-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_10549415-10771255

-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_18034-T1
Valid prediction for HiQ_model.g12131.t1
Valid prediction for Augustus_model.g12121.t1
Valid prediction for Augustus_model.g12130.t1
Valid prediction for pasa_asmbl_50143.p1
Valid prediction for snap_scaffold_7-snap.2018-T1
Couldn't classify 146318, 146413
Couldn't classify 150519, 150617
Sorry, prediction pasa_asmbl_50140.p1 fails validation.
(GAT)	 TA	146318-146413	GT	TGG
(AAA)	 AG	149004-149263	GT	AGG
(GGA)	 AG	149797-149875	GT	GGG
(ATG)	 AG	150519-150617	GC	ACG
-recovered pasa_asmbl_50140.p1, initial, 150519, 150617
-recovered pasa_asmbl_50140.p1, internal, 149004, 149263
-recovered pasa_asmbl_50140.p1, internal, 149797, 149875
-recovered pasa_asmbl_50140.p1, internal, 150519, 150617
Valid prediction for Augustus_model.g12127.t1
Valid prediction for GlimmerHMM_glimmerT_18032-T1
Couldn't classify 119028, 119327
Sorry, prediction pasa_asmbl_50134.p1 fails validation.
(TGG)	 GC	119028-119327	CG	AGC
Valid prediction for GlimmerHMM_glimmerT_18031-T1
Valid prediction for snap_scaffold_7-snap.2024-T1
Valid prediction for snap_scaffold_7-snap.2034-T1
Valid prediction for snap_scaffold_7-snap.2045-T1
Valid prediction for GlimmerHMM_glimmerT_18030-T1
Valid prediction for GlimmerHMM_glimmerT_18028-T1
Valid prediction for CodingQuarry_transcript_57623-T1
Valid prediction for GlimmerHMM_glimmerT_18024-T1
Valid prediction for Augustus_model.g12128.t1
Valid prediction for GlimmerHMM_glimmerT_18025-T1
Valid prediction for GlimmerHMM_glimmerT_18033-T1
Valid prediction for snap_scaffold_7-snap.2027-T1
Valid prediction for Augustus_model.g12129.t1
Valid prediction for snap_scaffold_7-snap.2026-T1
Couldn't classify 133517, 133579
Sorry, prediction pasa_asmbl_50136.p1 fails validation.
(GCT)	 CA	133517-133579	GT	AGG
(TAT)	 AG	134704-134853	GT	GGG
(TTT)	 AG	137511-137597	GT	AGG
(GGC)	 AG	138180-138297	GT	CGG
(GTG)	 AG	138465-138574	CT	GAC
-recovered pasa_asmbl_50136.p1, terminal, 138465, 138574
-recovered pasa_asmbl_50136.p1, internal, 134704, 134853
-recovered pasa_asmbl_50136.p1, internal, 137511, 137597
-recovered pasa_asmbl_50136.p1, internal, 138180, 138297
Valid prediction for snap_scaffold_7-snap.2015-T1
Valid prediction for Augustus_model.g12117.t1
Valid prediction for GlimmerHMM_glimmerT_18014-T1
Valid prediction for snap_scaffold_7-snap.2030-T1
Valid prediction for GlimmerHMM_glimmerT_18018-T1
Valid prediction for Augustus_model.g12126.t1
Valid prediction for snap_scaffold_7-snap.2041-T1
Valid prediction for Augustus_model.g12122.t1
Valid prediction for snap_scaffold_7-snap.2016-T1
Valid prediction for GlimmerHMM_glimmerT_18035-T1
Valid prediction for GlimmerHMM_glimmerT_18020-T1
Valid prediction for CodingQuarry_transcript_57622-T1
Valid prediction for snap_scaffold_7-snap.2042-T1
Valid prediction for GlimmerHMM_glimmerT_18043-T1
Couldn't classify 3820, 4788
Sorry, prediction pasa_asmbl_50132.p1 fails validation.
(ATG)	 AG	3820-4788	GA	CCG
Valid prediction for GlimmerHMM_glimmerT_18022-T1
Valid prediction for snap_scaffold_7-snap.2021-T1
Valid prediction for GlimmerHMM_glimmerT_18042-T1
Valid prediction for snap_scaffold_7-snap.2038-T1
Couldn't classify 114191, 114416
Couldn't classify 116061, 116179
Sorry, prediction pasa_asmbl_50618.p1 fails validation.
(CAG)	 CT	114191-114416	GT	GGG
(AAC)	 AG	116061-116179	GT	GGG
-recovered pasa_asmbl_50618.p1, internal, 116061, 116179
Valid prediction for snap_scaffold_7-snap.2037-T1
Valid prediction for snap_scaffold_7-snap.2047-T1
Valid prediction for Augustus_model.g12116.t1
Valid prediction for GlimmerHMM_glimmerT_18036-T1
Valid prediction for snap_scaffold_7-snap.2022-T1
Valid prediction for GlimmerHMM_glimmerT_18040-T1
Valid prediction for snap_scaffold_7-snap.2031-T1
Valid prediction for GlimmerHMM_glimmerT_18038-T1
Valid prediction for GlimmerHMM_glimmerT_18015-T1
Valid prediction for snap_scaffold_7-snap.2048-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 GlimmerHMM_glimmerT_18041-T1
Valid prediction for snap_scaffold_7-snap.2039-T1
Valid prediction for snap_scaffold_7-snap.2020-T1
Valid prediction for Augustus_model.g12123.t1
Valid prediction for GlimmerHMM_glimmerT_18039-T1
Valid prediction for Augustus_model.g12120.t1
Valid prediction for GlimmerHMM_glimmerT_18016-T1
Valid prediction for GlimmerHMM_glimmerT_18029-T1
Valid prediction for snap_scaffold_7-snap.2035-T1
Valid prediction for GlimmerHMM_glimmerT_18027-T1
Valid prediction for snap_scaffold_7-snap.2049-T1
Valid prediction for snap_scaffold_7-snap.2046-T1
Valid prediction for snap_scaffold_7-snap.2033-T1
Valid prediction for GlimmerHMM_glimmerT_18023-T1
Valid prediction for snap_scaffold_7-snap.2044-T1
Valid prediction for snap_scaffold_7-snap.2040-T1
Valid prediction for snap_scaffold_7-snap.2023-T1
Valid prediction for GlimmerHMM_glimmerT_18037-T1
Valid prediction for Augustus_model.g12119.t1
Valid prediction for snap_scaffold_7-snap.2019-T1
Valid prediction for GlimmerHMM_glimmerT_18017-T1
Valid prediction for GlimmerHMM_glimmerT_18021-T1
Valid prediction for Augustus_model.g12134.t1
Valid prediction for Augustus_model.g12133.t1
Valid prediction for Augustus_model.g12135.t1
Valid prediction for snap_scaffold_7-snap.2029-T1
Valid prediction for GlimmerHMM_glimmerT_18019-T1
Valid prediction for Augustus_model.g12125.t1
Valid prediction for snap_scaffold_7-snap.2017-T1
Valid prediction for snap_scaffold_7-snap.2032-T1
Valid prediction for snap_scaffold_7-snap.2025-T1
Valid prediction for snap_scaffold_7-snap.2036-T1
Valid prediction for GlimmerHMM_glimmerT_18044-T1
Valid prediction for Augustus_model.g12118.t1
Valid prediction for snap_scaffold_7-snap.2043-T1
Valid prediction for snap_scaffold_7-snap.2050-T1
Valid prediction for Augustus_model.g12132.t1
Couldn't classify 199572, 199839
Sorry, prediction pasa_asmbl_51137.p1 fails validation.
(GCC)	 CT	199572-199839	GT	AGG
(GTG)	 AG	202503-202582	TT	AGT
-recovered pasa_asmbl_51137.p1, terminal, 202503, 202582
Valid prediction for GlimmerHMM_glimmerT_18026-T1
Valid prediction for snap_scaffold_7-snap.2051-T1
Valid prediction for snap_scaffold_7-snap.2028-T1
Valid prediction for Augustus_model.g12124.t1
Valid prediction for pasa_asmbl_51139.p1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 185311, rend_intergenic: 185308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24816, rend_intergenic: 19296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33134, rend_intergenic: 25092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44934, rend_intergenic: 33678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53201, rend_intergenic: 46856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54682, rend_intergenic: 53358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56649, rend_intergenic: 55161  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65604, rend_intergenic: 57281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92493, rend_intergenic: 86388  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117562, rend_intergenic: 111567  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121968, rend_intergenic: 117599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138574, rend_intergenic: 129272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169733, rend_intergenic: 149019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193645, rend_intergenic: 175253  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 205406, rend_intergenic: 194776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 221841
-exon list size: 425


building trellis

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97.9    
98.1    
98.4    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 35 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 185311, rend_intergenic: 185308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24816, rend_intergenic: 19296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33134, rend_intergenic: 25092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44934, rend_intergenic: 33678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53201, rend_intergenic: 46856  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54682, rend_intergenic: 53358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56649, rend_intergenic: 55161  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65604, rend_intergenic: 57281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92493, rend_intergenic: 86388  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117562, rend_intergenic: 111567  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121968, rend_intergenic: 117599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138574, rend_intergenic: 129272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169733, rend_intergenic: 149019  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193645, rend_intergenic: 175253  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 205406, rend_intergenic: 194776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support