-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_7604466-7815613

-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 Augustus_model.g28467.t1
Valid prediction for GlimmerHMM_glimmerT_42660-T1
Valid prediction for pasa_asmbl_20789.p1
Valid prediction for snap_scaffold_18-snap.1634-T1
Valid prediction for CodingQuarry_transcript_23824-T1
Valid prediction for snap_scaffold_18-snap.1614-T1
Valid prediction for CodingQuarry_transcript_23823-T1
Valid prediction for GlimmerHMM_glimmerT_42662-T1
Valid prediction for CodingQuarry_transcript_23821-T1
Valid prediction for snap_scaffold_18-snap.1621-T1
Valid prediction for Augustus_model.g28451.t1
Valid prediction for GlimmerHMM_glimmerT_42650-T1
Valid prediction for GlimmerHMM_glimmerT_42654-T1
Valid prediction for GlimmerHMM_glimmerT_42661-T1
Valid prediction for CodingQuarry_transcript_23828-T1
Valid prediction for Augustus_model.g28455.t1
Couldn't classify 18061, 18708
Couldn't classify 18830, 18967
Sorry, prediction pasa_asmbl_20753.p1 fails validation.
(GGG)	 CA	18061-18708	GT	ACG
(TAT)	 AG	18830-18967	AG	CCA
Valid prediction for Augustus_model.g28453.t1
Valid prediction for pasa_asmbl_20788.p1
Valid prediction for snap_scaffold_18-snap.1613-T1
Valid prediction for snap_scaffold_18-snap.1615-T1
Valid prediction for snap_scaffold_18-snap.1627-T1
Valid prediction for GlimmerHMM_glimmerT_42666-T1
Valid prediction for pasa_asmbl_20791.p1
Valid prediction for GlimmerHMM_glimmerT_42655-T1
Valid prediction for snap_scaffold_18-snap.1617-T1
Valid prediction for snap_scaffold_18-snap.1620-T1
Valid prediction for pasa_asmbl_20754.p1
Valid prediction for snap_scaffold_18-snap.1604-T1
Valid prediction for snap_scaffold_18-snap.1628-T1
Valid prediction for snap_scaffold_18-snap.1638-T1
Valid prediction for snap_scaffold_18-snap.1593-T1
Valid prediction for GlimmerHMM_glimmerT_42670-T1
Valid prediction for Augustus_model.g28458.t1
Valid prediction for snap_scaffold_18-snap.1626-T1
Valid prediction for HiQ_model.g28443.t1
Valid prediction for CodingQuarry_transcript_23819-T1
Valid prediction for snap_scaffold_18-snap.1595-T1
Valid prediction for snap_scaffold_18-snap.1596-T1
Valid prediction for Augustus_model.g28461.t1
Valid prediction for pasa_asmbl_20777.p1
Valid prediction for snap_scaffold_18-snap.1623-T1
Valid prediction for GlimmerHMM_glimmerT_42668-T1
Valid prediction for snap_scaffold_18-snap.1618-T1
Valid prediction for Augustus_model.g28459.t1
Valid prediction for snap_scaffold_18-snap.1625-T1
Valid prediction for HiQ_model.g28448.t1
Valid prediction for CodingQuarry_transcript_23827-T1
Valid prediction for snap_scaffold_18-snap.1635-T1
Valid prediction for Augustus_model.g28463.t1
Valid prediction for snap_scaffold_18-snap.1612-T1
Valid prediction for CodingQuarry_transcript_23822-T1
Valid prediction for GlimmerHMM_glimmerT_42657-T1
Valid prediction for snap_scaffold_18-snap.1610-T1
Valid prediction for HiQ_model.g28447.t1
Valid prediction for HiQ_model.g28449.t1
Valid prediction for snap_scaffold_18-snap.1605-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_18-snap.1637-T1
Valid prediction for snap_scaffold_18-snap.1622-T1
Couldn't classify 191899, 191950
Couldn't classify 193333, 193402
Sorry, prediction pasa_asmbl_20793.p1 fails validation.
(GCA)	 TG	191899-191950	GT	TGG
(AGT)	 AG	192276-192415	GT	AGG
(GTG)	 AG	192541-192598	GT	AGG
(GTG)	 AG	192955-193009	GT	CGG
(GAT)	 AG	193333-193402	GT	AGG
-recovered pasa_asmbl_20793.p1, internal, 192276, 192415
-recovered pasa_asmbl_20793.p1, internal, 192541, 192598
-recovered pasa_asmbl_20793.p1, internal, 192955, 193009
-recovered pasa_asmbl_20793.p1, internal, 193333, 193402
Valid prediction for Augustus_model.g28456.t1
Valid prediction for Augustus_model.g28465.t1
Valid prediction for snap_scaffold_18-snap.1609-T1
Valid prediction for snap_scaffold_18-snap.1633-T1
Valid prediction for snap_scaffold_18-snap.1607-T1
Valid prediction for Augustus_model.g28464.t1
Valid prediction for GlimmerHMM_glimmerT_42665-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 pasa_asmbl_19965.p1
Valid prediction for Augustus_model.g28445.t1
Valid prediction for HiQ_model.g28466.t1
Valid prediction for snap_scaffold_18-snap.1632-T1
Valid prediction for Augustus_model.g28450.t1
Valid prediction for CodingQuarry_transcript_23829-T1
Valid prediction for GlimmerHMM_glimmerT_42653-T1
Valid prediction for Augustus_model.g28442.t1
Valid prediction for GlimmerHMM_glimmerT_42663-T1
Valid prediction for GlimmerHMM_glimmerT_42649-T1
Valid prediction for snap_scaffold_18-snap.1600-T1
Valid prediction for GlimmerHMM_glimmerT_42658-T1
Valid prediction for snap_scaffold_18-snap.1616-T1
Valid prediction for snap_scaffold_18-snap.1608-T1
Valid prediction for Augustus_model.g28460.t1
Valid prediction for Augustus_model.g28462.t1
Valid prediction for Augustus_model.g28446.t1
Valid prediction for snap_scaffold_18-snap.1602-T1
Valid prediction for pasa_asmbl_19975.p1
Valid prediction for snap_scaffold_18-snap.1629-T1
Valid prediction for snap_scaffold_18-snap.1603-T1
Valid prediction for Augustus_model.g28454.t1
Valid prediction for snap_scaffold_18-snap.1594-T1
Valid prediction for snap_scaffold_18-snap.1631-T1
Valid prediction for snap_scaffold_18-snap.1636-T1
Valid prediction for snap_scaffold_18-snap.1630-T1
Valid prediction for pasa_asmbl_19979.p1
Valid prediction for snap_scaffold_18-snap.1597-T1
Valid prediction for GlimmerHMM_glimmerT_42667-T1
Couldn't classify 156886, 157356
Sorry, prediction pasa_asmbl_21099.p1 fails validation.
(TTG)	 TT	156886-157356	TT	ACT
Valid prediction for GlimmerHMM_glimmerT_42651-T1
Valid prediction for GlimmerHMM_glimmerT_42659-T1
Valid prediction for snap_scaffold_18-snap.1599-T1
Valid prediction for snap_scaffold_18-snap.1592-T1
Valid prediction for snap_scaffold_18-snap.1619-T1
Valid prediction for GlimmerHMM_glimmerT_42652-T1
Couldn't classify 88113, 88427
Sorry, prediction pasa_asmbl_19973.p4 fails validation.
(ATG)	 TA	88113-88427	CA	GCC
Valid prediction for HiQ_model.g28452.t1
Valid prediction for Augustus_model.g28468.t1
Valid prediction for GlimmerHMM_glimmerT_42664-T1
Valid prediction for Augustus_model.g28457.t1
Valid prediction for snap_scaffold_18-snap.1624-T1
Valid prediction for HiQ_model.g28444.t1
Valid prediction for GlimmerHMM_glimmerT_42656-T1
Valid prediction for snap_scaffold_18-snap.1639-T1
Valid prediction for GlimmerHMM_glimmerT_42669-T1
Valid prediction for snap_scaffold_18-snap.1606-T1
Valid prediction for GlimmerHMM_glimmerT_42673-T1
Valid prediction for snap_scaffold_18-snap.1611-T1
Valid prediction for CodingQuarry_transcript_23826-T1
Valid prediction for snap_scaffold_18-snap.1601-T1
Valid prediction for snap_scaffold_18-snap.1591-T1
Valid prediction for GlimmerHMM_glimmerT_42671-T1
Valid prediction for GlimmerHMM_glimmerT_42648-T1
Valid prediction for snap_scaffold_18-snap.1598-T1
Valid prediction for GlimmerHMM_glimmerT_42672-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11967, rend_intergenic: 6901  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76900, rend_intergenic: 75555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101017, rend_intergenic: 96675  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 211148
-exon list size: 354


building trellis

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12.6    
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30.1    
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48.6    
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85.4    
85.7    
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89.3    
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90.4    
90.7    
91.0    
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91.6    
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92.1    
92.4    
92.7    
93.0    
93.3    
93.5    
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94.4    
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95.5    
95.8    
96.1    
96.3    
96.6    
96.9    
97.2    
97.5    
97.8    
98.0    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 40 predictions from path traversal
Error with prediction: snap lend_intergenic: 11967, rend_intergenic: 6901  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76900, rend_intergenic: 75555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101017, rend_intergenic: 96675  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 34 predictions persist after filtering for low support