_intergenic: 40249  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52325, rend_intergenic: 44980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70303, rend_intergenic: 56953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97020, rend_intergenic: 74284  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103197, rend_intergenic: 98517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129959, rend_intergenic: 114983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166970, rend_intergenic: 132980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 175147, rend_intergenic: 169195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203313, rend_intergenic: 176005  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206412, rend_intergenic: 203538  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210334, rend_intergenic: 207275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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