-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_26/scaffold_26_5020261-5186944

-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 Augustus_model.g36847.t1
Valid prediction for Augustus_model.g36851.t1
Valid prediction for HiQ_model.g36844.t1
Valid prediction for GlimmerHMM_glimmerT_55638-T1
Valid prediction for snap_scaffold_26-snap.1114-T1
Valid prediction for snap_scaffold_26-snap.1126-T1
Valid prediction for GlimmerHMM_glimmerT_55621-T1
Valid prediction for GlimmerHMM_glimmerT_55620-T1
Couldn't classify 130085, 130189
Couldn't classify 134103, 134124
Sorry, prediction pasa_asmbl_34965.p1 fails validation.
(AAG)	 CC	130085-130189	GT	CGG
(GAG)	 AG	130340-130478	GT	GGG
(GTG)	 AG	131608-132034	GT	AGG
(GAT)	 AG	134103-134124	CT	GCC
-recovered pasa_asmbl_34965.p1, internal, 130340, 130478
-recovered pasa_asmbl_34965.p1, internal, 131608, 132034
Valid prediction for Augustus_model.g36856.t1
Valid prediction for Augustus_model.g36852.t1
Valid prediction for GlimmerHMM_glimmerT_55631-T1
Valid prediction for Augustus_model.g36848.t1
Valid prediction for CodingQuarry_transcript_40338-T1
Valid prediction for Augustus_model.g36843.t1
Couldn't classify 34044, 34124
Couldn't classify 35224, 35234
Sorry, prediction pasa_asmbl_34958.p1 fails validation.
(AAG)	 AG	34044-34124	GT	AGG
(GTC)	 AG	34283-34361	GT	GGG
(GAC)	 AG	34474-34520	GT	AGG
(GAA)	 AG	34639-34696	GT	ACG
(CGC)	 AG	34801-34890	GT	TGG
(CTG)	 AG	35002-35121	GT	AGG
(CGA)	 AG	35224-35234	CC	CCC
-recovered pasa_asmbl_34958.p1, internal, 34044, 34124
-recovered pasa_asmbl_34958.p1, internal, 34283, 34361
-recovered pasa_asmbl_34958.p1, internal, 34474, 34520
-recovered pasa_asmbl_34958.p1, internal, 34639, 34696
-recovered pasa_asmbl_34958.p1, internal, 34801, 34890
-recovered pasa_asmbl_34958.p1, internal, 35002, 35121
Couldn't classify 134733, 134862
Couldn't classify 137312, 137407
Sorry, prediction pasa_asmbl_34966.p1 fails validation.
(CAG)	 CC	134733-134862	GT	CGG
(ACA)	 AG	136289-136459	GT	CAG
(CTC)	 AG	137043-137170	GT	AGG
(GGC)	 AG	137312-137407	GT	AAG
-recovered pasa_asmbl_34966.p1, internal, 136289, 136459
-recovered pasa_asmbl_34966.p1, internal, 137043, 137170
-recovered pasa_asmbl_34966.p1, internal, 137312, 137407
Couldn't classify 137896, 137979
Couldn't classify 143118, 143210
Sorry, prediction pasa_asmbl_34967.p1 fails validation.
(GGA)	 AG	137896-137979	GT	AGG
(GGC)	 AG	140239-140389	GT	CCG
(GCT)	 AG	140503-140652	GT	GGG
(GGC)	 AG	140759-140845	GT	AGG
(GTA)	 AG	140948-141192	GT	AGG
(GGC)	 AG	143118-143210	CC	CCC
-recovered pasa_asmbl_34967.p1, internal, 137896, 137979
-recovered pasa_asmbl_34967.p1, internal, 140239, 140389
-recovered pasa_asmbl_34967.p1, internal, 140503, 140652
-recovered pasa_asmbl_34967.p1, internal, 140759, 140845
-recovered pasa_asmbl_34967.p1, internal, 140948, 141192
Valid prediction for GlimmerHMM_glimmerT_55628-T1
Couldn't classify 8748, 8834
Sorry, prediction pasa_asmbl_34936.p1 fails validation.
(CGC)	 AG	8748-8834	GT	CGG
(CTG)	 AG	9260-9413	GT	GGG
(GCT)	 AG	10234-10300	GT	AAG
(CTG)	 AG	10439-10505	GT	TGG
(GTG)	 AG	10691-10782	GT	AAG
(GCT)	 AG	10907-11033	GT	AGG
(GGG)	 AG	11157-11198	GT	AGG
(GTC)	 AG	11284-11376	GT	TTG
(ATG)	 AG	11751-11846	AA	AGA
-recovered pasa_asmbl_34936.p1, terminal, 11751, 11846
-recovered pasa_asmbl_34936.p1, internal, 8748, 8834
-recovered pasa_asmbl_34936.p1, internal, 9260, 9413
-recovered pasa_asmbl_34936.p1, internal, 10234, 10300
-recovered pasa_asmbl_34936.p1, internal, 10439, 10505
-recovered pasa_asmbl_34936.p1, internal, 10691, 10782
-recovered pasa_asmbl_34936.p1, internal, 10907, 11033
-recovered pasa_asmbl_34936.p1, internal, 11157, 11198
-recovered pasa_asmbl_34936.p1, internal, 11284, 11376
Valid prediction for snap_scaffold_26-snap.1143-T1
Couldn't classify 49018, 49125
Couldn't classify 50364, 50513
Sorry, prediction pasa_asmbl_35355.p1 fails validation.
(CCT)	 AG	49018-49125	GT	TGG
(ACA)	 AG	49245-49404	GT	AGG
(GGG)	 AG	49590-49729	GT	AGG
(ATC)	 AG	49874-50029	GT	AGG
(GTG)	 AG	50140-50217	GT	AGG
(ATC)	 AG	50364-50513	AT	AGA
-recovered pasa_asmbl_35355.p1, internal, 49018, 49125
-recovered pasa_asmbl_35355.p1, internal, 49245, 49404
-recovered pasa_asmbl_35355.p1, internal, 49590, 49729
-recovered pasa_asmbl_35355.p1, internal, 49874, 50029
-recovered pasa_asmbl_35355.p1, internal, 50140, 50217
Valid prediction for Augustus_model.g36853.t1
Valid prediction for GlimmerHMM_glimmerT_55633-T1
Valid prediction for snap_scaffold_26-snap.1131-T1
Couldn't classify 41010, 41054
Couldn't classify 41571, 41694
Sorry, prediction pasa_asmbl_34960.p1 fails validation.
(AGC)	 GA	41010-41054	GT	AGG
(GAG)	 AG	41148-41437	GT	AGG
(GTT)	 AG	41571-41694	CA	CCC
-recovered pasa_asmbl_34960.p1, internal, 41148, 41437
Valid prediction for pasa_asmbl_34947.p2
Valid prediction for pasa_asmbl_34957.p1
Valid prediction for snap_scaffold_26-snap.1118-T1
Valid prediction for snap_scaffold_26-snap.1125-T1
Valid prediction for snap_scaffold_26-snap.1140-T1
Valid prediction for CodingQuarry_transcript_40339-T1
Valid prediction for GlimmerHMM_glimmerT_55634-T1
Valid prediction for snap_scaffold_26-snap.1134-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_55623-T1
Valid prediction for snap_scaffold_26-snap.1110-T1
Valid prediction for Augustus_model.g36855.t1
Valid prediction for GlimmerHMM_glimmerT_55635-T1
Valid prediction for CodingQuarry_transcript_40337-T1
Couldn't classify 144413, 144461
Sorry, prediction pasa_asmbl_34969.p1 fails validation.
(ACT)	 CC	144413-144461	GT	AGG
(TCG)	 AG	144570-144836	GT	AGG
(GTA)	 AG	144946-145117	GT	CGG
(GTC)	 AG	145337-145728	GT	CGG
(CCC)	 AG	147988-148109	GT	GCG
(GAG)	 AG	148272-148468	GT	AGG
(GTC)	 AG	148557-148688	GT	GGG
(CAT)	 AG	148838-148971	GT	CAG
(ACG)	 AG	149120-149173	GT	AGG
(GAC)	 AG	149430-149630	GT	AGG
(GTG)	 AG	149775-149951	GT	CGG
(GCT)	 AG	150047-150225	GA	GAG
-recovered pasa_asmbl_34969.p1, terminal, 150047, 150225
-recovered pasa_asmbl_34969.p1, internal, 144570, 144836
-recovered pasa_asmbl_34969.p1, internal, 144946, 145117
-recovered pasa_asmbl_34969.p1, internal, 145337, 145728
-recovered pasa_asmbl_34969.p1, internal, 147988, 148109
-recovered pasa_asmbl_34969.p1, internal, 148272, 148468
-recovered pasa_asmbl_34969.p1, internal, 148557, 148688
-recovered pasa_asmbl_34969.p1, internal, 148838, 148971
-recovered pasa_asmbl_34969.p1, internal, 149120, 149173
-recovered pasa_asmbl_34969.p1, internal, 149430, 149630
-recovered pasa_asmbl_34969.p1, internal, 149775, 149951
Couldn't classify 44986, 45054
Couldn't classify 48455, 48555
Sorry, prediction pasa_asmbl_34961.p1 fails validation.
(CTG)	 AG	44986-45054	GT	AGG
(CTC)	 AG	45182-45256	GT	AGG
(GAG)	 AG	45380-45514	GT	TGG
(GAG)	 AG	45594-45638	GT	CGG
(CTC)	 AG	45720-45873	GT	AGG
(CAG)	 AG	45961-46193	GT	AGG
(GCT)	 AG	46375-46548	GT	AGG
(CTC)	 AG	46642-46689	GT	AGG
(TCG)	 AG	46804-46940	GT	CTG
(TTT)	 AG	47066-47122	GT	AGG
(TGG)	 AG	47217-47295	GT	AGG
(GCC)	 AG	47454-47636	GT	TGG
(GCG)	 AG	47742-47787	GT	CAG
(CCA)	 AG	47890-47996	GT	CTG
(CCT)	 AG	48162-48348	GT	AGG
(CTC)	 AG	48455-48555	CA	CCC
-recovered pasa_asmbl_34961.p1, internal, 44986, 45054
-recovered pasa_asmbl_34961.p1, internal, 45182, 45256
-recovered pasa_asmbl_34961.p1, internal, 45380, 45514
-recovered pasa_asmbl_34961.p1, internal, 45594, 45638
-recovered pasa_asmbl_34961.p1, internal, 45720, 45873
-recovered pasa_asmbl_34961.p1, internal, 45961, 46193
-recovered pasa_asmbl_34961.p1, internal, 46375, 46548
-recovered pasa_asmbl_34961.p1, internal, 46642, 46689
-recovered pasa_asmbl_34961.p1, internal, 46804, 46940
-recovered pasa_asmbl_34961.p1, internal, 47066, 47122
-recovered pasa_asmbl_34961.p1, internal, 47217, 47295
-recovered pasa_asmbl_34961.p1, internal, 47454, 47636
-recovered pasa_asmbl_34961.p1, internal, 47742, 47787
-recovered pasa_asmbl_34961.p1, internal, 47890, 47996
-recovered pasa_asmbl_34961.p1, internal, 48162, 48348
Valid prediction for snap_scaffold_26-snap.1122-T1
Couldn't classify 43269, 43394
Couldn't classify 44405, 44477
Sorry, prediction pasa_asmbl_35333.p2 fails validation.
(GAG)	 CA	43269-43394	GT	AGG
(GAG)	 AG	44115-44311	GT	AGG
(ACT)	 AG	44405-44477	GC	CCG
-recovered pasa_asmbl_35333.p2, internal, 44115, 44311
-recovered pasa_asmbl_35333.p2, internal, 44405, 44477
Valid prediction for snap_scaffold_26-snap.1135-T1
Valid prediction for snap_scaffold_26-snap.1112-T1
Valid prediction for GlimmerHMM_glimmerT_55637-T1
Valid prediction for GlimmerHMM_glimmerT_55619-T1
Valid prediction for Augustus_model.g36845.t1
Valid prediction for Augustus_model.g36849.t1
Valid prediction for snap_scaffold_26-snap.1129-T1
Valid prediction for GlimmerHMM_glimmerT_55624-T1
Valid prediction for CodingQuarry_transcript_40340-T1
Couldn't classify 37895, 38024
Sorry, prediction pasa_asmbl_34959.p1 fails validation.
(ATG)	 AG	36810-36886	GT	GGG
(AGC)	 AG	37274-37460	GT	AGG
(ACG)	 AG	37624-37793	GT	AGG
(GTT)	 AG	37895-38024	GC	CGG
-recovered pasa_asmbl_34959.p1, initial, 36810, 36886
-recovered pasa_asmbl_34959.p1, internal, 36810, 36886
-recovered pasa_asmbl_34959.p1, internal, 37274, 37460
-recovered pasa_asmbl_34959.p1, internal, 37624, 37793
-recovered pasa_asmbl_34959.p1, internal, 37895, 38024

-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.g36858.t1
Valid prediction for GlimmerHMM_glimmerT_55640-T1
Valid prediction for Augustus_model.g36846.t1
Valid prediction for snap_scaffold_26-snap.1113-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_26-snap.1119-T1
Valid prediction for snap_scaffold_26-snap.1120-T1
Valid prediction for snap_scaffold_26-snap.1109-T1
Couldn't classify 4981, 5090
Sorry, prediction pasa_asmbl_35603.p2 fails validation.
(CTG)	 AG	4981-5090	GT	AAG
(GTG)	 AG	5287-5620	AA	AGA
-recovered pasa_asmbl_35603.p2, terminal, 5287, 5620
-recovered pasa_asmbl_35603.p2, internal, 4981, 5090
Valid prediction for snap_scaffold_26-snap.1130-T1
Valid prediction for snap_scaffold_26-snap.1128-T1
Valid prediction for CodingQuarry_transcript_40341-T1
Valid prediction for snap_scaffold_26-snap.1117-T1
Valid prediction for snap_scaffold_26-snap.1115-T1
Valid prediction for GlimmerHMM_glimmerT_55630-T1
Valid prediction for GlimmerHMM_glimmerT_55622-T1
Valid prediction for GlimmerHMM_glimmerT_55626-T1
Valid prediction for GlimmerHMM_glimmerT_55627-T1
Valid prediction for snap_scaffold_26-snap.1142-T1
Valid prediction for snap_scaffold_26-snap.1133-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_55625-T1
Valid prediction for GlimmerHMM_glimmerT_55629-T1
Valid prediction for snap_scaffold_26-snap.1127-T1
Valid prediction for snap_scaffold_26-snap.1132-T1
Valid prediction for Augustus_model.g36857.t1
Valid prediction for Augustus_model.g36854.t1
Valid prediction for snap_scaffold_26-snap.1108-T1
Valid prediction for snap_scaffold_26-snap.1137-T1
Valid prediction for GlimmerHMM_glimmerT_55636-T1
Valid prediction for snap_scaffold_26-snap.1124-T1
Valid prediction for snap_scaffold_26-snap.1136-T1
Valid prediction for snap_scaffold_26-snap.1111-T1
Valid prediction for GlimmerHMM_glimmerT_55632-T1
Valid prediction for snap_scaffold_26-snap.1123-T1
Valid prediction for Augustus_model.g36850.t1
Valid prediction for snap_scaffold_26-snap.1138-T1
Valid prediction for snap_scaffold_26-snap.1116-T1
Valid prediction for snap_scaffold_26-snap.1139-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_26-snap.1121-T1
Valid prediction for snap_scaffold_26-snap.1141-T1
Valid prediction for GlimmerHMM_glimmerT_55639-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 25804, rend_intergenic: 16511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41796, rend_intergenic: 32351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50534, rend_intergenic: 48099  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58034, rend_intergenic: 55462  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62012, rend_intergenic: 58506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75130, rend_intergenic: 73787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86962, rend_intergenic: 76033  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100605, rend_intergenic: 98429  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109657, rend_intergenic: 101640  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121741, rend_intergenic: 109661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152439, rend_intergenic: 121751  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 166684
-exon list size: 519


building trellis

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71.8    
72.0    
72.2    
72.4    
72.6    
72.7    
72.9    
73.1    
73.3    
73.5    
73.7    
73.9    
74.1    
74.3    
74.5    
74.7    
74.9    
75.0    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.6    
76.8    
77.0    
77.2    
77.4    
77.5    
77.7    
77.9    
78.1    
78.3    
78.5    
78.7    
78.9    
79.1    
79.3    
79.5    
79.7    
79.8    
80.0    
80.2    
80.4    
80.6    
80.8    
81.0    
81.2    
81.4    
81.6    
81.8    
82.0    
82.1    
82.3    
82.5    
82.7    
82.9    
83.1    
83.3    
83.5    
83.7    
83.9    
84.1    
84.3    
84.5    
84.6    
84.8    
85.0    
85.2    
85.4    
85.6    
85.8    
86.0    
86.2    
86.4    
86.6    
86.8    
86.9    
87.1    
87.3    
87.5    
87.7    
87.9    
88.1    
88.3    
88.5    
88.7    
88.9    
89.1    
89.3    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.6    
91.7    
91.9    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.3    
93.5    
93.7    
93.9    
94.0    
94.2    
94.4    
94.6    
94.8    
95.0    
95.2    
95.4    
95.6    
95.8    
96.0    
96.2    
96.4    
96.5    
96.7    
96.9    
97.1    
97.3    
97.5    
97.7    
97.9    
98.1    
98.3    
98.5    
98.7    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 25804, rend_intergenic: 16511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41796, rend_intergenic: 32351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50534, rend_intergenic: 48099  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58034, rend_intergenic: 55462  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62012, rend_intergenic: 58506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75130, rend_intergenic: 73787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86962, rend_intergenic: 76033  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100605, rend_intergenic: 98429  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109657, rend_intergenic: 101640  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121741, rend_intergenic: 109661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152439, rend_intergenic: 121751  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