-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_7705690-8082920

-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_7-snap.1608-T1
Valid prediction for Augustus_model.g11867.t1
Valid prediction for snap_scaffold_7-snap.1560-T1
Valid prediction for CodingQuarry_transcript_57554-T1
Valid prediction for GlimmerHMM_glimmerT_17707-T1
Valid prediction for GlimmerHMM_glimmerT_17718-T1
Valid prediction for Augustus_model.g11863.t1
Valid prediction for snap_scaffold_7-snap.1574-T1
Valid prediction for snap_scaffold_7-snap.1579-T1
Valid prediction for snap_scaffold_7-snap.1564-T1
Valid prediction for snap_scaffold_7-snap.1605-T1
Valid prediction for Augustus_model.g11876.t1
Valid prediction for Augustus_model.g11871.t1
Valid prediction for HiQ_model.g11862.t1
Valid prediction for Augustus_model.g11870.t1
Valid prediction for GlimmerHMM_glimmerT_17700-T1
Valid prediction for snap_scaffold_7-snap.1576-T1
Valid prediction for pasa_asmbl_49951.p1
Valid prediction for snap_scaffold_7-snap.1573-T1
Valid prediction for snap_scaffold_7-snap.1597-T1
Couldn't classify 68488, 68736
Couldn't classify 68965, 69429
Sorry, prediction pasa_asmbl_49938.p1 fails validation.
(AGA)	 GT	68488-68736	GT	AGG
(GAA)	 AG	68965-69429	CC	CCC
Valid prediction for snap_scaffold_7-snap.1566-T1
Valid prediction for GlimmerHMM_glimmerT_17712-T1
Valid prediction for snap_scaffold_7-snap.1578-T1
Valid prediction for snap_scaffold_7-snap.1599-T1
Valid prediction for snap_scaffold_7-snap.1586-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_7-snap.1607-T1
Valid prediction for GlimmerHMM_glimmerT_17717-T1
Valid prediction for Augustus_model.g11884.t1
Valid prediction for snap_scaffold_7-snap.1585-T1
Valid prediction for GlimmerHMM_glimmerT_17705-T1
Couldn't classify 64594, 64762
Sorry, prediction pasa_asmbl_49936.p1 fails validation.
(AAT)	 AA	64594-64762	GT	AGG
(GAT)	 AG	64959-65072	GT	AAG
(AGT)	 AG	65270-65379	CA	AGC
-recovered pasa_asmbl_49936.p1, terminal, 65270, 65379
-recovered pasa_asmbl_49936.p1, internal, 64959, 65072
Valid prediction for snap_scaffold_7-snap.1587-T1
Valid prediction for GlimmerHMM_glimmerT_17722-T1
Valid prediction for GlimmerHMM_glimmerT_17698-T1
Valid prediction for pasa_asmbl_49948.p1
Valid prediction for snap_scaffold_7-snap.1568-T1
Valid prediction for snap_scaffold_7-snap.1598-T1
Valid prediction for snap_scaffold_7-snap.1611-T1
Couldn't classify 279969, 280418
Sorry, prediction pasa_asmbl_49944.p1 fails validation.
(CCC)	 AC	279969-280418	AC	AGA
Valid prediction for snap_scaffold_7-snap.1565-T1
Couldn't classify 138042, 139016
Sorry, prediction pasa_asmbl_49943.p1 fails validation.
(CGA)	 CC	138042-139016	AG	AAA
Valid prediction for snap_scaffold_7-snap.1588-T1
Valid prediction for snap_scaffold_7-snap.1606-T1
Couldn't classify 70024, 70282
Couldn't classify 70442, 70536
Sorry, prediction pasa_asmbl_49939.p1 fails validation.
(AAA)	 TC	70024-70282	GT	AGG
(AGG)	 AG	70442-70536	GC	AGG
-recovered pasa_asmbl_49939.p1, internal, 70442, 70536
Valid prediction for GlimmerHMM_glimmerT_17703-T1
Valid prediction for Augustus_model.g11860.t1
Valid prediction for GlimmerHMM_glimmerT_17720-T1
Valid prediction for GlimmerHMM_glimmerT_17701-T1
Valid prediction for snap_scaffold_7-snap.1614-T1
Valid prediction for GlimmerHMM_glimmerT_17721-T1
Valid prediction for snap_scaffold_7-snap.1569-T1
Valid prediction for GlimmerHMM_glimmerT_17699-T1
Couldn't classify 276012, 276117
Couldn't classify 276345, 276568
Sorry, prediction pasa_asmbl_50599.p1 fails validation.
(GGT)	 CA	276012-276117	GT	AGG
(GTG)	 AG	276345-276568	GG	GAG
Valid prediction for snap_scaffold_7-snap.1567-T1
Valid prediction for Augustus_model.g11868.t1
Valid prediction for snap_scaffold_7-snap.1562-T1
Valid prediction for Augustus_model.g11883.t1
Couldn't classify 353125, 353166
Couldn't classify 358241, 358306
Sorry, prediction pasa_asmbl_49950.p1 fails validation.
(CTC)	 TA	353125-353166	GT	AGG
(ATG)	 AG	353356-353550	GT	AGG
(AAT)	 AG	353695-353887	GT	AGG
(ACC)	 AG	354002-354130	GT	AGG
(CTG)	 AG	354325-354413	GT	AGG
(CTG)	 AG	354571-354773	GT	AAG
(CAC)	 AG	355017-355140	GT	ATG
(AAA)	 AG	355839-355964	GT	AGG
(CAA)	 AG	358241-358306	AT	ACA
-recovered pasa_asmbl_49950.p1, initial, 353356, 353550
-recovered pasa_asmbl_49950.p1, internal, 353356, 353550
-recovered pasa_asmbl_49950.p1, internal, 353695, 353887
-recovered pasa_asmbl_49950.p1, internal, 354002, 354130
-recovered pasa_asmbl_49950.p1, internal, 354325, 354413
-recovered pasa_asmbl_49950.p1, internal, 354571, 354773
-recovered pasa_asmbl_49950.p1, internal, 355017, 355140
-recovered pasa_asmbl_49950.p1, internal, 355839, 355964
Valid prediction for Augustus_model.g11861.t1
Valid prediction for GlimmerHMM_glimmerT_17702-T1
Valid prediction for Augustus_model.g11880.t1
Valid prediction for snap_scaffold_7-snap.1563-T1
Couldn't classify 367870, 368217
Sorry, prediction pasa_asmbl_49954.p1 fails validation.
(CTC)	 AA	367870-368217	AG	AAA

-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_7-snap.1595-T1
Valid prediction for snap_scaffold_7-snap.1612-T1
Valid prediction for snap_scaffold_7-snap.1570-T1
Valid prediction for GlimmerHMM_glimmerT_17708-T1
Valid prediction for GlimmerHMM_glimmerT_17713-T1
Valid prediction for Augustus_model.g11875.t1
Valid prediction for snap_scaffold_7-snap.1584-T1
Valid prediction for Augustus_model.g11874.t1
Valid prediction for HiQ_model.g11885.t1
Valid prediction for GlimmerHMM_glimmerT_17711-T1
Valid prediction for Augustus_model.g11859.t1
Couldn't classify 294654, 294674
Sorry, prediction pasa_asmbl_50972.p1 fails validation.
(GGT)	 CT	294654-294674	GC	TGG
(GTG)	 AG	294929-294944	GT	AGG
(CCA)	 AG	295121-295188	GT	AGG
(GGG)	 AG	295327-295431	GT	AGG
(GGT)	 AG	295571-295675	TT	GAT
-recovered pasa_asmbl_50972.p1, terminal, 295571, 295675
-recovered pasa_asmbl_50972.p1, internal, 294929, 294944
-recovered pasa_asmbl_50972.p1, internal, 295121, 295188
-recovered pasa_asmbl_50972.p1, internal, 295327, 295431
Valid prediction for snap_scaffold_7-snap.1591-T1
Valid prediction for snap_scaffold_7-snap.1594-T1
Valid prediction for snap_scaffold_7-snap.1583-T1
Valid prediction for snap_scaffold_7-snap.1572-T1
Valid prediction for GlimmerHMM_glimmerT_17723-T1
Valid prediction for snap_scaffold_7-snap.1596-T1
Valid prediction for snap_scaffold_7-snap.1613-T1
Valid prediction for snap_scaffold_7-snap.1610-T1
Valid prediction for snap_scaffold_7-snap.1571-T1
Valid prediction for snap_scaffold_7-snap.1601-T1
Valid prediction for GlimmerHMM_glimmerT_17709-T1
Valid prediction for Augustus_model.g11865.t1
Valid prediction for Augustus_model.g11881.t1
Valid prediction for snap_scaffold_7-snap.1604-T1
Valid prediction for snap_scaffold_7-snap.1577-T1
Valid prediction for GlimmerHMM_glimmerT_17710-T1
Valid prediction for Augustus_model.g11872.t1
Valid prediction for snap_scaffold_7-snap.1602-T1
Valid prediction for snap_scaffold_7-snap.1589-T1
Valid prediction for snap_scaffold_7-snap.1616-T1
Couldn't classify 300203, 300274
Sorry, prediction pasa_asmbl_50970.p1 fails validation.
(GAC)	 GT	300203-300274	GT	CTG
(GAT)	 AG	300570-300665	GT	TTG
(TGG)	 AG	301035-301130	GT	AGG
(GAC)	 AG	301407-301538	GT	AGG
(GAA)	 AG	301758-301955	GA	GAG
-recovered pasa_asmbl_50970.p1, terminal, 301758, 301955
-recovered pasa_asmbl_50970.p1, internal, 300570, 300665
-recovered pasa_asmbl_50970.p1, internal, 301035, 301130
-recovered pasa_asmbl_50970.p1, internal, 301407, 301538
Valid prediction for GlimmerHMM_glimmerT_17714-T1
Couldn't classify 294929, 294943
Sorry, prediction pasa_asmbl_50976.p1 fails validation.
(ATG)	 CC	293138-293246	GT	AGG
(AGA)	 AG	293499-293637	GT	GGG
(GAT)	 AG	293830-293986	GT	AGG
(GAA)	 AG	294096-294141	GT	TGG
(GCC)	 AG	294345-294383	GT	GGG
(GAG)	 AG	294586-294674	GC	TGG
(GTG)	 AG	294929-294943	GG	CAG
-recovered pasa_asmbl_50976.p1, initial, 293138, 293246
-recovered pasa_asmbl_50976.p1, internal, 293499, 293637
-recovered pasa_asmbl_50976.p1, internal, 293830, 293986
-recovered pasa_asmbl_50976.p1, internal, 294096, 294141
-recovered pasa_asmbl_50976.p1, internal, 294345, 294383
-recovered pasa_asmbl_50976.p1, internal, 294586, 294674
Couldn't classify 71112, 71241
Sorry, prediction pasa_asmbl_50981.p1 fails validation.
(CAG)	 TG	71112-71241	GT	CGG
(ACA)	 AG	73838-74043	GT	GGG
(GTA)	 AG	76526-77092	AG	GAA
-recovered pasa_asmbl_50981.p1, terminal, 76526, 77092
-recovered pasa_asmbl_50981.p1, internal, 73838, 74043
Valid prediction for Augustus_model.g11866.t1
Valid prediction for CodingQuarry_transcript_57555-T1
Valid prediction for Augustus_model.g11877.t1
Valid prediction for pasa_asmbl_50982.p1
Valid prediction for GlimmerHMM_glimmerT_17715-T1
Valid prediction for Augustus_model.g11869.t1
Valid prediction for GlimmerHMM_glimmerT_17697-T1
Valid prediction for snap_scaffold_7-snap.1609-T1
Valid prediction for snap_scaffold_7-snap.1582-T1
Valid prediction for Augustus_model.g11879.t1
Valid prediction for snap_scaffold_7-snap.1600-T1
Valid prediction for GlimmerHMM_glimmerT_17704-T1
Couldn't classify 153526, 153579
Sorry, prediction pasa_asmbl_50978.p1 fails validation.
(TAC)	 CA	153526-153579	GT	AGG
(TTT)	 AG	153734-153832	GT	AGG
(GTG)	 AG	154151-154244	GT	TGG
(GGC)	 AG	154928-155005	GT	GGG
(GTC)	 AG	155720-155859	GT	AGG
(ATT)	 AG	157896-157997	GT	GGG
(GTC)	 AG	158855-158952	GT	ACG
(AAT)	 AG	159150-159273	GT	AGG
(GTG)	 AG	160561-160711	GT	CGG
(ACA)	 AG	160978-161060	GT	AGG
(ATC)	 AG	161153-161257	GT	TGG
(TAT)	 AG	161414-161543	GT	GGG
(GTC)	 AG	162763-162905	GA	AAG
-recovered pasa_asmbl_50978.p1, terminal, 162763, 162905
-recovered pasa_asmbl_50978.p1, internal, 153734, 153832
-recovered pasa_asmbl_50978.p1, internal, 154151, 154244
-recovered pasa_asmbl_50978.p1, internal, 154928, 155005
-recovered pasa_asmbl_50978.p1, internal, 155720, 155859
-recovered pasa_asmbl_50978.p1, internal, 157896, 157997
-recovered pasa_asmbl_50978.p1, internal, 158855, 158952
-recovered pasa_asmbl_50978.p1, internal, 159150, 159273
-recovered pasa_asmbl_50978.p1, internal, 160561, 160711
-recovered pasa_asmbl_50978.p1, internal, 160978, 161060
-recovered pasa_asmbl_50978.p1, internal, 161153, 161257
-recovered pasa_asmbl_50978.p1, internal, 161414, 161543
Valid prediction for GlimmerHMM_glimmerT_17706-T1
Valid prediction for GlimmerHMM_glimmerT_17716-T1
Valid prediction for snap_scaffold_7-snap.1590-T1
Valid prediction for snap_scaffold_7-snap.1561-T1
Valid prediction for HiQ_model.g11878.t1
Valid prediction for Augustus_model.g11873.t1
Valid prediction for HiQ_model.g11882.t1
Valid prediction for snap_scaffold_7-snap.1575-T1
Valid prediction for snap_scaffold_7-snap.1592-T1
Valid prediction for Augustus_model.g11864.t1
Valid prediction for snap_scaffold_7-snap.1580-T1
Valid prediction for snap_scaffold_7-snap.1615-T1
Valid prediction for CodingQuarry_transcript_57556-T1
Valid prediction for snap_scaffold_7-snap.1581-T1
Couldn't classify 365857, 366045
Couldn't classify 368101, 368145
Sorry, prediction pasa_asmbl_51530.p1 fails validation.
(GCT)	 CA	365857-366045	GT	CTG
(ATT)	 AG	367765-367875	GT	GGG
(TGT)	 AG	368101-368145	GG	GGG
-recovered pasa_asmbl_51530.p1, internal, 367765, 367875
Valid prediction for GlimmerHMM_glimmerT_17719-T1
Valid prediction for snap_scaffold_7-snap.1593-T1
Valid prediction for snap_scaffold_7-snap.1603-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10449, rend_intergenic: 6836  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 342465, rend_intergenic: 332315  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 357981, rend_intergenic: 345228  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 358795, rend_intergenic: 358117  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 368217, rend_intergenic: 359997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 377231
-exon list size: 479


building trellis

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97.5    
97.7    
97.9    
98.1    
98.3    
98.5    
98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 10449, rend_intergenic: 6836  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 342465, rend_intergenic: 332315  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 357981, rend_intergenic: 345228  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 358795, rend_intergenic: 358117  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 368217, rend_intergenic: 359997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 35 predictions persist after filtering for low support