-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_8680449-8929902

-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: +)Couldn't classify 203131, 203169
Sorry, prediction pasa_asmbl_53040.p1 fails validation.
(CTC)	 TC	203131-203169	GT	TGG
(GTC)	 AG	203501-203656	GT	TGG
(GAT)	 AG	204093-204188	GT	GGG
(ATC)	 AG	204335-204430	AG	GAA
-recovered pasa_asmbl_53040.p1, terminal, 204335, 204430
-recovered pasa_asmbl_53040.p1, internal, 203501, 203656
-recovered pasa_asmbl_53040.p1, internal, 204093, 204188
Valid prediction for snap_scaffold_8-snap.1687-T1
Valid prediction for pasa_asmbl_53646.p1
Valid prediction for snap_scaffold_8-snap.1712-T1
Couldn't classify 58500, 58543
Couldn't classify 61403, 61474
Sorry, prediction pasa_asmbl_53031.p1 fails validation.
(CTC)	 TG	58500-58543	GT	CTG
(CAA)	 AG	58868-59005	GT	AGG
(GTC)	 AG	59154-59273	GT	AAG
(GCT)	 AG	59558-59680	GT	AGG
(GGT)	 AG	60577-60763	GT	GTG
(GAG)	 AG	61403-61474	AA	CCA
-recovered pasa_asmbl_53031.p1, internal, 58868, 59005
-recovered pasa_asmbl_53031.p1, internal, 59154, 59273
-recovered pasa_asmbl_53031.p1, internal, 59558, 59680
-recovered pasa_asmbl_53031.p1, internal, 60577, 60763
Valid prediction for GlimmerHMM_glimmerT_20219-T1
Valid prediction for snap_scaffold_8-snap.1726-T1
Valid prediction for snap_scaffold_8-snap.1716-T1
Couldn't classify 40031, 40121
Couldn't classify 47135, 47237
Sorry, prediction pasa_asmbl_53026.p1 fails validation.
(AGG)	 AC	40031-40121	GT	AGG
(GAG)	 AG	42037-42209	GT	AGG
(GGC)	 AG	44409-44621	GT	TTG
(GTG)	 AG	46594-46694	GT	AAG
(TCC)	 AG	47135-47237	GG	AAG
-recovered pasa_asmbl_53026.p1, internal, 42037, 42209
-recovered pasa_asmbl_53026.p1, internal, 44409, 44621
-recovered pasa_asmbl_53026.p1, internal, 46594, 46694
Valid prediction for snap_scaffold_8-snap.1699-T1
Valid prediction for CodingQuarry_transcript_59715-T1
Valid prediction for snap_scaffold_8-snap.1718-T1
Valid prediction for snap_scaffold_8-snap.1692-T1
Valid prediction for snap_scaffold_8-snap.1696-T1
Couldn't classify 49573, 49702
Sorry, prediction pasa_asmbl_53030.p1 fails validation.
(GGC)	 CA	49573-49702	GT	TGG
(AAT)	 AG	50831-51450	CG	AAC
-recovered pasa_asmbl_53030.p1, terminal, 50831, 51450
Valid prediction for GlimmerHMM_glimmerT_20195-T1
Valid prediction for GlimmerHMM_glimmerT_20197-T1
Valid prediction for Augustus_model.g13432.t1
Valid prediction for snap_scaffold_8-snap.1695-T1
Valid prediction for snap_scaffold_8-snap.1709-T1
Valid prediction for CodingQuarry_transcript_59711-T1
Valid prediction for CodingQuarry_transcript_59712-T1
Valid prediction for HiQ_model.g13438.t1
Valid prediction for Augustus_model.g13446.t1
Valid prediction for GlimmerHMM_glimmerT_20209-T1
Valid prediction for snap_scaffold_8-snap.1697-T1
Valid prediction for snap_scaffold_8-snap.1721-T1
Valid prediction for snap_scaffold_8-snap.1682-T1
Valid prediction for snap_scaffold_8-snap.1691-T1
Valid prediction for HiQ_model.g13434.t1
Valid prediction for snap_scaffold_8-snap.1714-T1
Valid prediction for pasa_asmbl_53041.p1
Valid prediction for Augustus_model.g13431.t1
Valid prediction for snap_scaffold_8-snap.1720-T1
Valid prediction for GlimmerHMM_glimmerT_20200-T1
Valid prediction for snap_scaffold_8-snap.1685-T1
Couldn't classify 63709, 63831
Sorry, prediction pasa_asmbl_53033.p1 fails validation.
(AAT)	 AG	63709-63831	GT	AGG
(GAC)	 AG	64409-64462	GT	GGG
(GGG)	 AG	64653-64771	GT	CGG
(GAT)	 AG	65172-65266	GT	GGG
(GAG)	 AG	65364-65487	GT	CGG
(TGA)	 AG	65988-66145	GT	TGG
(GGC)	 AG	66895-67017	GT	AGG
(GAT)	 AG	67301-67443	CC	AAC
-recovered pasa_asmbl_53033.p1, terminal, 67301, 67443
-recovered pasa_asmbl_53033.p1, internal, 63709, 63831
-recovered pasa_asmbl_53033.p1, internal, 64409, 64462
-recovered pasa_asmbl_53033.p1, internal, 64653, 64771
-recovered pasa_asmbl_53033.p1, internal, 65172, 65266
-recovered pasa_asmbl_53033.p1, internal, 65364, 65487
-recovered pasa_asmbl_53033.p1, internal, 65988, 66145
-recovered pasa_asmbl_53033.p1, internal, 66895, 67017
Valid prediction for Augustus_model.g13429.t1
Valid prediction for HiQ_model.g13440.t1
Valid prediction for Augustus_model.g13439.t1
Valid prediction for GlimmerHMM_glimmerT_20216-T1
Valid prediction for snap_scaffold_8-snap.1680-T1
Valid prediction for Augustus_model.g13437.t1
Valid prediction for GlimmerHMM_glimmerT_20213-T1
Valid prediction for GlimmerHMM_glimmerT_20198-T1
Valid prediction for GlimmerHMM_glimmerT_20211-T1
Valid prediction for GlimmerHMM_glimmerT_20212-T1
Valid prediction for snap_scaffold_8-snap.1684-T1
Couldn't classify 30443, 30538
Couldn't classify 33050, 33127
Sorry, prediction pasa_asmbl_53592.p1 fails validation.
(GTG)	 AG	30443-30538	GT	TGG
(TAT)	 AG	32818-32946	GT	ACG
(GAT)	 AG	33050-33127	TA	GGT
-recovered pasa_asmbl_53592.p1, internal, 30443, 30538
-recovered pasa_asmbl_53592.p1, internal, 32818, 32946
Valid prediction for HiQ_model.g13442.t1
Valid prediction for CodingQuarry_transcript_59713-T1
Valid prediction for GlimmerHMM_glimmerT_20207-T1
Valid prediction for GlimmerHMM_glimmerT_20220-T1
Valid prediction for pasa_asmbl_53039.p1
Valid prediction for snap_scaffold_8-snap.1722-T1
Valid prediction for Augustus_model.g13433.t1
Valid prediction for snap_scaffold_8-snap.1703-T1
Valid prediction for CodingQuarry_transcript_59716-T1
Valid prediction for HiQ_model.g13443.t1
Valid prediction for pasa_asmbl_53037.p1
Valid prediction for Augustus_model.g13428.t1
Valid prediction for snap_scaffold_8-snap.1724-T1
Valid prediction for snap_scaffold_8-snap.1700-T1
Valid prediction for GlimmerHMM_glimmerT_20193-T1
Valid prediction for snap_scaffold_8-snap.1705-T1
Valid prediction for snap_scaffold_8-snap.1707-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_8-snap.1701-T1
Valid prediction for snap_scaffold_8-snap.1729-T1
Valid prediction for snap_scaffold_8-snap.1717-T1
Valid prediction for snap_scaffold_8-snap.1719-T1
Valid prediction for GlimmerHMM_glimmerT_20215-T1
Valid prediction for GlimmerHMM_glimmerT_20210-T1
Valid prediction for GlimmerHMM_glimmerT_20206-T1
Valid prediction for GlimmerHMM_glimmerT_20218-T1
Valid prediction for snap_scaffold_8-snap.1693-T1
Valid prediction for snap_scaffold_8-snap.1710-T1
Valid prediction for CodingQuarry_transcript_59714-T1
Valid prediction for Augustus_model.g13436.t1
Valid prediction for snap_scaffold_8-snap.1702-T1
Couldn't classify 46949, 47135
Sorry, prediction pasa_asmbl_51976.p1 fails validation.
(ACT)	 CA	46949-47135	GT	AAG
(GGA)	 AG	47463-47500	GT	TGG
(ATT)	 AG	47717-47791	GT	AGG
(GTG)	 AG	47878-47931	GT	TGG
(AGG)	 AG	48062-48151	GT	TAG
(TCA)	 AG	48314-48387	GT	AGG
(TGG)	 AG	48591-48679	GT	TGG
(TGT)	 AG	48878-48957	GT	TGG
(GAA)	 AG	49162-49242	GT	TGG
(GTC)	 AG	49366-49452	GG	GAG
-recovered pasa_asmbl_51976.p1, terminal, 49366, 49452
-recovered pasa_asmbl_51976.p1, internal, 47463, 47500
-recovered pasa_asmbl_51976.p1, internal, 47717, 47791
-recovered pasa_asmbl_51976.p1, internal, 47878, 47931
-recovered pasa_asmbl_51976.p1, internal, 48062, 48151
-recovered pasa_asmbl_51976.p1, internal, 48314, 48387
-recovered pasa_asmbl_51976.p1, internal, 48591, 48679
-recovered pasa_asmbl_51976.p1, internal, 48878, 48957
-recovered pasa_asmbl_51976.p1, internal, 49162, 49242
Valid prediction for snap_scaffold_8-snap.1698-T1
Couldn't classify 134819, 135074
Sorry, prediction pasa_asmbl_51973.p1 fails validation.
(TCA)	 CG	134819-135074	GT	AGG
(AGC)	 AG	136190-136351	GT	AGG
(TGC)	 AG	136853-137244	CA	AAC
-recovered pasa_asmbl_51973.p1, terminal, 136853, 137244
-recovered pasa_asmbl_51973.p1, internal, 136190, 136351
Valid prediction for snap_scaffold_8-snap.1713-T1
Valid prediction for GlimmerHMM_glimmerT_20203-T1
Valid prediction for snap_scaffold_8-snap.1683-T1
Valid prediction for GlimmerHMM_glimmerT_20201-T1
Valid prediction for snap_scaffold_8-snap.1725-T1
Valid prediction for GlimmerHMM_glimmerT_20194-T1
Valid prediction for GlimmerHMM_glimmerT_20199-T1
Valid prediction for snap_scaffold_8-snap.1690-T1
Valid prediction for GlimmerHMM_glimmerT_20205-T1
Valid prediction for GlimmerHMM_glimmerT_20202-T1
Valid prediction for snap_scaffold_8-snap.1706-T1
Valid prediction for snap_scaffold_8-snap.1711-T1
Valid prediction for snap_scaffold_8-snap.1694-T1
Valid prediction for snap_scaffold_8-snap.1686-T1
Valid prediction for GlimmerHMM_glimmerT_20214-T1
Valid prediction for snap_scaffold_8-snap.1704-T1
Valid prediction for snap_scaffold_8-snap.1689-T1
Valid prediction for snap_scaffold_8-snap.1723-T1
Couldn't classify 130073, 130210
Couldn't classify 131340, 131352
Sorry, prediction pasa_asmbl_51975.p1 fails validation.
(GTG)	 GG	130073-130210	GT	AGG
(GAG)	 AG	130404-130565	GT	AGG
(AGT)	 AG	130645-130797	GT	AGG
(GCC)	 AG	131013-131155	GT	AAG
(ACA)	 AG	131340-131352	AC	AGA
-recovered pasa_asmbl_51975.p1, internal, 130404, 130565
-recovered pasa_asmbl_51975.p1, internal, 130645, 130797
-recovered pasa_asmbl_51975.p1, internal, 131013, 131155
Valid prediction for Augustus_model.g13435.t1
Valid prediction for GlimmerHMM_glimmerT_20204-T1
Valid prediction for pasa_asmbl_51981.p1
Valid prediction for Augustus_model.g13444.t1
Valid prediction for snap_scaffold_8-snap.1727-T1
Valid prediction for GlimmerHMM_glimmerT_20217-T1
Valid prediction for Augustus_model.g13430.t1
Valid prediction for GlimmerHMM_glimmerT_20208-T1
Valid prediction for HiQ_model.g13445.t1
Valid prediction for snap_scaffold_8-snap.1715-T1
Valid prediction for GlimmerHMM_glimmerT_20196-T1
Valid prediction for snap_scaffold_8-snap.1708-T1
Valid prediction for snap_scaffold_8-snap.1688-T1
Couldn't classify 36123, 36299
Sorry, prediction pasa_asmbl_51978.p1 fails validation.
(GTC)	 AG	36123-36299	GT	CGG
(GAC)	 AG	37041-37139	GT	TGG
(ATC)	 AG	37986-38150	GG	GAG
-recovered pasa_asmbl_51978.p1, terminal, 37986, 38150
-recovered pasa_asmbl_51978.p1, internal, 36123, 36299
-recovered pasa_asmbl_51978.p1, internal, 37041, 37139
Valid prediction for snap_scaffold_8-snap.1681-T1
Valid prediction for HiQ_model.g13441.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11218, rend_intergenic: 9865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18057, rend_intergenic: 11730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25524, rend_intergenic: 21497  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27903, rend_intergenic: 25657  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34936, rend_intergenic: 28561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49223, rend_intergenic: 39765  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54476, rend_intergenic: 49441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67455, rend_intergenic: 55927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88081, rend_intergenic: 80836  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121683, rend_intergenic: 112236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143419, rend_intergenic: 140269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159678, rend_intergenic: 154112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188365, rend_intergenic: 184481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189561, rend_intergenic: 189145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192828, rend_intergenic: 190823  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 213819, rend_intergenic: 211305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224713, rend_intergenic: 220766  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 242631, rend_intergenic: 236624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 249454
-exon list size: 484


building trellis

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94.2    
94.4    
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    
97.3    
97.5    
97.7    
97.9    
98.1    
98.4    
98.6    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 11218, rend_intergenic: 9865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18057, rend_intergenic: 11730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25524, rend_intergenic: 21497  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27903, rend_intergenic: 25657  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34936, rend_intergenic: 28561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49223, rend_intergenic: 39765  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54476, rend_intergenic: 49441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67455, rend_intergenic: 55927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88081, rend_intergenic: 80836  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121683, rend_intergenic: 112236  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143419, rend_intergenic: 140269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159678, rend_intergenic: 154112  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188365, rend_intergenic: 184481  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189561, rend_intergenic: 189145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192828, rend_intergenic: 190823  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 213819, rend_intergenic: 211305  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224713, rend_intergenic: 220766  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 242631, rend_intergenic: 236624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support