-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_14692179-14940487

-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_7-snap.2825-T1
Valid prediction for Augustus_model.g12820.t1
Valid prediction for snap_scaffold_7-snap.2826-T1
Valid prediction for snap_scaffold_7-snap.2795-T1
Valid prediction for GeneMark_model.31840_t
Valid prediction for GeneMark_model.31868_t
Valid prediction for GlimmerHMM_glimmerT_18975-T1
Valid prediction for GlimmerHMM_glimmerT_18981-T1
Valid prediction for GeneMark_model.31830_t
Valid prediction for snap_scaffold_7-snap.2799-T1
Valid prediction for Augustus_model.g12824.t1
Valid prediction for GeneMark_model.31859_t
Valid prediction for pasa_asmbl_51283.p1
Valid prediction for GeneMark_model.31838_t
Valid prediction for GeneMark_model.31869_t
Valid prediction for GeneMark_model.31845_t
Valid prediction for GlimmerHMM_glimmerT_18968-T1
Valid prediction for GeneMark_model.31854_t
Valid prediction for GlimmerHMM_glimmerT_18960-T1
Valid prediction for GeneMark_model.31820_t
Valid prediction for snap_scaffold_7-snap.2827-T1
Valid prediction for snap_scaffold_7-snap.2803-T1
Valid prediction for GlimmerHMM_glimmerT_18977-T1
Valid prediction for snap_scaffold_7-snap.2820-T1
Valid prediction for Augustus_model.g12822.t1
Valid prediction for GlimmerHMM_glimmerT_18978-T1
Valid prediction for snap_scaffold_7-snap.2801-T1
Valid prediction for GlimmerHMM_glimmerT_18951-T1
Valid prediction for GeneMark_model.31831_t
Valid prediction for GeneMark_model.31829_t
Valid prediction for snap_scaffold_7-snap.2809-T1
Valid prediction for GeneMark_model.31819_t
Valid prediction for snap_scaffold_7-snap.2804-T1
Valid prediction for snap_scaffold_7-snap.2821-T1
Valid prediction for GeneMark_model.31861_t
Valid prediction for GeneMark_model.31837_t
Valid prediction for GeneMark_model.31867_t
Valid prediction for snap_scaffold_7-snap.2824-T1
Valid prediction for snap_scaffold_7-snap.2793-T1
Valid prediction for GeneMark_model.31848_t
Valid prediction for GeneMark_model.31827_t
Valid prediction for HiQ_model.g12818.t1
Valid prediction for snap_scaffold_7-snap.2823-T1
Valid prediction for GlimmerHMM_glimmerT_18974-T1
Valid prediction for GlimmerHMM_glimmerT_18961-T1
Valid prediction for GeneMark_model.31824_t
Valid prediction for snap_scaffold_7-snap.2789-T1
Valid prediction for CodingQuarry_transcript_57570-T1
Valid prediction for GlimmerHMM_glimmerT_18950-T1
Valid prediction for GlimmerHMM_glimmerT_18949-T1
Valid prediction for GlimmerHMM_glimmerT_18967-T1
Valid prediction for GeneMark_model.31879_t
Valid prediction for snap_scaffold_7-snap.2811-T1
Valid prediction for GeneMark_model.31866_t
Valid prediction for GeneMark_model.31876_t
Valid prediction for GeneMark_model.31860_t
Valid prediction for GeneMark_model.31842_t
Valid prediction for snap_scaffold_7-snap.2817-T1
Valid prediction for GeneMark_model.31815_t
Valid prediction for Augustus_model.g12833.t1
Valid prediction for GlimmerHMM_glimmerT_18970-T1
Valid prediction for snap_scaffold_7-snap.2813-T1
Valid prediction for GlimmerHMM_glimmerT_18969-T1
Valid prediction for snap_scaffold_7-snap.2791-T1
Valid prediction for snap_scaffold_7-snap.2794-T1
Valid prediction for snap_scaffold_7-snap.2835-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_18971-T1
Valid prediction for GeneMark_model.31852_t
Valid prediction for GeneMark_model.31881_t
Couldn't classify 224775, 224831
Sorry, prediction pasa_asmbl_51286.p1 fails validation.
(CTG)	 TC	224775-224831	GT	AGG
(GCT)	 AG	225286-225435	GT	AGG
(CGG)	 AG	225556-225682	GT	TGG
(ATC)	 AG	227321-227409	GT	AGG
(AGT)	 AG	227994-228083	CA	AGC
-recovered pasa_asmbl_51286.p1, terminal, 227994, 228083
-recovered pasa_asmbl_51286.p1, internal, 225286, 225435
-recovered pasa_asmbl_51286.p1, internal, 225556, 225682
-recovered pasa_asmbl_51286.p1, internal, 227321, 227409
Valid prediction for Augustus_model.g12817.t1
Valid prediction for GeneMark_model.31856_t
Valid prediction for snap_scaffold_7-snap.2833-T1
Valid prediction for GeneMark_model.31873_t
Valid prediction for snap_scaffold_7-snap.2796-T1
Valid prediction for Augustus_model.g12831.t1
Valid prediction for GeneMark_model.31843_t
Valid prediction for snap_scaffold_7-snap.2815-T1
Valid prediction for GeneMark_model.31836_t
Valid prediction for snap_scaffold_7-snap.2818-T1
Valid prediction for GeneMark_model.31883_t
Valid prediction for GeneMark_model.31814_t
Valid prediction for GlimmerHMM_glimmerT_18966-T1
Valid prediction for GlimmerHMM_glimmerT_18965-T1
Valid prediction for GeneMark_model.31871_t
Valid prediction for GeneMark_model.31847_t
Valid prediction for GeneMark_model.31864_t
Valid prediction for GeneMark_model.31832_t
Valid prediction for Augustus_model.g12828.t1
Valid prediction for snap_scaffold_7-snap.2806-T1
Valid prediction for CodingQuarry_transcript_57571-T1
Valid prediction for snap_scaffold_7-snap.2828-T1
Valid prediction for snap_scaffold_7-snap.2832-T1
Valid prediction for GeneMark_model.31863_t
Valid prediction for GeneMark_model.31816_t
Valid prediction for Augustus_model.g12827.t1
Valid prediction for Augustus_model.g12821.t1
Valid prediction for Augustus_model.g12829.t1
Valid prediction for GeneMark_model.31850_t
Valid prediction for GeneMark_model.31857_t
Valid prediction for Augustus_model.g12825.t1
Valid prediction for GeneMark_model.31874_t
Valid prediction for GeneMark_model.31835_t
Valid prediction for GlimmerHMM_glimmerT_18954-T1
Valid prediction for GeneMark_model.31851_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 snap_scaffold_7-snap.2814-T1
Valid prediction for GeneMark_model.31884_t
Valid prediction for GlimmerHMM_glimmerT_18958-T1
Valid prediction for GeneMark_model.31833_t
Valid prediction for Augustus_model.g12835.t1
Valid prediction for HiQ_model.g12834.t1
Valid prediction for snap_scaffold_7-snap.2800-T1
Valid prediction for GlimmerHMM_glimmerT_18976-T1
Valid prediction for GeneMark_model.31875_t
Valid prediction for GlimmerHMM_glimmerT_18983-T1
Valid prediction for snap_scaffold_7-snap.2812-T1
Valid prediction for snap_scaffold_7-snap.2788-T1
Valid prediction for Augustus_model.g12832.t1
Valid prediction for snap_scaffold_7-snap.2802-T1
Valid prediction for GeneMark_model.31872_t
Valid prediction for snap_scaffold_7-snap.2836-T1
Valid prediction for GeneMark_model.31855_t
Valid prediction for Augustus_model.g12826.t1
Valid prediction for GeneMark_model.31870_t
Valid prediction for GlimmerHMM_glimmerT_18963-T1
Valid prediction for GlimmerHMM_glimmerT_18959-T1
Valid prediction for snap_scaffold_7-snap.2830-T1
Valid prediction for GeneMark_model.31818_t
Valid prediction for snap_scaffold_7-snap.2816-T1
Valid prediction for GeneMark_model.31882_t
Valid prediction for GlimmerHMM_glimmerT_18953-T1
Valid prediction for snap_scaffold_7-snap.2792-T1
Valid prediction for GeneMark_model.31865_t
Couldn't classify 2990, 3760
Sorry, prediction pasa_asmbl_50164.p1 fails validation.
(GAG)	 TG	2990-3760	GT	AGG
(GGG)	 AG	3853-3970	GT	AGG
(AGA)	 AG	5220-5331	GT	AAG
(ACG)	 AG	5498-5555	GT	GGG
(AAC)	 AG	8494-8523	CT	AGC
-recovered pasa_asmbl_50164.p1, terminal, 8494, 8523
-recovered pasa_asmbl_50164.p1, internal, 3853, 3970
-recovered pasa_asmbl_50164.p1, internal, 5220, 5331
-recovered pasa_asmbl_50164.p1, internal, 5498, 5555
Valid prediction for GeneMark_model.31862_t
Valid prediction for GeneMark_model.31825_t
Valid prediction for GlimmerHMM_glimmerT_18955-T1
Valid prediction for GlimmerHMM_glimmerT_18980-T1
Valid prediction for GlimmerHMM_glimmerT_18972-T1
Valid prediction for GlimmerHMM_glimmerT_18952-T1
Valid prediction for GeneMark_model.31846_t
Valid prediction for snap_scaffold_7-snap.2834-T1
Valid prediction for GeneMark_model.31844_t
Valid prediction for GeneMark_model.31877_t
Valid prediction for Augustus_model.g12819.t1
Valid prediction for snap_scaffold_7-snap.2805-T1
Valid prediction for GlimmerHMM_glimmerT_18957-T1
Valid prediction for GeneMark_model.31853_t
Valid prediction for GeneMark_model.31826_t
Valid prediction for GlimmerHMM_glimmerT_18964-T1
Valid prediction for GeneMark_model.31834_t
Valid prediction for GeneMark_model.31823_t
Valid prediction for GlimmerHMM_glimmerT_18962-T1
Valid prediction for Augustus_model.g12823.t1
Valid prediction for snap_scaffold_7-snap.2831-T1
Valid prediction for GeneMark_model.31878_t
Valid prediction for GeneMark_model.31817_t
Valid prediction for snap_scaffold_7-snap.2810-T1
Valid prediction for snap_scaffold_7-snap.2797-T1
Valid prediction for GlimmerHMM_glimmerT_18956-T1
Valid prediction for GlimmerHMM_glimmerT_18982-T1
Valid prediction for GeneMark_model.31839_t
Valid prediction for Augustus_model.g12830.t1
Valid prediction for GlimmerHMM_glimmerT_18973-T1
Valid prediction for GeneMark_model.31841_t
Valid prediction for GeneMark_model.31828_t
Valid prediction for GeneMark_model.31822_t
Valid prediction for GeneMark_model.31858_t
Valid prediction for GlimmerHMM_glimmerT_18979-T1
Valid prediction for snap_scaffold_7-snap.2829-T1
Valid prediction for GeneMark_model.31849_t
Valid prediction for snap_scaffold_7-snap.2790-T1
Valid prediction for GeneMark_model.31880_t
Valid prediction for snap_scaffold_7-snap.2819-T1
Valid prediction for snap_scaffold_7-snap.2822-T1
Valid prediction for snap_scaffold_7-snap.2807-T1
Valid prediction for snap_scaffold_7-snap.2808-T1
Valid prediction for snap_scaffold_7-snap.2798-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7635, rend_intergenic: 5756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20305, rend_intergenic: 16682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27957, rend_intergenic: 20543  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71193, rend_intergenic: 68308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75610, rend_intergenic: 74411  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85457, rend_intergenic: 75944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97638, rend_intergenic: 91490  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115742, rend_intergenic: 112686  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119894, rend_intergenic: 117099  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123277, rend_intergenic: 120361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142515, rend_intergenic: 125469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147833, rend_intergenic: 142731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149794, rend_intergenic: 148455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158695, rend_intergenic: 149794  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170943, rend_intergenic: 161076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171859, rend_intergenic: 171327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 221014, rend_intergenic: 173008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226303, rend_intergenic: 222500  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 234907, rend_intergenic: 229496  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245422, rend_intergenic: 241469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 248309
-exon list size: 972


building trellis

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58.2    
58.3    
58.4    
58.5    
58.6    
58.7    
58.8    
58.9    
59.0    
59.1    
59.2    
59.3    
59.4    
59.5    
59.7    
59.8    
59.9    
60.0    
60.1    
60.2    
60.3    
60.4    
60.5    
60.6    
60.7    
60.8    
60.9    
61.0    
61.1    
61.2    
61.3    
61.4    
61.5    
61.6    
61.7    
61.8    
61.9    
62.0    
62.1    
62.2    
62.3    
62.4    
62.5    
62.6    
62.7    
62.8    
62.9    
63.0    
63.1    
63.2    
63.3    
63.4    
63.6    
63.7    
63.8    
63.9    
64.0    
64.1    
64.2    
64.3    
64.4    
64.5    
64.6    
64.7    
64.8    
64.9    
65.0    
65.1    
65.2    
65.3    
65.4    
65.5    
65.6    
65.7    
65.8    
65.9    
66.0    
66.1    
66.2    
66.3    
66.4    
66.5    
66.6    
66.7    
66.8    
66.9    
67.0    
67.1    
67.2    
67.4    
67.5    
67.6    
67.7    
67.8    
67.9    
68.0    
68.1    
68.2    
68.3    
68.4    
68.5    
68.6    
68.7    
68.8    
68.9    
69.0    
69.1    
69.2    
69.3    
69.4    
69.5    
69.6    
69.7    
69.8    
69.9    
70.0    
70.1    
70.2    
70.3    
70.4    
70.5    
70.6    
70.7    
70.8    
70.9    
71.0    
71.1    
71.3    
71.4    
71.5    
71.6    
71.7    
71.8    
71.9    
72.0    
72.1    
72.2    
72.3    
72.4    
72.5    
72.6    
72.7    
72.8    
72.9    
73.0    
73.1    
73.2    
73.3    
73.4    
73.5    
73.6    
73.7    
73.8    
73.9    
74.0    
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    
76.0    
76.1    
76.2    
76.3    
76.4    
76.5    
76.6    
76.7    
76.8    
76.9    
77.0    
77.1    
77.2    
77.3    
77.4    
77.5    
77.6    
77.7    
77.8    
77.9    
78.0    
78.1    
78.2    
78.3    
78.4    
78.5    
78.6    
78.7    
78.9    
79.0    
79.1    
79.2    
79.3    
79.4    
79.5    
79.6    
79.7    
79.8    
79.9    
80.0    
80.1    
80.2    
80.3    
80.4    
80.5    
80.6    
80.7    
80.8    
80.9    
81.0    
81.1    
81.2    
81.3    
81.4    
81.5    
81.6    
81.7    
81.8    
81.9    
82.0    
82.1    
82.2    
82.3    
82.4    
82.5    
82.6    
82.8    
82.9    
83.0    
83.1    
83.2    
83.3    
83.4    
83.5    
83.6    
83.7    
83.8    
83.9    
84.0    
84.1    
84.2    
84.3    
84.4    
84.5    
84.6    
84.7    
84.8    
84.9    
85.0    
85.1    
85.2    
85.3    
85.4    
85.5    
85.6    
85.7    
85.8    
85.9    
86.0    
86.1    
86.2    
86.3    
86.4    
86.6    
86.7    
86.8    
86.9    
87.0    
87.1    
87.2    
87.3    
87.4    
87.5    
87.6    
87.7    
87.8    
87.9    
88.0    
88.1    
88.2    
88.3    
88.4    
88.5    
88.6    
88.7    
88.8    
88.9    
89.0    
89.1    
89.2    
89.3    
89.4    
89.5    
89.6    
89.7    
89.8    
89.9    
90.0    
90.1    
90.2    
90.3    
90.5    
90.6    
90.7    
90.8    
90.9    
91.0    
91.1    
91.2    
91.3    
91.4    
91.5    
91.6    
91.7    
91.8    
91.9    
92.0    
92.1    
92.2    
92.3    
92.4    
92.5    
92.6    
92.7    
92.8    
92.9    
93.0    
93.1    
93.2    
93.3    
93.4    
93.5    
93.6    
93.7    
93.8    
93.9    
94.0    
94.1    
94.3    
94.4    
94.5    
94.6    
94.7    
94.8    
94.9    
95.0    
95.1    
95.2    
95.3    
95.4    
95.5    
95.6    
95.7    
95.8    
95.9    
96.0    
96.1    
96.2    
96.3    
96.4    
96.5    
96.6    
96.7    
96.8    
96.9    
97.0    
97.1    
97.2    
97.3    
97.4    
97.5    
97.6    
97.7    
97.8    
97.9    
98.0    
98.2    
98.3    
98.4    
98.5    
98.6    
98.7    
98.8    
98.9    
99.0    
99.1    
99.2    
99.3    
99.4    
99.5    
99.6    
99.7    
99.8    
99.9    
-found 50 predictions from path traversal
Error with prediction: snap lend_intergenic: 7635, rend_intergenic: 5756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20305, rend_intergenic: 16682  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27957, rend_intergenic: 20543  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71193, rend_intergenic: 68308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75610, rend_intergenic: 74411  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85457, rend_intergenic: 75944  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97638, rend_intergenic: 91490  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115742, rend_intergenic: 112686  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119894, rend_intergenic: 117099  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123277, rend_intergenic: 120361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142515, rend_intergenic: 125469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147833, rend_intergenic: 142731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149794, rend_intergenic: 148455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158695, rend_intergenic: 149794  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170943, rend_intergenic: 161076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171859, rend_intergenic: 171327  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 221014, rend_intergenic: 173008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 226303, rend_intergenic: 222500  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 234907, rend_intergenic: 229496  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245422, rend_intergenic: 241469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support