-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_26/scaffold_26_5056120-5186944

-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_26-snap.1136-T1
Valid prediction for Augustus_model.g37936.t1
Valid prediction for GlimmerHMM_glimmerT_56957-T1
Valid prediction for snap_scaffold_26-snap.1138-T1
Valid prediction for GeneMark_model.99447_t
Valid prediction for GeneMark_model.99468_t
Valid prediction for GeneMark_model.99462_t
Valid prediction for GlimmerHMM_glimmerT_56951-T1
Couldn't classify 13159, 13266
Couldn't classify 14505, 14654
Sorry, prediction pasa_asmbl_35882.p1 fails validation.
(CCT)	 AG	13159-13266	GT	TGG
(ACA)	 AG	13386-13545	GT	AGG
(GGG)	 AG	13731-13870	GT	AGG
(ATC)	 AG	14015-14170	GT	AGG
(GTG)	 AG	14281-14358	GT	AGG
(ATC)	 AG	14505-14654	AT	AGA
-recovered pasa_asmbl_35882.p1, internal, 13159, 13266
-recovered pasa_asmbl_35882.p1, internal, 13386, 13545
-recovered pasa_asmbl_35882.p1, internal, 13731, 13870
-recovered pasa_asmbl_35882.p1, internal, 14015, 14170
-recovered pasa_asmbl_35882.p1, internal, 14281, 14358
Valid prediction for GeneMark_model.99466_t
Valid prediction for GlimmerHMM_glimmerT_56954-T1
Valid prediction for GeneMark_model.99438_t
Couldn't classify 897, 1027
Couldn't classify 2036, 2165
Sorry, prediction pasa_asmbl_35485.p1 fails validation.
(CAG)	 TC	897-1027	GT	GGG
(AGC)	 AG	1415-1601	GT	AGG
(ACG)	 AG	1765-1934	GT	AGG
(GTT)	 AG	2036-2165	GC	CGG
-recovered pasa_asmbl_35485.p1, internal, 1415, 1601
-recovered pasa_asmbl_35485.p1, internal, 1765, 1934
-recovered pasa_asmbl_35485.p1, internal, 2036, 2165
Valid prediction for Augustus_model.g37940.t1
Valid prediction for snap_scaffold_26-snap.1147-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for Augustus_model.g37929.t1
Valid prediction for GeneMark_model.99464_t
Valid prediction for Augustus_model.g37935.t1
Valid prediction for GlimmerHMM_glimmerT_56944-T1
Valid prediction for GeneMark_model.99449_t
Valid prediction for GeneMark_model.99439_t
Valid prediction for snap_scaffold_26-snap.1134-T1
Couldn't classify 108554, 108602
Sorry, prediction pasa_asmbl_35495.p1 fails validation.
(ACT)	 CC	108554-108602	GT	AGG
(TCG)	 AG	108711-108977	GT	AGG
(GTA)	 AG	109087-109258	GT	CGG
(GTC)	 AG	109478-109869	GT	CGG
(CCC)	 AG	112129-112250	GT	GCG
(GAG)	 AG	112413-112609	GT	AGG
(GTC)	 AG	112698-112829	GT	GGG
(CAT)	 AG	112979-113112	GT	CAG
(ACG)	 AG	113261-113314	GT	AGG
(GAC)	 AG	113571-113771	GT	AGG
(GTG)	 AG	113916-114092	GT	CGG
(GCT)	 AG	114188-114366	GA	GAG
-recovered pasa_asmbl_35495.p1, terminal, 114188, 114366
-recovered pasa_asmbl_35495.p1, internal, 108711, 108977
-recovered pasa_asmbl_35495.p1, internal, 109087, 109258
-recovered pasa_asmbl_35495.p1, internal, 109478, 109869
-recovered pasa_asmbl_35495.p1, internal, 112129, 112250
-recovered pasa_asmbl_35495.p1, internal, 112413, 112609
-recovered pasa_asmbl_35495.p1, internal, 112698, 112829
-recovered pasa_asmbl_35495.p1, internal, 112979, 113112
-recovered pasa_asmbl_35495.p1, internal, 113261, 113314
-recovered pasa_asmbl_35495.p1, internal, 113571, 113771
-recovered pasa_asmbl_35495.p1, internal, 113916, 114092
Valid prediction for Augustus_model.g37939.t1
Valid prediction for Augustus_model.g37930.t1
Valid prediction for Augustus_model.g37937.t1
Valid prediction for snap_scaffold_26-snap.1139-T1
Valid prediction for snap_scaffold_26-snap.1149-T1
Valid prediction for snap_scaffold_26-snap.1142-T1
Valid prediction for GlimmerHMM_glimmerT_56960-T1
Couldn't classify 9127, 9195
Couldn't classify 12596, 12696
Sorry, prediction pasa_asmbl_35487.p1 fails validation.
(CTG)	 AG	9127-9195	GT	AGG
(CTC)	 AG	9323-9397	GT	AGG
(GAG)	 AG	9521-9655	GT	TGG
(GAG)	 AG	9735-9779	GT	CGG
(CTC)	 AG	9861-10014	GT	AGG
(CAG)	 AG	10102-10334	GT	AGG
(GCT)	 AG	10516-10689	GT	AGG
(CTC)	 AG	10783-10830	GT	AGG
(TCG)	 AG	10945-11081	GT	CTG
(TTT)	 AG	11207-11263	GT	AGG
(TGG)	 AG	11358-11436	GT	AGG
(GCC)	 AG	11595-11777	GT	TGG
(GCG)	 AG	11883-11928	GT	CAG
(CCA)	 AG	12031-12137	GT	CTG
(CCT)	 AG	12303-12489	GT	AGG
(CTC)	 AG	12596-12696	CA	CCC
-recovered pasa_asmbl_35487.p1, internal, 9127, 9195
-recovered pasa_asmbl_35487.p1, internal, 9323, 9397
-recovered pasa_asmbl_35487.p1, internal, 9521, 9655
-recovered pasa_asmbl_35487.p1, internal, 9735, 9779
-recovered pasa_asmbl_35487.p1, internal, 9861, 10014
-recovered pasa_asmbl_35487.p1, internal, 10102, 10334
-recovered pasa_asmbl_35487.p1, internal, 10516, 10689
-recovered pasa_asmbl_35487.p1, internal, 10783, 10830
-recovered pasa_asmbl_35487.p1, internal, 10945, 11081
-recovered pasa_asmbl_35487.p1, internal, 11207, 11263
-recovered pasa_asmbl_35487.p1, internal, 11358, 11436
-recovered pasa_asmbl_35487.p1, internal, 11595, 11777
-recovered pasa_asmbl_35487.p1, internal, 11883, 11928
-recovered pasa_asmbl_35487.p1, internal, 12031, 12137
-recovered pasa_asmbl_35487.p1, internal, 12303, 12489
Valid prediction for GlimmerHMM_glimmerT_56956-T1
Couldn't classify 94226, 94330
Couldn't classify 98244, 98265
Sorry, prediction pasa_asmbl_35491.p1 fails validation.
(AAG)	 CC	94226-94330	GT	CGG
(GAG)	 AG	94481-94619	GT	GGG
(GTG)	 AG	95749-96175	GT	AGG
(GAT)	 AG	98244-98265	CT	GCC
-recovered pasa_asmbl_35491.p1, internal, 94481, 94619
-recovered pasa_asmbl_35491.p1, internal, 95749, 96175
Couldn't classify 98874, 99003
Couldn't classify 101453, 101548
Sorry, prediction pasa_asmbl_35492.p1 fails validation.
(CAG)	 CC	98874-99003	GT	CGG
(ACA)	 AG	100430-100600	GT	CAG
(CTC)	 AG	101184-101311	GT	AGG
(GGC)	 AG	101453-101548	GT	AAG
-recovered pasa_asmbl_35492.p1, internal, 100430, 100600
-recovered pasa_asmbl_35492.p1, internal, 101184, 101311
-recovered pasa_asmbl_35492.p1, internal, 101453, 101548
Valid prediction for snap_scaffold_26-snap.1144-T1
Valid prediction for GeneMark_model.99441_t
Valid prediction for CodingQuarry_transcript_40245-T1
Valid prediction for snap_scaffold_26-snap.1125-T1
Valid prediction for Augustus_model.g37932.t1
Couldn't classify 7410, 7535
Couldn't classify 8546, 8618
Sorry, prediction pasa_asmbl_35836.p2 fails validation.
(GAG)	 CA	7410-7535	GT	AGG
(GAG)	 AG	8256-8452	GT	AGG
(ACT)	 AG	8546-8618	GC	CCG
-recovered pasa_asmbl_35836.p2, internal, 8256, 8452
-recovered pasa_asmbl_35836.p2, internal, 8546, 8618
Valid prediction for snap_scaffold_26-snap.1148-T1
Couldn't classify 102037, 102120
Couldn't classify 107259, 107351
Sorry, prediction pasa_asmbl_35493.p1 fails validation.
(GGA)	 AG	102037-102120	GT	AGG
(GGC)	 AG	104380-104530	GT	CCG
(GCT)	 AG	104644-104793	GT	GGG
(GGC)	 AG	104900-104986	GT	AGG
(GTA)	 AG	105089-105333	GT	AGG
(GGC)	 AG	107259-107351	CC	CCC
-recovered pasa_asmbl_35493.p1, internal, 102037, 102120
-recovered pasa_asmbl_35493.p1, internal, 104380, 104530
-recovered pasa_asmbl_35493.p1, internal, 104644, 104793
-recovered pasa_asmbl_35493.p1, internal, 104900, 104986
-recovered pasa_asmbl_35493.p1, internal, 105089, 105333
Couldn't classify 5151, 5195
Couldn't classify 5712, 5835
Sorry, prediction pasa_asmbl_35486.p1 fails validation.
(AGC)	 GA	5151-5195	GT	AGG
(GAG)	 AG	5289-5578	GT	AGG
(GTT)	 AG	5712-5835	CA	CCC
-recovered pasa_asmbl_35486.p1, internal, 5289, 5578
Valid prediction for Augustus_model.g37927.t1
Valid prediction for GlimmerHMM_glimmerT_56962-T1
Valid prediction for GeneMark_model.99443_t
Valid prediction for GlimmerHMM_glimmerT_56943-T1
Valid prediction for Augustus_model.g37933.t1
Valid prediction for GlimmerHMM_glimmerT_56961-T1
Valid prediction for GlimmerHMM_glimmerT_56946-T1
Valid prediction for snap_scaffold_26-snap.1129-T1
Valid prediction for GeneMark_model.99445_t
Valid prediction for GlimmerHMM_glimmerT_56947-T1
Valid prediction for GeneMark_model.99434_t
Valid prediction for GeneMark_model.99452_t
Valid prediction for GeneMark_model.99457_t
Valid prediction for snap_scaffold_26-snap.1153-T1
Valid prediction for GlimmerHMM_glimmerT_56949-T1
Valid prediction for snap_scaffold_26-snap.1156-T1
Valid prediction for GeneMark_model.99459_t
Valid prediction for GeneMark_model.99435_t
Valid prediction for snap_scaffold_26-snap.1132-T1
Valid prediction for GeneMark_model.99470_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.99450_t
Valid prediction for GeneMark_model.99458_t
Valid prediction for GeneMark_model.99444_t
Valid prediction for Augustus_model.g37931.t1
Valid prediction for GlimmerHMM_glimmerT_56965-T1
Valid prediction for GeneMark_model.99461_t
Valid prediction for GeneMark_model.99455_t
Valid prediction for GeneMark_model.99463_t
Valid prediction for Augustus_model.g37941.t1
Valid prediction for GeneMark_model.99446_t
Valid prediction for GlimmerHMM_glimmerT_56959-T1
Valid prediction for GeneMark_model.99465_t
Valid prediction for GeneMark_model.99440_t
Valid prediction for GeneMark_model.99467_t
Valid prediction for snap_scaffold_26-snap.1154-T1
Valid prediction for GeneMark_model.99436_t
Valid prediction for Augustus_model.g37934.t1
Valid prediction for snap_scaffold_26-snap.1146-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_26-snap.1152-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for CodingQuarry_transcript_40246-T1
Valid prediction for GlimmerHMM_glimmerT_56952-T1
Valid prediction for GlimmerHMM_glimmerT_56958-T1
Valid prediction for Augustus_model.g37938.t1
Valid prediction for GlimmerHMM_glimmerT_56963-T1
Valid prediction for snap_scaffold_26-snap.1133-T1
Valid prediction for GeneMark_model.99460_t
Valid prediction for snap_scaffold_26-snap.1131-T1
Couldn't classify 4981, 5090
Sorry, prediction pasa_asmbl_34880.p2 fails validation.
(CTG)	 AG	4981-5090	GT	AAG
(GTG)	 AG	5287-5620	AA	AGA
-recovered pasa_asmbl_34880.p2, terminal, 5287, 5620
-recovered pasa_asmbl_34880.p2, internal, 4981, 5090
Valid prediction for GeneMark_model.99442_t
Valid prediction for GlimmerHMM_glimmerT_56955-T1
Valid prediction for GeneMark_model.99433_t
Valid prediction for GlimmerHMM_glimmerT_56953-T1
Valid prediction for Augustus_model.g37942.t1
Valid prediction for snap_scaffold_26-snap.1137-T1
Valid prediction for GeneMark_model.99471_t
Valid prediction for GeneMark_model.99432_t
Valid prediction for GlimmerHMM_glimmerT_56945-T1
Valid prediction for snap_scaffold_26-snap.1143-T1
Valid prediction for GlimmerHMM_glimmerT_56950-T1
Valid prediction for snap_scaffold_26-snap.1151-T1
Valid prediction for snap_scaffold_26-snap.1130-T1
Valid prediction for snap_scaffold_26-snap.1140-T1
Valid prediction for GeneMark_model.99437_t
Valid prediction for snap_scaffold_26-snap.1126-T1
Valid prediction for snap_scaffold_26-snap.1150-T1
Valid prediction for snap_scaffold_26-snap.1128-T1
Valid prediction for GeneMark_model.99456_t
Valid prediction for snap_scaffold_26-snap.1141-T1
Valid prediction for GlimmerHMM_glimmerT_56948-T1
Valid prediction for snap_scaffold_26-snap.1127-T1
Valid prediction for snap_scaffold_26-snap.1155-T1
Valid prediction for snap_scaffold_26-snap.1135-T1
Valid prediction for GeneMark_model.99448_t
Valid prediction for GeneMark_model.99451_t
Valid prediction for GeneMark_model.99469_t
Valid prediction for Augustus_model.g37928.t1
Valid prediction for snap_scaffold_26-snap.1145-T1
Valid prediction for GeneMark_model.99454_t
Valid prediction for GlimmerHMM_glimmerT_56964-T1
Valid prediction for GeneMark_model.99453_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14675, rend_intergenic: 12240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22175, rend_intergenic: 19603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26153, rend_intergenic: 22647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31724, rend_intergenic: 26499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39271, rend_intergenic: 37833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44350, rend_intergenic: 39936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51103, rend_intergenic: 46553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64746, rend_intergenic: 62570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73798, rend_intergenic: 65781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85327, rend_intergenic: 73802  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116580, rend_intergenic: 85892  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 130825
-exon list size: 672


building trellis

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64.5    
64.7    
64.8    
65.0    
65.1    
65.3    
65.4    
65.6    
65.7    
65.9    
66.0    
66.2    
66.3    
66.5    
66.6    
66.8    
66.9    
67.1    
67.2    
67.4    
67.5    
67.7    
67.8    
68.0    
68.1    
68.2    
68.4    
68.5    
68.7    
68.8    
69.0    
69.1    
69.3    
69.4    
69.6    
69.7    
69.9    
70.0    
70.2    
70.3    
70.5    
70.6    
70.8    
70.9    
71.1    
71.2    
71.4    
71.5    
71.7    
71.8    
72.0    
72.1    
72.3    
72.4    
72.6    
72.7    
72.8    
73.0    
73.1    
73.3    
73.4    
73.6    
73.7    
73.9    
74.0    
74.2    
74.3    
74.5    
74.6    
74.8    
74.9    
75.1    
75.2    
75.4    
75.5    
75.7    
75.8    
76.0    
76.1    
76.3    
76.4    
76.6    
76.7    
76.9    
77.0    
77.2    
77.3    
77.4    
77.6    
77.7    
77.9    
78.0    
78.2    
78.3    
78.5    
78.6    
78.8    
78.9    
79.1    
79.2    
79.4    
79.5    
79.7    
79.8    
80.0    
80.1    
80.3    
80.4    
80.6    
80.7    
80.9    
81.0    
81.2    
81.3    
81.5    
81.6    
81.8    
81.9    
82.0    
82.2    
82.3    
82.5    
82.6    
82.8    
82.9    
83.1    
83.2    
83.4    
83.5    
83.7    
83.8    
84.0    
84.1    
84.3    
84.4    
84.6    
84.7    
84.9    
85.0    
85.2    
85.3    
85.5    
85.6    
85.8    
85.9    
86.1    
86.2    
86.4    
86.5    
86.6    
86.8    
86.9    
87.1    
87.2    
87.4    
87.5    
87.7    
87.8    
88.0    
88.1    
88.3    
88.4    
88.6    
88.7    
88.9    
89.0    
89.2    
89.3    
89.5    
89.6    
89.8    
89.9    
90.1    
90.2    
90.4    
90.5    
90.7    
90.8    
90.9    
91.1    
91.2    
91.4    
91.5    
91.7    
91.8    
92.0    
92.1    
92.3    
92.4    
92.6    
92.7    
92.9    
93.0    
93.2    
93.3    
93.5    
93.6    
93.8    
93.9    
94.1    
94.2    
94.4    
94.5    
94.7    
94.8    
95.0    
95.1    
95.3    
95.4    
95.5    
95.7    
95.8    
96.0    
96.1    
96.3    
96.4    
96.6    
96.7    
96.9    
97.0    
97.2    
97.3    
97.5    
97.6    
97.8    
97.9    
98.1    
98.2    
98.4    
98.5    
98.7    
98.8    
99.0    
99.1    
99.3    
99.4    
99.6    
99.7    
99.9    
-found 20 predictions from path traversal
Error with prediction: snap lend_intergenic: 14675, rend_intergenic: 12240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22175, rend_intergenic: 19603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26153, rend_intergenic: 22647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31724, rend_intergenic: 26499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39271, rend_intergenic: 37833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44350, rend_intergenic: 39936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51103, rend_intergenic: 46553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64746, rend_intergenic: 62570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73798, rend_intergenic: 65781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85327, rend_intergenic: 73802  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116580, rend_intergenic: 85892  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support