-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_9135691-9322454

-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.35392_t
Valid prediction for GeneMark_model.35358_t
Valid prediction for GeneMark_model.35337_t
Valid prediction for snap_scaffold_8-snap.1795-T1
Valid prediction for GeneMark_model.35339_t
Valid prediction for GlimmerHMM_glimmerT_20716-T1
Valid prediction for GeneMark_model.35387_t
Valid prediction for GeneMark_model.35356_t
Valid prediction for snap_scaffold_8-snap.1809-T1
Valid prediction for snap_scaffold_8-snap.1823-T1
Valid prediction for Augustus_model.g13856.t1
Valid prediction for snap_scaffold_8-snap.1794-T1
Valid prediction for snap_scaffold_8-snap.1820-T1
Couldn't classify 34857, 35220
Sorry, prediction pasa_asmbl_52043.p1 fails validation.
(GAC)	 CA	34857-35220	GT	AGG
(GCT)	 AG	35520-35831	GT	GGG
(GAG)	 AG	36136-36512	CA	AGC
-recovered pasa_asmbl_52043.p1, terminal, 36136, 36512
-recovered pasa_asmbl_52043.p1, internal, 35520, 35831
Valid prediction for snap_scaffold_8-snap.1802-T1
Valid prediction for HiQ_model.g13847.t1
Valid prediction for snap_scaffold_8-snap.1790-T1
Couldn't classify 128898, 129622
Couldn't classify 134410, 134472
Sorry, prediction pasa_asmbl_52048.p1 fails validation.
(TAC)	 AG	128898-129622	GT	TCG
(GAA)	 AG	130266-130374	GT	CCG
(GAA)	 AG	130756-130851	GT	TGG
(CAA)	 AG	131684-131761	GT	AGG
(ATC)	 AG	133001-133066	GT	AGG
(CCC)	 AG	133391-133459	GT	AGG
(GGC)	 AG	133550-133621	GT	CAG
(TAT)	 AG	133950-134066	GT	AGG
(ACA)	 AG	134410-134472	GG	AGG
-recovered pasa_asmbl_52048.p1, internal, 128898, 129622
-recovered pasa_asmbl_52048.p1, internal, 130266, 130374
-recovered pasa_asmbl_52048.p1, internal, 130756, 130851
-recovered pasa_asmbl_52048.p1, internal, 131684, 131761
-recovered pasa_asmbl_52048.p1, internal, 133001, 133066
-recovered pasa_asmbl_52048.p1, internal, 133391, 133459
-recovered pasa_asmbl_52048.p1, internal, 133550, 133621
-recovered pasa_asmbl_52048.p1, internal, 133950, 134066
Valid prediction for snap_scaffold_8-snap.1799-T1
Valid prediction for GeneMark_model.35334_t
Valid prediction for snap_scaffold_8-snap.1821-T1
Valid prediction for GeneMark_model.35346_t
Valid prediction for GeneMark_model.35352_t
Valid prediction for GeneMark_model.35382_t
Valid prediction for Augustus_model.g13850.t1
Valid prediction for snap_scaffold_8-snap.1796-T1
Valid prediction for GeneMark_model.35373_t
Valid prediction for GeneMark_model.35375_t
Couldn't classify 135430, 135525
Couldn't classify 141458, 141557
Sorry, prediction pasa_asmbl_52049.p1 fails validation.
(GAG)	 AG	135430-135525	GT	AGG
(GGT)	 AG	136000-136082	GT	GGG
(GTT)	 AG	136853-136913	GT	CAG
(GTG)	 AG	137034-137147	GT	GGG
(GGC)	 AG	137277-137417	GT	AGG
(CTT)	 AG	138664-138742	GT	AGG
(AGG)	 AG	138946-139001	GT	GAG
(ACC)	 AG	139101-139163	GT	TGG
(TGT)	 AG	139412-139485	GT	AGG
(GTA)	 AG	139600-139711	GT	TGG
(GCG)	 AG	139813-140012	GT	GAG
(CCA)	 AG	141458-141557	TG	CCT
-recovered pasa_asmbl_52049.p1, internal, 135430, 135525
-recovered pasa_asmbl_52049.p1, internal, 136000, 136082
-recovered pasa_asmbl_52049.p1, internal, 136853, 136913
-recovered pasa_asmbl_52049.p1, internal, 137034, 137147
-recovered pasa_asmbl_52049.p1, internal, 137277, 137417
-recovered pasa_asmbl_52049.p1, internal, 138664, 138742
-recovered pasa_asmbl_52049.p1, internal, 138946, 139001
-recovered pasa_asmbl_52049.p1, internal, 139101, 139163
-recovered pasa_asmbl_52049.p1, internal, 139412, 139485
-recovered pasa_asmbl_52049.p1, internal, 139600, 139711
-recovered pasa_asmbl_52049.p1, internal, 139813, 140012
Valid prediction for GlimmerHMM_glimmerT_20701-T1
Valid prediction for GeneMark_model.35377_t
Couldn't classify 146145, 146177
Couldn't classify 150970, 151173
Sorry, prediction pasa_asmbl_52052.p1 fails validation.
(TTC)	 CC	146145-146177	GT	AGG
(GAG)	 AG	147680-147749	GT	CTG
(CCA)	 AG	150743-150783	GT	AGG
(GAG)	 AG	150970-151173	TA	GGT
-recovered pasa_asmbl_52052.p1, internal, 147680, 147749
-recovered pasa_asmbl_52052.p1, internal, 150743, 150783
Valid prediction for GeneMark_model.35364_t
Valid prediction for GeneMark_model.35380_t
Valid prediction for pasa_asmbl_52056.p1
Valid prediction for Augustus_model.g13855.t1
Valid prediction for pasa_asmbl_52039.p1
Valid prediction for GlimmerHMM_glimmerT_20705-T1
Valid prediction for GeneMark_model.35389_t
Valid prediction for GeneMark_model.35340_t
Valid prediction for snap_scaffold_8-snap.1808-T1
Valid prediction for GeneMark_model.35365_t
Valid prediction for Augustus_model.g13844.t1
Valid prediction for snap_scaffold_8-snap.1814-T1
Valid prediction for snap_scaffold_8-snap.1791-T1
Valid prediction for GeneMark_model.35354_t
Valid prediction for snap_scaffold_8-snap.1818-T1
Valid prediction for Augustus_model.g13859.t1
Valid prediction for CodingQuarry_transcript_59591-T1
Valid prediction for Augustus_model.g13858.t1
Valid prediction for GeneMark_model.35360_t
Valid prediction for GeneMark_model.35345_t
Valid prediction for snap_scaffold_8-snap.1789-T1
Valid prediction for GeneMark_model.35371_t
Valid prediction for GeneMark_model.35386_t
Valid prediction for GeneMark_model.35391_t
Valid prediction for GeneMark_model.35335_t
Valid prediction for snap_scaffold_8-snap.1797-T1
Valid prediction for GeneMark_model.35384_t
Valid prediction for GeneMark_model.35351_t
Valid prediction for snap_scaffold_8-snap.1803-T1
Valid prediction for GeneMark_model.35347_t
Valid prediction for GlimmerHMM_glimmerT_20695-T1
Valid prediction for GlimmerHMM_glimmerT_20714-T1
Valid prediction for Augustus_model.g13853.t1
Valid prediction for Augustus_model.g13846.t1
Valid prediction for GlimmerHMM_glimmerT_20712-T1
Valid prediction for GlimmerHMM_glimmerT_20696-T1
Valid prediction for GlimmerHMM_glimmerT_20711-T1
Valid prediction for snap_scaffold_8-snap.1806-T1
Valid prediction for Augustus_model.g13851.t1
Couldn't classify 155315, 155439
Sorry, prediction pasa_asmbl_52053.p1 fails validation.
(CCC)	 CC	155315-155439	GT	AGG
(GGC)	 AG	156216-156272	GT	AGG
(GCC)	 AG	157543-157577	GT	AGG
(TGT)	 AG	158413-158462	GT	AGG
(CTG)	 AG	158648-158768	GT	TGG
(TCC)	 AG	159357-159393	GT	CAG
(CGG)	 AG	159508-159607	GT	AGG
(GGC)	 AG	161437-161553	CC	GAC
-recovered pasa_asmbl_52053.p1, terminal, 161437, 161553
-recovered pasa_asmbl_52053.p1, internal, 156216, 156272
-recovered pasa_asmbl_52053.p1, internal, 157543, 157577
-recovered pasa_asmbl_52053.p1, internal, 158413, 158462
-recovered pasa_asmbl_52053.p1, internal, 158648, 158768
-recovered pasa_asmbl_52053.p1, internal, 159357, 159393
-recovered pasa_asmbl_52053.p1, internal, 159508, 159607
Valid prediction for GlimmerHMM_glimmerT_20697-T1
Valid prediction for GlimmerHMM_glimmerT_20702-T1
Valid prediction for GeneMark_model.35369_t
Valid prediction for GeneMark_model.35349_t
Valid prediction for HiQ_model.g13857.t1
Valid prediction for Augustus_model.g13848.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 Augustus_model.g13852.t1
Valid prediction for snap_scaffold_8-snap.1804-T1
Valid prediction for GeneMark_model.35367_t
Valid prediction for GeneMark_model.35348_t
Valid prediction for GeneMark_model.35341_t
Valid prediction for GeneMark_model.35338_t
Valid prediction for GeneMark_model.35388_t
Valid prediction for GlimmerHMM_glimmerT_20715-T1
Valid prediction for GeneMark_model.35385_t
Valid prediction for snap_scaffold_8-snap.1800-T1
Valid prediction for GeneMark_model.35362_t
Valid prediction for snap_scaffold_8-snap.1788-T1
Valid prediction for snap_scaffold_8-snap.1807-T1
Valid prediction for snap_scaffold_8-snap.1805-T1
Valid prediction for snap_scaffold_8-snap.1817-T1
Valid prediction for GeneMark_model.35353_t
Valid prediction for GeneMark_model.35379_t
Valid prediction for GlimmerHMM_glimmerT_20698-T1
Valid prediction for snap_scaffold_8-snap.1792-T1
Valid prediction for snap_scaffold_8-snap.1819-T1
Valid prediction for GlimmerHMM_glimmerT_20713-T1
Valid prediction for GlimmerHMM_glimmerT_20703-T1
Valid prediction for GeneMark_model.35359_t
Valid prediction for GlimmerHMM_glimmerT_20694-T1
Valid prediction for snap_scaffold_8-snap.1811-T1
Valid prediction for GeneMark_model.35363_t
Valid prediction for snap_scaffold_8-snap.1798-T1
Valid prediction for HiQ_model.g13849.t1
Valid prediction for GlimmerHMM_glimmerT_20699-T1
Valid prediction for snap_scaffold_8-snap.1801-T1
Valid prediction for GeneMark_model.35336_t
Valid prediction for pasa_asmbl_53009.p1
Valid prediction for snap_scaffold_8-snap.1813-T1
Valid prediction for GlimmerHMM_glimmerT_20710-T1
Valid prediction for snap_scaffold_8-snap.1793-T1
Valid prediction for Augustus_model.g13854.t1
Valid prediction for Augustus_model.g13860.t1
Valid prediction for GeneMark_model.35342_t
Valid prediction for GeneMark_model.35390_t
Couldn't classify 40830, 41252
Sorry, prediction pasa_asmbl_52050.p2 fails validation.
(CAC)	 CT	40830-41252	TA	CAT
Valid prediction for snap_scaffold_8-snap.1812-T1
Valid prediction for GeneMark_model.35378_t
Valid prediction for snap_scaffold_8-snap.1816-T1
Valid prediction for GeneMark_model.35361_t
Valid prediction for GlimmerHMM_glimmerT_20704-T1
Valid prediction for GlimmerHMM_glimmerT_20708-T1
Valid prediction for GeneMark_model.35383_t
Valid prediction for GeneMark_model.35376_t
Valid prediction for pasa_asmbl_53018.p1
Valid prediction for GlimmerHMM_glimmerT_20706-T1
Valid prediction for CodingQuarry_transcript_59588-T1
Valid prediction for GeneMark_model.35333_t
Valid prediction for GlimmerHMM_glimmerT_20700-T1
Valid prediction for snap_scaffold_8-snap.1822-T1
Valid prediction for GlimmerHMM_glimmerT_20707-T1
Valid prediction for HiQ_model.g13845.t1
Valid prediction for GeneMark_model.35344_t
Valid prediction for GlimmerHMM_glimmerT_20709-T1
Valid prediction for CodingQuarry_transcript_59587-T1
Valid prediction for GeneMark_model.35374_t
Valid prediction for pasa_asmbl_53012.p1
Valid prediction for GeneMark_model.35350_t
Valid prediction for GeneMark_model.35357_t
Valid prediction for GeneMark_model.35372_t
Valid prediction for snap_scaffold_8-snap.1815-T1
Valid prediction for GlimmerHMM_glimmerT_20717-T1
Valid prediction for snap_scaffold_8-snap.1810-T1
Valid prediction for GeneMark_model.35366_t
Valid prediction for GeneMark_model.35370_t
Valid prediction for CodingQuarry_transcript_59589-T1
Valid prediction for GeneMark_model.35355_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 33591, rend_intergenic: 30605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45777, rend_intergenic: 44273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51604, rend_intergenic: 46610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62448, rend_intergenic: 58144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90371, rend_intergenic: 75049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100371, rend_intergenic: 97225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106186, rend_intergenic: 100616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128003, rend_intergenic: 106961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145712, rend_intergenic: 132573  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152734, rend_intergenic: 145744  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160210, rend_intergenic: 152804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184562, rend_intergenic: 176106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 186764
-exon list size: 750


building trellis

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70.3    
70.5    
70.6    
70.7    
70.9    
71.0    
71.1    
71.3    
71.4    
71.5    
71.7    
71.8    
71.9    
72.1    
72.2    
72.3    
72.5    
72.6    
72.7    
72.9    
73.0    
73.1    
73.3    
73.4    
73.5    
73.7    
73.8    
73.9    
74.1    
74.2    
74.3    
74.5    
74.6    
74.7    
74.9    
75.0    
75.1    
75.3    
75.4    
75.5    
75.7    
75.8    
75.9    
76.1    
76.2    
76.3    
76.5    
76.6    
76.7    
76.9    
77.0    
77.1    
77.3    
77.4    
77.5    
77.7    
77.8    
77.9    
78.1    
78.2    
78.3    
78.5    
78.6    
78.7    
78.9    
79.0    
79.1    
79.3    
79.4    
79.5    
79.7    
79.8    
79.9    
80.1    
80.2    
80.3    
80.5    
80.6    
80.7    
80.9    
81.0    
81.1    
81.2    
81.4    
81.5    
81.6    
81.8    
81.9    
82.0    
82.2    
82.3    
82.4    
82.6    
82.7    
82.8    
83.0    
83.1    
83.2    
83.4    
83.5    
83.6    
83.8    
83.9    
84.0    
84.2    
84.3    
84.4    
84.6    
84.7    
84.8    
85.0    
85.1    
85.2    
85.4    
85.5    
85.6    
85.8    
85.9    
86.0    
86.2    
86.3    
86.4    
86.6    
86.7    
86.8    
87.0    
87.1    
87.2    
87.4    
87.5    
87.6    
87.8    
87.9    
88.0    
88.2    
88.3    
88.4    
88.6    
88.7    
88.8    
89.0    
89.1    
89.2    
89.4    
89.5    
89.6    
89.8    
89.9    
90.0    
90.2    
90.3    
90.4    
90.6    
90.7    
90.8    
91.0    
91.1    
91.2    
91.4    
91.5    
91.6    
91.8    
91.9    
92.0    
92.2    
92.3    
92.4    
92.6    
92.7    
92.8    
93.0    
93.1    
93.2    
93.4    
93.5    
93.6    
93.8    
93.9    
94.0    
94.1    
94.3    
94.4    
94.5    
94.7    
94.8    
94.9    
95.1    
95.2    
95.3    
95.5    
95.6    
95.7    
95.9    
96.0    
96.1    
96.3    
96.4    
96.5    
96.7    
96.8    
96.9    
97.1    
97.2    
97.3    
97.5    
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 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 33591, rend_intergenic: 30605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45777, rend_intergenic: 44273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51604, rend_intergenic: 46610  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62448, rend_intergenic: 58144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90371, rend_intergenic: 75049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100371, rend_intergenic: 97225  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106186, rend_intergenic: 100616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128003, rend_intergenic: 106961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145712, rend_intergenic: 132573  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152734, rend_intergenic: 145744  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160210, rend_intergenic: 152804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184562, rend_intergenic: 176106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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