-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_6/scaffold_6_6455913-6616834

-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_6-snap.1473-T1
Valid prediction for GlimmerHMM_glimmerT_15160-T1
Valid prediction for GlimmerHMM_glimmerT_15161-T1
Valid prediction for snap_scaffold_6-snap.1504-T1
Valid prediction for GlimmerHMM_glimmerT_15159-T1
Valid prediction for GlimmerHMM_glimmerT_15174-T1
Valid prediction for GeneMark_model.25618_t
Valid prediction for GlimmerHMM_glimmerT_15157-T1
Valid prediction for GeneMark_model.25630_t
Valid prediction for Augustus_model.g10100.t1
Valid prediction for snap_scaffold_6-snap.1488-T1
Valid prediction for GeneMark_model.25616_t
Valid prediction for snap_scaffold_6-snap.1469-T1
Valid prediction for GeneMark_model.25620_t
Valid prediction for snap_scaffold_6-snap.1483-T1
Valid prediction for GeneMark_model.25634_t
Valid prediction for GeneMark_model.25641_t
Valid prediction for snap_scaffold_6-snap.1466-T1
Valid prediction for GlimmerHMM_glimmerT_15172-T1
Valid prediction for GlimmerHMM_glimmerT_15163-T1
Valid prediction for Augustus_model.g10090.t1
Couldn't classify 48153, 48250
Sorry, prediction pasa_asmbl_46943.p1 fails validation.
(CTA)	 TA	48153-48250	GT	TGG
(CAT)	 AG	48488-48707	CT	GAC
-recovered pasa_asmbl_46943.p1, terminal, 48488, 48707
Valid prediction for GlimmerHMM_glimmerT_15181-T1
Valid prediction for GeneMark_model.25640_t
Valid prediction for snap_scaffold_6-snap.1474-T1
Valid prediction for GlimmerHMM_glimmerT_15170-T1
Valid prediction for GeneMark_model.25625_t
Valid prediction for GeneMark_model.25645_t
Valid prediction for GeneMark_model.25615_t
Valid prediction for snap_scaffold_6-snap.1494-T1
Valid prediction for Augustus_model.g10099.t1
Valid prediction for Augustus_model.g10097.t1
Valid prediction for snap_scaffold_6-snap.1501-T1
Valid prediction for snap_scaffold_6-snap.1486-T1
Valid prediction for snap_scaffold_6-snap.1502-T1
Valid prediction for GlimmerHMM_glimmerT_15180-T1
Valid prediction for Augustus_model.g10101.t1
Valid prediction for GlimmerHMM_glimmerT_15179-T1
Valid prediction for GeneMark_model.25637_t
Valid prediction for snap_scaffold_6-snap.1467-T1
Valid prediction for GeneMark_model.25606_t
Valid prediction for GlimmerHMM_glimmerT_15182-T1
Valid prediction for GeneMark_model.25643_t
Valid prediction for GlimmerHMM_glimmerT_15164-T1
Valid prediction for snap_scaffold_6-snap.1496-T1
Valid prediction for GeneMark_model.25628_t
Valid prediction for GeneMark_model.25610_t
Valid prediction for GeneMark_model.25612_t
Valid prediction for snap_scaffold_6-snap.1482-T1
Valid prediction for GlimmerHMM_glimmerT_15166-T1
Valid prediction for snap_scaffold_6-snap.1485-T1
Valid prediction for snap_scaffold_6-snap.1478-T1
Valid prediction for snap_scaffold_6-snap.1505-T1
Valid prediction for HiQ_model.g10093.t1
Valid prediction for snap_scaffold_6-snap.1491-T1
Valid prediction for snap_scaffold_6-snap.1492-T1
Valid prediction for GeneMark_model.25639_t
Valid prediction for GeneMark_model.25647_t
Valid prediction for snap_scaffold_6-snap.1471-T1
Valid prediction for GeneMark_model.25608_t

-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_48396.p1
Valid prediction for snap_scaffold_6-snap.1489-T1
Valid prediction for GeneMark_model.25627_t
Valid prediction for snap_scaffold_6-snap.1468-T1
Valid prediction for GlimmerHMM_glimmerT_15171-T1
Valid prediction for snap_scaffold_6-snap.1493-T1
Valid prediction for GlimmerHMM_glimmerT_15169-T1
Valid prediction for GlimmerHMM_glimmerT_15165-T1
Valid prediction for snap_scaffold_6-snap.1480-T1
Valid prediction for GlimmerHMM_glimmerT_15173-T1
Valid prediction for Augustus_model.g10091.t1
Valid prediction for GeneMark_model.25619_t
Valid prediction for GeneMark_model.25621_t
Valid prediction for GeneMark_model.25607_t
Valid prediction for snap_scaffold_6-snap.1481-T1
Valid prediction for GlimmerHMM_glimmerT_15175-T1
Valid prediction for GeneMark_model.25613_t
Valid prediction for GeneMark_model.25635_t
Valid prediction for GeneMark_model.25633_t
Valid prediction for snap_scaffold_6-snap.1475-T1
Valid prediction for snap_scaffold_6-snap.1479-T1
Valid prediction for HiQ_model.g10098.t1
Valid prediction for GlimmerHMM_glimmerT_15176-T1
Valid prediction for HiQ_model.g10094.t1
Valid prediction for GlimmerHMM_glimmerT_15168-T1
Valid prediction for GeneMark_model.25623_t
Valid prediction for snap_scaffold_6-snap.1472-T1
Valid prediction for snap_scaffold_6-snap.1477-T1
Valid prediction for GeneMark_model.25622_t
Valid prediction for GlimmerHMM_glimmerT_15167-T1
Valid prediction for GlimmerHMM_glimmerT_15178-T1
Valid prediction for GeneMark_model.25644_t
Valid prediction for GeneMark_model.25629_t
Valid prediction for GeneMark_model.25632_t
Valid prediction for pasa_asmbl_48398.p1
Valid prediction for GeneMark_model.25611_t
Valid prediction for GlimmerHMM_glimmerT_15162-T1
Valid prediction for GeneMark_model.25642_t
Valid prediction for GeneMark_model.25617_t
Valid prediction for snap_scaffold_6-snap.1470-T1
Valid prediction for snap_scaffold_6-snap.1497-T1
Valid prediction for GeneMark_model.25609_t
Valid prediction for Augustus_model.g10092.t1
Valid prediction for snap_scaffold_6-snap.1476-T1
Valid prediction for GeneMark_model.25631_t
Valid prediction for snap_scaffold_6-snap.1487-T1
Valid prediction for GlimmerHMM_glimmerT_15158-T1
Valid prediction for snap_scaffold_6-snap.1484-T1
Valid prediction for snap_scaffold_6-snap.1500-T1
Valid prediction for CodingQuarry_transcript_54925-T1
Valid prediction for snap_scaffold_6-snap.1490-T1
Valid prediction for GeneMark_model.25626_t
Valid prediction for GeneMark_model.25646_t
Valid prediction for snap_scaffold_6-snap.1499-T1
Valid prediction for Augustus_model.g10095.t1
Valid prediction for GeneMark_model.25614_t
Valid prediction for snap_scaffold_6-snap.1498-T1
Valid prediction for snap_scaffold_6-snap.1503-T1
Valid prediction for GlimmerHMM_glimmerT_15177-T1
Valid prediction for GeneMark_model.25638_t
Valid prediction for GeneMark_model.25624_t
Valid prediction for snap_scaffold_6-snap.1495-T1
Valid prediction for Augustus_model.g10096.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11862, rend_intergenic: 10274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21013, rend_intergenic: 15331  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27603, rend_intergenic: 21073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30053, rend_intergenic: 27618  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30065, rend_intergenic: 30062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70903, rend_intergenic: 64813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86187, rend_intergenic: 82318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107966, rend_intergenic: 107416  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112866, rend_intergenic: 110395  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117639, rend_intergenic: 112896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120410, rend_intergenic: 117779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129443, rend_intergenic: 125943  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133107, rend_intergenic: 132186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145239, rend_intergenic: 135056  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148784, rend_intergenic: 145801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156677, rend_intergenic: 153839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 95200, rend_intergenic: 95197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 160922
-exon list size: 591


building trellis

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30.9    
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86.7    
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88.2    
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96.6    
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98.1    
98.3    
98.5    
98.7    
98.8    
99.0    
99.2    
99.3    
99.5    
99.7    
99.8    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 11862, rend_intergenic: 10274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21013, rend_intergenic: 15331  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27603, rend_intergenic: 21073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30053, rend_intergenic: 27618  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30065, rend_intergenic: 30062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70903, rend_intergenic: 64813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86187, rend_intergenic: 82318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107966, rend_intergenic: 107416  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112866, rend_intergenic: 110395  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117639, rend_intergenic: 112896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120410, rend_intergenic: 117779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129443, rend_intergenic: 125943  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133107, rend_intergenic: 132186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145239, rend_intergenic: 135056  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148784, rend_intergenic: 145801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156677, rend_intergenic: 153839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 95200, rend_intergenic: 95197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support