-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_8344775-8543912

-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_18205-T1
Couldn't classify 159160, 159231
Sorry, prediction pasa_asmbl_50887.p1 fails validation.
(AGA)	 GC	159160-159231	GT	AGG
(GTT)	 AG	161888-161910	GT	AAG
(CAA)	 AG	162786-162992	GT	GGG
(TAC)	 AG	165306-165472	GT	CAG
(TGC)	 AG	165756-165792	GT	AGG
(AGA)	 AG	166333-166429	AA	AAA
-recovered pasa_asmbl_50887.p1, terminal, 166333, 166429
-recovered pasa_asmbl_50887.p1, internal, 161888, 161910
-recovered pasa_asmbl_50887.p1, internal, 162786, 162992
-recovered pasa_asmbl_50887.p1, internal, 165306, 165472
-recovered pasa_asmbl_50887.p1, internal, 165756, 165792
Valid prediction for Augustus_model.g12240.t1
Valid prediction for GeneMark_model.30545_t
Valid prediction for Augustus_model.g12238.t1
Valid prediction for GeneMark_model.30520_t
Valid prediction for snap_scaffold_7-snap.1700-T1
Valid prediction for GlimmerHMM_glimmerT_18209-T1
Valid prediction for GlimmerHMM_glimmerT_18196-T1
Valid prediction for GeneMark_model.30553_t
Valid prediction for Augustus_model.g12233.t1
Valid prediction for snap_scaffold_7-snap.1683-T1
Valid prediction for snap_scaffold_7-snap.1674-T1
Valid prediction for snap_scaffold_7-snap.1684-T1
Valid prediction for GeneMark_model.30539_t
Valid prediction for Augustus_model.g12245.t1
Valid prediction for Augustus_model.g12252.t1
Valid prediction for pasa_asmbl_50878.p1
Valid prediction for GeneMark_model.30536_t
Valid prediction for CodingQuarry_transcript_57413-T1
Valid prediction for Augustus_model.g12247.t1
Valid prediction for GlimmerHMM_glimmerT_18201-T1
Valid prediction for CodingQuarry_transcript_57416-T1
Valid prediction for GeneMark_model.30513_t
Valid prediction for snap_scaffold_7-snap.1675-T1
Valid prediction for snap_scaffold_7-snap.1676-T1
Valid prediction for GeneMark_model.30534_t
Valid prediction for Augustus_model.g12250.t1
Valid prediction for GeneMark_model.30529_t
Valid prediction for snap_scaffold_7-snap.1696-T1
Valid prediction for Augustus_model.g12251.t1
Valid prediction for snap_scaffold_7-snap.1690-T1
Valid prediction for snap_scaffold_7-snap.1694-T1
Valid prediction for GeneMark_model.30542_t
Valid prediction for snap_scaffold_7-snap.1682-T1
Valid prediction for GeneMark_model.30558_t
Valid prediction for snap_scaffold_7-snap.1693-T1
Valid prediction for snap_scaffold_7-snap.1685-T1
Valid prediction for GlimmerHMM_glimmerT_18194-T1
Valid prediction for GeneMark_model.30551_t
Valid prediction for snap_scaffold_7-snap.1698-T1
Valid prediction for snap_scaffold_7-snap.1697-T1
Valid prediction for snap_scaffold_7-snap.1680-T1
Valid prediction for GeneMark_model.30546_t
Valid prediction for GlimmerHMM_glimmerT_18203-T1
Valid prediction for GeneMark_model.30522_t
Valid prediction for snap_scaffold_7-snap.1678-T1
Valid prediction for CodingQuarry_transcript_57417-T1
Valid prediction for snap_scaffold_7-snap.1672-T1
Valid prediction for GlimmerHMM_glimmerT_18204-T1
Valid prediction for HiQ_model.g12249.t1
Valid prediction for pasa_asmbl_50898.p1
Valid prediction for Augustus_model.g12242.t1
Valid prediction for Augustus_model.g12246.t1
Valid prediction for GeneMark_model.30525_t
Valid prediction for GeneMark_model.30533_t
Valid prediction for GeneMark_model.30515_t
Valid prediction for GeneMark_model.30518_t
Valid prediction for GeneMark_model.30555_t
Valid prediction for snap_scaffold_7-snap.1701-T1
Valid prediction for GeneMark_model.30531_t
Valid prediction for Augustus_model.g12243.t1
Valid prediction for GeneMark_model.30538_t
Valid prediction for GeneMark_model.30517_t
Valid prediction for snap_scaffold_7-snap.1677-T1
Valid prediction for Augustus_model.g12244.t1
Valid prediction for CodingQuarry_transcript_57414-T1
Valid prediction for snap_scaffold_7-snap.1671-T1
Valid prediction for Augustus_model.g12236.t1
Valid prediction for pasa_asmbl_50871.p1
Valid prediction for snap_scaffold_7-snap.1699-T1
Valid prediction for GeneMark_model.30544_t
Valid prediction for GlimmerHMM_glimmerT_18210-T1
Valid prediction for CodingQuarry_transcript_57415-T1
Valid prediction for Augustus_model.g12248.t1
Valid prediction for GlimmerHMM_glimmerT_18212-T1
Valid prediction for GlimmerHMM_glimmerT_18195-T1
Valid prediction for GlimmerHMM_glimmerT_18208-T1
Valid prediction for snap_scaffold_7-snap.1670-T1
Valid prediction for snap_scaffold_7-snap.1703-T1
Valid prediction for CodingQuarry_transcript_57412-T1
Valid prediction for snap_scaffold_7-snap.1691-T1
Valid prediction for HiQ_model.g12237.t1
Valid prediction for snap_scaffold_7-snap.1692-T1
Valid prediction for GeneMark_model.30548_t
Valid prediction for snap_scaffold_7-snap.1669-T1
Valid prediction for GeneMark_model.30516_t
Valid prediction for GeneMark_model.30524_t
Valid prediction for GlimmerHMM_glimmerT_18189-T1
Valid prediction for GlimmerHMM_glimmerT_18197-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 GeneMark_model.30530_t
Valid prediction for GeneMark_model.30557_t
Valid prediction for GeneMark_model.30527_t
Valid prediction for GeneMark_model.30552_t
Valid prediction for GeneMark_model.30543_t
Valid prediction for GeneMark_model.30519_t
Valid prediction for GlimmerHMM_glimmerT_18202-T1
Valid prediction for GeneMark_model.30550_t
Valid prediction for GeneMark_model.30532_t
Valid prediction for GlimmerHMM_glimmerT_18193-T1
Valid prediction for GlimmerHMM_glimmerT_18200-T1
Valid prediction for GeneMark_model.30523_t
Valid prediction for GlimmerHMM_glimmerT_18191-T1
Valid prediction for Augustus_model.g12254.t1
Valid prediction for GlimmerHMM_glimmerT_18213-T1
Valid prediction for Augustus_model.g12239.t1
Valid prediction for snap_scaffold_7-snap.1687-T1
Valid prediction for GlimmerHMM_glimmerT_18198-T1
Valid prediction for snap_scaffold_7-snap.1688-T1
Valid prediction for Augustus_model.g12234.t1
Valid prediction for Augustus_model.g12241.t1
Valid prediction for snap_scaffold_7-snap.1689-T1
Valid prediction for GlimmerHMM_glimmerT_18199-T1
Valid prediction for snap_scaffold_7-snap.1668-T1
Valid prediction for Augustus_model.g12253.t1
Valid prediction for snap_scaffold_7-snap.1679-T1
Valid prediction for GlimmerHMM_glimmerT_18206-T1
Valid prediction for GeneMark_model.30547_t
Valid prediction for snap_scaffold_7-snap.1702-T1
Valid prediction for GeneMark_model.30521_t
Valid prediction for GeneMark_model.30535_t
Valid prediction for GlimmerHMM_glimmerT_18192-T1
Valid prediction for Augustus_model.g12232.t1
Valid prediction for snap_scaffold_7-snap.1673-T1
Valid prediction for snap_scaffold_7-snap.1681-T1
Valid prediction for GeneMark_model.30541_t
Valid prediction for Augustus_model.g12235.t1
Valid prediction for Augustus_model.g12231.t1
Valid prediction for GeneMark_model.30514_t
Valid prediction for GeneMark_model.30537_t
Valid prediction for GeneMark_model.30549_t
Valid prediction for GeneMark_model.30554_t
Valid prediction for GlimmerHMM_glimmerT_18190-T1
Valid prediction for GeneMark_model.30556_t
Valid prediction for snap_scaffold_7-snap.1695-T1
Valid prediction for GeneMark_model.30528_t
Valid prediction for GeneMark_model.30526_t
Valid prediction for GlimmerHMM_glimmerT_18211-T1
Valid prediction for Augustus_model.g12255.t1
Valid prediction for GeneMark_model.30512_t
Valid prediction for GeneMark_model.30540_t
Valid prediction for GlimmerHMM_glimmerT_18207-T1
Valid prediction for snap_scaffold_7-snap.1686-T1
Valid prediction for snap_scaffold_7-snap.1704-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19450, rend_intergenic: 2620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27299, rend_intergenic: 23009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76812, rend_intergenic: 73310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105943, rend_intergenic: 84800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193371, rend_intergenic: 188053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 199138
-exon list size: 616


building trellis

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99.2    
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99.8    
-found 37 predictions from path traversal
Error with prediction: snap lend_intergenic: 19450, rend_intergenic: 2620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27299, rend_intergenic: 23009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76812, rend_intergenic: 73310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105943, rend_intergenic: 84800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193371, rend_intergenic: 188053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support