-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_4116671-4343156

-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 GlimmerHMM_glimmerT_49289-T1
Valid prediction for snap_scaffold_22-snap.790-T1
Valid prediction for GlimmerHMM_glimmerT_49287-T1
Valid prediction for snap_scaffold_22-snap.818-T1
Valid prediction for snap_scaffold_22-snap.810-T1
Valid prediction for GlimmerHMM_glimmerT_49304-T1
Valid prediction for snap_scaffold_22-snap.771-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_22-snap.773-T1
Valid prediction for GlimmerHMM_glimmerT_49301-T1
Valid prediction for HiQ_model.g32880.t1
Valid prediction for GlimmerHMM_glimmerT_49293-T1
Valid prediction for Augustus_model.g32878.t1
Valid prediction for Augustus_model.g32876.t1
Valid prediction for snap_scaffold_22-snap.805-T1
Valid prediction for GlimmerHMM_glimmerT_49308-T1
Valid prediction for Augustus_model.g32891.t1
Valid prediction for snap_scaffold_22-snap.814-T1
Valid prediction for CodingQuarry_transcript_34133-T1
Valid prediction for pasa_asmbl_29976.p1
Couldn't classify 78455, 78654
Sorry, prediction pasa_asmbl_29971.p1 fails validation.
(TGT)	 GC	78455-78654	GT	GGG
(GCA)	 AG	79490-79619	GT	AGG
(GCT)	 AG	79870-79971	GT	AGG
(ATC)	 AG	81692-81943	GT	GGG
(GAG)	 AG	84754-84942	GT	TGG
(GTG)	 AG	85199-85798	AG	GAA
-recovered pasa_asmbl_29971.p1, terminal, 85199, 85798
-recovered pasa_asmbl_29971.p1, internal, 79490, 79619
-recovered pasa_asmbl_29971.p1, internal, 79870, 79971
-recovered pasa_asmbl_29971.p1, internal, 81692, 81943
-recovered pasa_asmbl_29971.p1, internal, 84754, 84942
Valid prediction for Augustus_model.g32896.t1
Valid prediction for GlimmerHMM_glimmerT_49283-T1
Valid prediction for snap_scaffold_22-snap.816-T1
Valid prediction for HiQ_model.g32893.t1
Valid prediction for GlimmerHMM_glimmerT_49286-T1
Valid prediction for GlimmerHMM_glimmerT_49288-T1
Valid prediction for snap_scaffold_22-snap.792-T1
Valid prediction for snap_scaffold_22-snap.778-T1
Valid prediction for GlimmerHMM_glimmerT_49311-T1
Valid prediction for snap_scaffold_22-snap.782-T1
Valid prediction for snap_scaffold_22-snap.779-T1
Valid prediction for snap_scaffold_22-snap.783-T1
Valid prediction for snap_scaffold_22-snap.804-T1
Valid prediction for snap_scaffold_22-snap.787-T1
Valid prediction for snap_scaffold_22-snap.802-T1
Valid prediction for GlimmerHMM_glimmerT_49282-T1
Valid prediction for Augustus_model.g32874.t1
Valid prediction for GlimmerHMM_glimmerT_49284-T1
Valid prediction for GlimmerHMM_glimmerT_49292-T1
Valid prediction for Augustus_model.g32877.t1
Valid prediction for snap_scaffold_22-snap.774-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 snap_scaffold_22-snap.786-T1
Valid prediction for snap_scaffold_22-snap.806-T1
Valid prediction for snap_scaffold_22-snap.785-T1
Valid prediction for snap_scaffold_22-snap.791-T1
Valid prediction for snap_scaffold_22-snap.817-T1
Valid prediction for CodingQuarry_transcript_34128-T1
Valid prediction for Augustus_model.g32898.t1
Valid prediction for snap_scaffold_22-snap.793-T1
Valid prediction for Augustus_model.g32887.t1
Valid prediction for GlimmerHMM_glimmerT_49303-T1
Valid prediction for GlimmerHMM_glimmerT_49309-T1
Valid prediction for HiQ_model.g32881.t1
Valid prediction for CodingQuarry_transcript_34130-T1
Valid prediction for snap_scaffold_22-snap.788-T1
Valid prediction for snap_scaffold_22-snap.789-T1
Valid prediction for Augustus_model.g32875.t1
Couldn't classify 86598, 86818
Sorry, prediction pasa_asmbl_29230.p1 fails validation.
(GTG)	 AG	86598-86818	GT	TGG
(GAC)	 AG	86937-87069	GT	AGG
(GCT)	 AG	87191-87319	GT	TGG
(GTG)	 AG	87427-87905	GT	AGG
(GTC)	 AG	88079-88409	GA	GAG
-recovered pasa_asmbl_29230.p1, terminal, 88079, 88409
-recovered pasa_asmbl_29230.p1, internal, 86598, 86818
-recovered pasa_asmbl_29230.p1, internal, 86937, 87069
-recovered pasa_asmbl_29230.p1, internal, 87191, 87319
-recovered pasa_asmbl_29230.p1, internal, 87427, 87905
Valid prediction for GlimmerHMM_glimmerT_49306-T1
Valid prediction for snap_scaffold_22-snap.813-T1
Valid prediction for Augustus_model.g32894.t1
Couldn't classify 126810, 127023
Couldn't classify 130930, 131272
Sorry, prediction pasa_asmbl_29210.p1 fails validation.
(CTG)	 GA	126810-127023	GT	AGG
(CAT)	 AG	127179-127334	GT	ACG
(GAG)	 AG	127488-127814	GT	ATG
(TTG)	 AG	127914-128070	GT	AGG
(GCA)	 AG	128257-128354	GT	AGG
(AAC)	 AG	128514-128624	GT	AGG
(GGG)	 AG	128721-128801	GT	AGG
(TTG)	 AG	129069-129161	GT	GGG
(GGG)	 AG	129279-129400	GT	TGG
(TTC)	 AG	129545-129654	GT	ATG
(GTT)	 AG	129945-130104	GT	TGG
(TGG)	 AG	130276-130409	GT	CTG
(ATA)	 AG	130930-131272	CT	GGC
-recovered pasa_asmbl_29210.p1, internal, 127179, 127334
-recovered pasa_asmbl_29210.p1, internal, 127488, 127814
-recovered pasa_asmbl_29210.p1, internal, 127914, 128070
-recovered pasa_asmbl_29210.p1, internal, 128257, 128354
-recovered pasa_asmbl_29210.p1, internal, 128514, 128624
-recovered pasa_asmbl_29210.p1, internal, 128721, 128801
-recovered pasa_asmbl_29210.p1, internal, 129069, 129161
-recovered pasa_asmbl_29210.p1, internal, 129279, 129400
-recovered pasa_asmbl_29210.p1, internal, 129545, 129654
-recovered pasa_asmbl_29210.p1, internal, 129945, 130104
-recovered pasa_asmbl_29210.p1, internal, 130276, 130409
Valid prediction for snap_scaffold_22-snap.800-T1
Valid prediction for snap_scaffold_22-snap.809-T1
Valid prediction for CodingQuarry_transcript_34129-T1
Couldn't classify 51780, 51957
Sorry, prediction pasa_asmbl_29239.p1 fails validation.
(GAT)	 CA	51780-51957	GT	AGG
(TGA)	 AG	52054-52165	GT	AGG
(CCA)	 AG	52342-52863	GT	CTG
(GGT)	 AG	54878-54994	GT	AGG
(CCG)	 AG	55211-55239	GT	AGG
(GTT)	 AG	56934-56969	GT	AGG
(GCC)	 AG	57117-57237	GT	GTG
(CTA)	 AG	57574-57723	GT	TGG
(TCT)	 AG	57856-57925	GT	AGG
(CCT)	 AG	58057-58167	GT	CTG
(GAC)	 AG	58484-58579	GT	AGG
(AGC)	 AG	59568-59702	GT	GGG
(AAA)	 AG	59834-59972	GT	AGG
(AGA)	 AG	60172-60323	GT	AGG
(ATT)	 AG	60411-60536	GT	AGG
(GGT)	 AG	60637-60768	GT	AGG
(GAG)	 AG	60882-60949	GT	AGG
(GTG)	 AG	61130-61218	GT	AGG
(ATG)	 AG	61349-61446	GT	ATG
(GGC)	 AG	61620-61707	GT	CTG
(GGG)	 AG	61816-61914	GT	GGG
(GTG)	 AG	62060-62190	GT	AGG
(GCT)	 AG	62339-62551	AG	GAA
-recovered pasa_asmbl_29239.p1, initial, 61349, 61446
-recovered pasa_asmbl_29239.p1, terminal, 62339, 62551
-recovered pasa_asmbl_29239.p1, internal, 52054, 52165
-recovered pasa_asmbl_29239.p1, internal, 52342, 52863
-recovered pasa_asmbl_29239.p1, internal, 54878, 54994
-recovered pasa_asmbl_29239.p1, internal, 55211, 55239
-recovered pasa_asmbl_29239.p1, internal, 56934, 56969
-recovered pasa_asmbl_29239.p1, internal, 57117, 57237
-recovered pasa_asmbl_29239.p1, internal, 57574, 57723
-recovered pasa_asmbl_29239.p1, internal, 57856, 57925
-recovered pasa_asmbl_29239.p1, internal, 58057, 58167
-recovered pasa_asmbl_29239.p1, internal, 58484, 58579
-recovered pasa_asmbl_29239.p1, internal, 59568, 59702
-recovered pasa_asmbl_29239.p1, internal, 59834, 59972
-recovered pasa_asmbl_29239.p1, internal, 60172, 60323
-recovered pasa_asmbl_29239.p1, internal, 60411, 60536
-recovered pasa_asmbl_29239.p1, internal, 60637, 60768
-recovered pasa_asmbl_29239.p1, internal, 60882, 60949
-recovered pasa_asmbl_29239.p1, internal, 61130, 61218
-recovered pasa_asmbl_29239.p1, internal, 61349, 61446
-recovered pasa_asmbl_29239.p1, internal, 61620, 61707
-recovered pasa_asmbl_29239.p1, internal, 61816, 61914
-recovered pasa_asmbl_29239.p1, internal, 62060, 62190
Valid prediction for snap_scaffold_22-snap.799-T1
Valid prediction for GlimmerHMM_glimmerT_49310-T1
Valid prediction for GlimmerHMM_glimmerT_49291-T1
Valid prediction for snap_scaffold_22-snap.811-T1
Sorry, intron length (7) is less than minimum required (10)
Couldn't classify 12289, 12645
Sorry, prediction pasa_asmbl_29252.p1 fails validation.
(GAT)	 TG	12289-12645	CT	CTC
Valid prediction for Augustus_model.g32879.t1
Valid prediction for snap_scaffold_22-snap.794-T1
Valid prediction for pasa_asmbl_29222.p2
Valid prediction for CodingQuarry_transcript_34131-T1
Valid prediction for Augustus_model.g32885.t1
Valid prediction for snap_scaffold_22-snap.803-T1
Valid prediction for HiQ_model.g32892.t1
Valid prediction for pasa_asmbl_29208.p1
Valid prediction for snap_scaffold_22-snap.780-T1
Valid prediction for Augustus_model.g32886.t1
Valid prediction for CodingQuarry_transcript_34135-T1
Valid prediction for GlimmerHMM_glimmerT_49295-T1
Valid prediction for snap_scaffold_22-snap.812-T1
Valid prediction for snap_scaffold_22-snap.815-T1
Valid prediction for Augustus_model.g32888.t1
Valid prediction for snap_scaffold_22-snap.795-T1
Valid prediction for pasa_asmbl_29247.p1
Valid prediction for snap_scaffold_22-snap.784-T1
Valid prediction for snap_scaffold_22-snap.772-T1
Valid prediction for GlimmerHMM_glimmerT_49294-T1
Valid prediction for HiQ_model.g32882.t1
Valid prediction for CodingQuarry_transcript_34134-T1
Valid prediction for GlimmerHMM_glimmerT_49302-T1
Valid prediction for GlimmerHMM_glimmerT_49296-T1
Valid prediction for GlimmerHMM_glimmerT_49285-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for pasa_asmbl_29243.p1
Valid prediction for snap_scaffold_22-snap.775-T1
Valid prediction for snap_scaffold_22-snap.807-T1
Valid prediction for GlimmerHMM_glimmerT_49298-T1
Valid prediction for GlimmerHMM_glimmerT_49290-T1
Valid prediction for HiQ_model.g32883.t1
Couldn't classify 74141, 74220
Sorry, prediction pasa_asmbl_29233.p1 fails validation.
(GAG)	 CT	74141-74220	GT	AGG
(AGG)	 AG	74776-74839	GT	AGG
(GAC)	 AG	74972-75089	GT	AGG
(GTG)	 AG	75472-75574	GT	CGG
(GGC)	 AG	76133-76232	GT	TGG
(TTC)	 AG	76398-76586	GT	TTG
(TTG)	 AG	76848-76922	GT	AGG
(AAA)	 AG	77049-77107	GT	TAG
(CAC)	 AG	77436-77536	GT	CAG
(CCG)	 AG	77751-77890	GT	CTG
(GAG)	 AG	77980-78208	GT	GTG
(GTA)	 AG	78443-78532	GT	GGG
(CCG)	 AG	78645-78763	GT	GCG
(GCA)	 AG	79181-79323	GT	AGG
(AGC)	 AG	79466-79613	GG	GAG
-recovered pasa_asmbl_29233.p1, terminal, 79466, 79613
-recovered pasa_asmbl_29233.p1, internal, 74776, 74839
-recovered pasa_asmbl_29233.p1, internal, 74972, 75089
-recovered pasa_asmbl_29233.p1, internal, 75472, 75574
-recovered pasa_asmbl_29233.p1, internal, 76133, 76232
-recovered pasa_asmbl_29233.p1, internal, 76398, 76586
-recovered pasa_asmbl_29233.p1, internal, 76848, 76922
-recovered pasa_asmbl_29233.p1, internal, 77049, 77107
-recovered pasa_asmbl_29233.p1, internal, 77436, 77536
-recovered pasa_asmbl_29233.p1, internal, 77751, 77890
-recovered pasa_asmbl_29233.p1, internal, 77980, 78208
-recovered pasa_asmbl_29233.p1, internal, 78443, 78532
-recovered pasa_asmbl_29233.p1, internal, 78645, 78763
-recovered pasa_asmbl_29233.p1, internal, 79181, 79323
Valid prediction for Augustus_model.g32897.t1
Valid prediction for GlimmerHMM_glimmerT_49300-T1
Valid prediction for Augustus_model.g32890.t1
Valid prediction for snap_scaffold_22-snap.798-T1
Valid prediction for snap_scaffold_22-snap.776-T1
Couldn't classify 86429, 86503
Sorry, prediction pasa_asmbl_29231.p1 fails validation.
(ATG)	 GC	85395-85541	GT	AGG
(AGT)	 AG	85629-85715	GT	AGG
(GCT)	 AG	85834-85984	GT	AGG
(TGA)	 AG	86094-86144	GT	TGG
(TCC)	 AG	86238-86332	GT	AGG
(GTG)	 AG	86429-86503	GT	GGG
-recovered pasa_asmbl_29231.p1, initial, 85395, 85541
-recovered pasa_asmbl_29231.p1, internal, 85629, 85715
-recovered pasa_asmbl_29231.p1, internal, 85834, 85984
-recovered pasa_asmbl_29231.p1, internal, 86094, 86144
-recovered pasa_asmbl_29231.p1, internal, 86238, 86332
-recovered pasa_asmbl_29231.p1, internal, 86429, 86503
Valid prediction for snap_scaffold_22-snap.808-T1
Valid prediction for CodingQuarry_transcript_34132-T1
Valid prediction for GlimmerHMM_glimmerT_49299-T1
Valid prediction for snap_scaffold_22-snap.796-T1
Valid prediction for GlimmerHMM_glimmerT_49297-T1
Valid prediction for GlimmerHMM_glimmerT_49305-T1
Valid prediction for snap_scaffold_22-snap.801-T1
Valid prediction for snap_scaffold_22-snap.797-T1
Valid prediction for GlimmerHMM_glimmerT_49307-T1
Valid prediction for Augustus_model.g32884.t1
Valid prediction for pasa_asmbl_29214.p1
Valid prediction for HiQ_model.g32889.t1
Valid prediction for snap_scaffold_22-snap.781-T1
Valid prediction for Augustus_model.g32895.t1
Valid prediction for snap_scaffold_22-snap.777-T1
Couldn't classify 83172, 83780
Sorry, prediction pasa_asmbl_29232.p1 fails validation.
(GTC)	 TT	83172-83780	GC	AGG

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16252, rend_intergenic: 10089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20669, rend_intergenic: 17006  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59267, rend_intergenic: 55267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85798, rend_intergenic: 78409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93435, rend_intergenic: 85993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106337, rend_intergenic: 103370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154643, rend_intergenic: 150813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156568, rend_intergenic: 154862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 212381, rend_intergenic: 207983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 226486
-exon list size: 489


building trellis

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69.5    
69.7    
69.9    
70.1    
70.3    
70.5    
70.7    
70.9    
71.1    
71.3    
71.5    
71.7    
71.9    
72.1    
72.3    
72.5    
72.7    
72.9    
73.1    
73.3    
73.5    
73.7    
73.9    
74.1    
74.3    
74.5    
74.7    
74.9    
75.2    
75.4    
75.6    
75.8    
76.0    
76.2    
76.4    
76.6    
76.8    
77.0    
77.2    
77.4    
77.6    
77.8    
78.0    
78.2    
78.4    
78.6    
78.8    
79.0    
79.2    
79.4    
79.6    
79.8    
80.0    
80.2    
80.4    
80.7    
80.9    
81.1    
81.3    
81.5    
81.7    
81.9    
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    
84.7    
84.9    
85.1    
85.3    
85.5    
85.7    
85.9    
86.2    
86.4    
86.6    
86.8    
87.0    
87.2    
87.4    
87.6    
87.8    
88.0    
88.2    
88.4    
88.6    
88.8    
89.0    
89.2    
89.4    
89.6    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.6    
91.9    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.3    
93.5    
93.7    
93.9    
94.1    
94.3    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.3    
96.5    
96.7    
96.9    
97.1    
97.4    
97.6    
97.8    
98.0    
98.2    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 36 predictions from path traversal
Error with prediction: snap lend_intergenic: 16252, rend_intergenic: 10089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20669, rend_intergenic: 17006  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59267, rend_intergenic: 55267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85798, rend_intergenic: 78409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93435, rend_intergenic: 85993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106337, rend_intergenic: 103370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154643, rend_intergenic: 150813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156568, rend_intergenic: 154862  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 212381, rend_intergenic: 207983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 31 predictions persist after filtering for low support