-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_2630484-2809587

-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_35770-T1
Valid prediction for GlimmerHMM_glimmerT_35779-T1
Valid prediction for snap_scaffold_15-snap.588-T1
Valid prediction for Augustus_model.g23867.t1
Valid prediction for snap_scaffold_15-snap.560-T1
Valid prediction for Augustus_model.g23870.t1
Valid prediction for snap_scaffold_15-snap.557-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_15-snap.553-T1
Valid prediction for GlimmerHMM_glimmerT_35778-T1
Valid prediction for snap_scaffold_15-snap.550-T1
Valid prediction for GlimmerHMM_glimmerT_35790-T1
Valid prediction for CodingQuarry_transcript_17944-T1
Valid prediction for GlimmerHMM_glimmerT_35771-T1
Valid prediction for snap_scaffold_15-snap.569-T1
Valid prediction for GlimmerHMM_glimmerT_35785-T1
Valid prediction for snap_scaffold_15-snap.573-T1
Valid prediction for Augustus_model.g23872.t1
Valid prediction for snap_scaffold_15-snap.551-T1
Valid prediction for Augustus_model.g23859.t1
Valid prediction for GlimmerHMM_glimmerT_35781-T1
Valid prediction for CodingQuarry_transcript_17943-T1
Valid prediction for CodingQuarry_transcript_17941-T1
Valid prediction for snap_scaffold_15-snap.586-T1
Valid prediction for GlimmerHMM_glimmerT_35791-T1
Valid prediction for snap_scaffold_15-snap.547-T1
Valid prediction for Augustus_model.g23861.t1
Valid prediction for Augustus_model.g23862.t1
Valid prediction for snap_scaffold_15-snap.546-T1
Valid prediction for Augustus_model.g23857.t1
Valid prediction for snap_scaffold_15-snap.545-T1
Valid prediction for GlimmerHMM_glimmerT_35789-T1
Valid prediction for snap_scaffold_15-snap.555-T1
Valid prediction for snap_scaffold_15-snap.577-T1
Valid prediction for GlimmerHMM_glimmerT_35773-T1
Valid prediction for snap_scaffold_15-snap.567-T1
Valid prediction for snap_scaffold_15-snap.570-T1
Valid prediction for GlimmerHMM_glimmerT_35772-T1
Couldn't classify 80943, 81038
Sorry, prediction pasa_asmbl_15078.p1 fails validation.
(TCA)	 AG	80943-81038	GT	AGG
(GAC)	 AG	81354-81587	GT	AGG
(ACT)	 AG	82399-82421	GT	AAG
(GAT)	 AG	82753-82877	GT	AGG
(GTT)	 AG	83776-83840	TC	AAT
-recovered pasa_asmbl_15078.p1, terminal, 83776, 83840
-recovered pasa_asmbl_15078.p1, internal, 80943, 81038
-recovered pasa_asmbl_15078.p1, internal, 81354, 81587
-recovered pasa_asmbl_15078.p1, internal, 82399, 82421
-recovered pasa_asmbl_15078.p1, internal, 82753, 82877
Valid prediction for Augustus_model.g23873.t1
Valid prediction for snap_scaffold_15-snap.544-T1
Valid prediction for pasa_asmbl_15080.p2
Valid prediction for snap_scaffold_15-snap.540-T1
Valid prediction for CodingQuarry_transcript_17940-T1
Valid prediction for snap_scaffold_15-snap.548-T1
Valid prediction for snap_scaffold_15-snap.575-T1
Valid prediction for Augustus_model.g23858.t1
Valid prediction for snap_scaffold_15-snap.566-T1
Valid prediction for GlimmerHMM_glimmerT_35784-T1
Valid prediction for GlimmerHMM_glimmerT_35792-T1
Valid prediction for HiQ_model.g23871.t1
Valid prediction for Augustus_model.g23860.t1
Valid prediction for snap_scaffold_15-snap.549-T1
Valid prediction for GlimmerHMM_glimmerT_35775-T1
Valid prediction for snap_scaffold_15-snap.554-T1
Valid prediction for snap_scaffold_15-snap.579-T1
Valid prediction for snap_scaffold_15-snap.583-T1
Valid prediction for snap_scaffold_15-snap.542-T1
Valid prediction for GlimmerHMM_glimmerT_35776-T1
Valid prediction for snap_scaffold_15-snap.564-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_15-snap.541-T1
Couldn't classify 163754, 163882
Couldn't classify 166323, 166409
Sorry, prediction pasa_asmbl_14031.p1 fails validation.
(GGT)	 GG	163754-163882	GT	AGG
(GCA)	 AG	164427-164525	GT	CTG
(GCT)	 AG	164828-164937	GT	AGG
(GTA)	 AG	166155-166218	GT	CTG
(CTG)	 AG	166323-166409	GT	AGG
-recovered pasa_asmbl_14031.p1, internal, 164427, 164525
-recovered pasa_asmbl_14031.p1, internal, 164828, 164937
-recovered pasa_asmbl_14031.p1, internal, 166155, 166218
-recovered pasa_asmbl_14031.p1, internal, 166323, 166409
Valid prediction for GlimmerHMM_glimmerT_35786-T1
Couldn't classify 47541, 47621
Sorry, prediction pasa_asmbl_14041.p1 fails validation.
(AAC)	 AG	47541-47621	GT	TGG
(CGG)	 AG	48305-48412	GT	CGG
(ATC)	 AG	49597-49806	AA	AGA
-recovered pasa_asmbl_14041.p1, terminal, 49597, 49806
-recovered pasa_asmbl_14041.p1, internal, 47541, 47621
-recovered pasa_asmbl_14041.p1, internal, 48305, 48412
Valid prediction for snap_scaffold_15-snap.568-T1
Valid prediction for snap_scaffold_15-snap.559-T1
Valid prediction for snap_scaffold_15-snap.552-T1
Valid prediction for Augustus_model.g23864.t1
Valid prediction for GlimmerHMM_glimmerT_35780-T1
Valid prediction for snap_scaffold_15-snap.562-T1
Valid prediction for CodingQuarry_transcript_17942-T1
Valid prediction for GlimmerHMM_glimmerT_35782-T1
Valid prediction for snap_scaffold_15-snap.558-T1
Valid prediction for GlimmerHMM_glimmerT_35777-T1
Valid prediction for snap_scaffold_15-snap.578-T1
Valid prediction for GlimmerHMM_glimmerT_35774-T1
Valid prediction for snap_scaffold_15-snap.563-T1
Valid prediction for GlimmerHMM_glimmerT_35783-T1
Valid prediction for GlimmerHMM_glimmerT_35787-T1
Valid prediction for snap_scaffold_15-snap.565-T1
Couldn't classify 161433, 161503
Couldn't classify 162664, 162753
Sorry, prediction pasa_asmbl_14032.p1 fails validation.
(TTC)	 TT	161433-161503	GT	ATG
(GTA)	 AG	161909-162089	GT	AGG
(GAT)	 AG	162664-162753	AC	AGA
-recovered pasa_asmbl_14032.p1, internal, 161909, 162089
Valid prediction for snap_scaffold_15-snap.572-T1
Valid prediction for GlimmerHMM_glimmerT_35767-T1
Couldn't classify 35868, 36218
Sorry, prediction pasa_asmbl_14051.p1 fails validation.
(ATG)	 CC	27638-27734	GT	AGG
(TTG)	 AG	27966-28021	GT	GGG
(AAT)	 AG	28897-28955	GT	AGG
(GTA)	 AG	29163-29437	GT	CGG
(ATT)	 AG	29646-29729	GT	AGG
(TTC)	 AG	30011-30226	GT	AGG
(GCA)	 AG	31074-31198	GT	TGG
(ACA)	 AG	31450-31536	GT	TGG
(CCG)	 AG	33112-33210	GT	AGG
(GGC)	 AG	33356-33523	GT	CGG
(GTG)	 AG	33703-33900	GT	AGG
(CTG)	 AG	34347-34448	GT	AGG
(GGT)	 AG	34741-34803	GT	GGG
(GGT)	 AG	35504-35602	GT	AGG
(GAC)	 AG	35868-36218	CC	AAC
-recovered pasa_asmbl_14051.p1, initial, 27638, 27734
-recovered pasa_asmbl_14051.p1, internal, 27966, 28021
-recovered pasa_asmbl_14051.p1, internal, 28897, 28955
-recovered pasa_asmbl_14051.p1, internal, 29163, 29437
-recovered pasa_asmbl_14051.p1, internal, 29646, 29729
-recovered pasa_asmbl_14051.p1, internal, 30011, 30226
-recovered pasa_asmbl_14051.p1, internal, 31074, 31198
-recovered pasa_asmbl_14051.p1, internal, 31450, 31536
-recovered pasa_asmbl_14051.p1, internal, 33112, 33210
-recovered pasa_asmbl_14051.p1, internal, 33356, 33523
-recovered pasa_asmbl_14051.p1, internal, 33703, 33900
-recovered pasa_asmbl_14051.p1, internal, 34347, 34448
-recovered pasa_asmbl_14051.p1, internal, 34741, 34803
-recovered pasa_asmbl_14051.p1, internal, 35504, 35602
Couldn't classify 69310, 69417
Couldn't classify 76477, 76611
Sorry, prediction pasa_asmbl_14040.p1 fails validation.
(GGC)	 CA	69310-69417	GT	AGG
(GTC)	 AG	70073-70243	GT	GGG
(AAA)	 AG	70698-70769	GT	AGG
(CTG)	 AG	72279-72468	GT	AGG
(GGG)	 AG	72642-72703	GT	AGG
(CGT)	 AG	73556-73572	GT	AGG
(GTC)	 AG	75362-75460	GT	AGG
(GAA)	 AG	75933-76026	GT	AGG
(GCT)	 AG	76266-76328	GT	GAG
(ATC)	 AG	76477-76611	AC	ACA
-recovered pasa_asmbl_14040.p1, internal, 70073, 70243
-recovered pasa_asmbl_14040.p1, internal, 70698, 70769
-recovered pasa_asmbl_14040.p1, internal, 72279, 72468
-recovered pasa_asmbl_14040.p1, internal, 72642, 72703
-recovered pasa_asmbl_14040.p1, internal, 73556, 73572
-recovered pasa_asmbl_14040.p1, internal, 75362, 75460
-recovered pasa_asmbl_14040.p1, internal, 75933, 76026
-recovered pasa_asmbl_14040.p1, internal, 76266, 76328
Valid prediction for GlimmerHMM_glimmerT_35769-T1
Valid prediction for Augustus_model.g23866.t1
Valid prediction for GlimmerHMM_glimmerT_35788-T1
Valid prediction for snap_scaffold_15-snap.571-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_15-snap.574-T1
Valid prediction for Augustus_model.g23863.t1
Valid prediction for snap_scaffold_15-snap.584-T1
Valid prediction for Augustus_model.g23868.t1
Valid prediction for snap_scaffold_15-snap.580-T1
Valid prediction for snap_scaffold_15-snap.582-T1
Couldn't classify 45370, 45385
Couldn't classify 47394, 47468
Sorry, prediction pasa_asmbl_14042.p1 fails validation.
(GCT)	 CA	45370-45385	GT	TGG
(GCA)	 AG	45690-45834	GT	AGG
(TGG)	 AG	46255-46416	GT	ACG
(GTA)	 AG	46611-46698	GT	GGG
(AGC)	 AG	46797-46922	GT	ACG
(CCG)	 AG	47394-47468	GG	GAG
-recovered pasa_asmbl_14042.p1, internal, 45690, 45834
-recovered pasa_asmbl_14042.p1, internal, 46255, 46416
-recovered pasa_asmbl_14042.p1, internal, 46611, 46698
-recovered pasa_asmbl_14042.p1, internal, 46797, 46922
Valid prediction for GlimmerHMM_glimmerT_35768-T1
Valid prediction for snap_scaffold_15-snap.561-T1
Valid prediction for HiQ_model.g23869.t1
Valid prediction for snap_scaffold_15-snap.585-T1
Valid prediction for HiQ_model.g23865.t1
Valid prediction for snap_scaffold_15-snap.576-T1
Valid prediction for snap_scaffold_15-snap.543-T1
Valid prediction for snap_scaffold_15-snap.587-T1
Valid prediction for Augustus_model.g23856.t1
Valid prediction for snap_scaffold_15-snap.581-T1
Valid prediction for snap_scaffold_15-snap.556-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9934, rend_intergenic: 8021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11102, rend_intergenic: 10183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36237, rend_intergenic: 11124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48074, rend_intergenic: 46987  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59498, rend_intergenic: 48201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68633, rend_intergenic: 64307  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69402, rend_intergenic: 68812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73998, rend_intergenic: 69603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83904, rend_intergenic: 75465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98628, rend_intergenic: 90998  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104209, rend_intergenic: 101167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107871, rend_intergenic: 104503  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110753, rend_intergenic: 108439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119452, rend_intergenic: 116606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123732, rend_intergenic: 119511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132985, rend_intergenic: 129299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139032, rend_intergenic: 133244  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148138, rend_intergenic: 142515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157066, rend_intergenic: 156025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165427, rend_intergenic: 157414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176577, rend_intergenic: 172732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 179104
-exon list size: 499


building trellis

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93.8    
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    
96.6    
96.8    
97.0    
97.2    
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 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 9934, rend_intergenic: 8021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11102, rend_intergenic: 10183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36237, rend_intergenic: 11124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48074, rend_intergenic: 46987  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59498, rend_intergenic: 48201  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68633, rend_intergenic: 64307  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69402, rend_intergenic: 68812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73998, rend_intergenic: 69603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83904, rend_intergenic: 75465  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98628, rend_intergenic: 90998  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104209, rend_intergenic: 101167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107871, rend_intergenic: 104503  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110753, rend_intergenic: 108439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119452, rend_intergenic: 116606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123732, rend_intergenic: 119511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132985, rend_intergenic: 129299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139032, rend_intergenic: 133244  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148138, rend_intergenic: 142515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157066, rend_intergenic: 156025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165427, rend_intergenic: 157414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176577, rend_intergenic: 172732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support