-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_8899203-9149217

-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_40774-T1
Valid prediction for snap_scaffold_17-snap.1768-T1
Valid prediction for HiQ_model.g27198.t1
Valid prediction for CodingQuarry_transcript_22098-T1
Couldn't classify 64541, 64686
Sorry, prediction pasa_asmbl_19051.p1 fails validation.
(GGG)	 GT	64541-64686	GT	ACG
(AGA)	 AG	65413-65458	GT	AGG
(CCA)	 AG	65852-65941	GT	AAG
(ATG)	 AG	66597-66683	GT	TGG
(AGA)	 AG	66758-66838	AT	AGA
-recovered pasa_asmbl_19051.p1, initial, 66597, 66683
-recovered pasa_asmbl_19051.p1, terminal, 66758, 66838
-recovered pasa_asmbl_19051.p1, internal, 65413, 65458
-recovered pasa_asmbl_19051.p1, internal, 65852, 65941
-recovered pasa_asmbl_19051.p1, internal, 66597, 66683
Valid prediction for snap_scaffold_17-snap.1792-T1
Valid prediction for Augustus_model.g27201.t1
Valid prediction for GlimmerHMM_glimmerT_40773-T1
Valid prediction for CodingQuarry_transcript_22097-T1
Valid prediction for CodingQuarry_transcript_22100-T1
Valid prediction for pasa_asmbl_19048.p1
Valid prediction for Augustus_model.g27205.t1
Valid prediction for GlimmerHMM_glimmerT_40778-T1
Valid prediction for snap_scaffold_17-snap.1806-T1
Valid prediction for GlimmerHMM_glimmerT_40776-T1
Valid prediction for GlimmerHMM_glimmerT_40787-T1
Valid prediction for snap_scaffold_17-snap.1778-T1
Valid prediction for snap_scaffold_17-snap.1800-T1
Valid prediction for CodingQuarry_transcript_22099-T1
Valid prediction for GlimmerHMM_glimmerT_40790-T1
Valid prediction for Augustus_model.g27189.t1
Valid prediction for snap_scaffold_17-snap.1782-T1
Valid prediction for snap_scaffold_17-snap.1779-T1
Valid prediction for GlimmerHMM_glimmerT_40798-T1
Valid prediction for snap_scaffold_17-snap.1781-T1
Valid prediction for GlimmerHMM_glimmerT_40799-T1
Valid prediction for GlimmerHMM_glimmerT_40784-T1
Valid prediction for GlimmerHMM_glimmerT_40783-T1
Valid prediction for Augustus_model.g27212.t1
Valid prediction for GlimmerHMM_glimmerT_40771-T1
Valid prediction for Augustus_model.g27197.t1
Valid prediction for GlimmerHMM_glimmerT_40796-T1
Valid prediction for Augustus_model.g27193.t1
Valid prediction for Augustus_model.g27211.t1
Valid prediction for Augustus_model.g27195.t1
Valid prediction for HiQ_model.g27203.t1
Valid prediction for snap_scaffold_17-snap.1765-T1
Valid prediction for GlimmerHMM_glimmerT_40782-T1
Valid prediction for GlimmerHMM_glimmerT_40785-T1
Valid prediction for snap_scaffold_17-snap.1770-T1
Valid prediction for snap_scaffold_17-snap.1805-T1
Valid prediction for Augustus_model.g27191.t1
Valid prediction for GlimmerHMM_glimmerT_40791-T1
Valid prediction for Augustus_model.g27199.t1
Valid prediction for snap_scaffold_17-snap.1799-T1
Valid prediction for snap_scaffold_17-snap.1802-T1
Valid prediction for Augustus_model.g27188.t1
Valid prediction for snap_scaffold_17-snap.1786-T1
Valid prediction for snap_scaffold_17-snap.1789-T1
Valid prediction for snap_scaffold_17-snap.1773-T1
Valid prediction for Augustus_model.g27190.t1
Valid prediction for snap_scaffold_17-snap.1803-T1
Valid prediction for pasa_asmbl_19055.p1
Valid prediction for CodingQuarry_transcript_22101-T1
Valid prediction for pasa_asmbl_19060.p1
Valid prediction for GlimmerHMM_glimmerT_40781-T1
Valid prediction for GlimmerHMM_glimmerT_40772-T1
Valid prediction for snap_scaffold_17-snap.1766-T1
Valid prediction for snap_scaffold_17-snap.1763-T1
Valid prediction for GlimmerHMM_glimmerT_40779-T1
Valid prediction for snap_scaffold_17-snap.1804-T1
Valid prediction for snap_scaffold_17-snap.1807-T1
Valid prediction for Augustus_model.g27196.t1
Valid prediction for GlimmerHMM_glimmerT_40780-T1
Valid prediction for snap_scaffold_17-snap.1784-T1
Valid prediction for GlimmerHMM_glimmerT_40770-T1
Couldn't classify 62674, 62769
Sorry, prediction pasa_asmbl_19050.p2 fails validation.
(ATG)	 CC	61499-61560	GT	TGG
(TGG)	 AG	61669-61890	GT	CTG
(GAT)	 AG	62177-62315	GT	AGG
(CCG)	 AG	62674-62769	TA	AGT
-recovered pasa_asmbl_19050.p2, initial, 61499, 61560
-recovered pasa_asmbl_19050.p2, internal, 61669, 61890
-recovered pasa_asmbl_19050.p2, internal, 62177, 62315
Valid prediction for snap_scaffold_17-snap.1774-T1
Valid prediction for snap_scaffold_17-snap.1767-T1
Valid prediction for snap_scaffold_17-snap.1772-T1
Valid prediction for snap_scaffold_17-snap.1791-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 Augustus_model.g27202.t1
Valid prediction for GlimmerHMM_glimmerT_40792-T1
Valid prediction for pasa_asmbl_18143.p1
Valid prediction for GlimmerHMM_glimmerT_40777-T1
Valid prediction for snap_scaffold_17-snap.1775-T1
Valid prediction for GlimmerHMM_glimmerT_40775-T1
Valid prediction for Augustus_model.g27194.t1
Valid prediction for CodingQuarry_transcript_22107-T1
Valid prediction for Augustus_model.g27192.t1
Valid prediction for snap_scaffold_17-snap.1785-T1
Valid prediction for CodingQuarry_transcript_22106-T1
Valid prediction for pasa_asmbl_18154.p1
Valid prediction for CodingQuarry_transcript_22102-T1
Valid prediction for snap_scaffold_17-snap.1787-T1
Valid prediction for Augustus_model.g27209.t1
Couldn't classify 72805, 72940
Sorry, prediction pasa_asmbl_18146.p1 fails validation.
(CCC)	 AC	72805-72940	GT	AGG
(ATG)	 AG	74803-74910	GT	AGG
(ACG)	 AG	75128-75286	GT	CAG
(CCA)	 AG	75370-75452	GT	TAG
(CTT)	 AG	75580-75724	GT	ATG
(CCT)	 AG	75851-76033	GT	AGG
(GGG)	 AG	76221-76336	AT	AAA
-recovered pasa_asmbl_18146.p1, initial, 74803, 74910
-recovered pasa_asmbl_18146.p1, terminal, 76221, 76336
-recovered pasa_asmbl_18146.p1, internal, 74803, 74910
-recovered pasa_asmbl_18146.p1, internal, 75128, 75286
-recovered pasa_asmbl_18146.p1, internal, 75370, 75452
-recovered pasa_asmbl_18146.p1, internal, 75580, 75724
-recovered pasa_asmbl_18146.p1, internal, 75851, 76033
Valid prediction for GlimmerHMM_glimmerT_40789-T1
Valid prediction for Augustus_model.g27210.t1
Valid prediction for GlimmerHMM_glimmerT_40793-T1
Valid prediction for CodingQuarry_transcript_22105-T1
Valid prediction for CodingQuarry_transcript_22103-T1
Valid prediction for CodingQuarry_transcript_22109-T1
Valid prediction for snap_scaffold_17-snap.1771-T1
Valid prediction for snap_scaffold_17-snap.1793-T1
Valid prediction for CodingQuarry_transcript_22108-T1
Valid prediction for snap_scaffold_17-snap.1797-T1
Valid prediction for HiQ_model.g27204.t1
Valid prediction for snap_scaffold_17-snap.1764-T1
Valid prediction for GlimmerHMM_glimmerT_40788-T1
Couldn't classify 72148, 72705
Sorry, prediction pasa_asmbl_18147.p1 fails validation.
(GAT)	 CT	72148-72705	GA	CAG
Couldn't classify 129793, 129854
Sorry, prediction pasa_asmbl_18134.p1 fails validation.
(GAC)	 GC	129793-129854	GT	AGG
(TTC)	 AG	130039-130143	GT	CTG
(AGC)	 AG	130441-130553	GT	CGG
(CGG)	 AG	131151-131401	CC	AAC
-recovered pasa_asmbl_18134.p1, terminal, 131151, 131401
-recovered pasa_asmbl_18134.p1, internal, 130039, 130143
-recovered pasa_asmbl_18134.p1, internal, 130441, 130553
Valid prediction for snap_scaffold_17-snap.1795-T1
Valid prediction for CodingQuarry_transcript_22104-T1
Valid prediction for snap_scaffold_17-snap.1794-T1
Valid prediction for pasa_asmbl_18153.p1
Valid prediction for GlimmerHMM_glimmerT_40794-T1
Couldn't classify 39436, 39475
Sorry, prediction pasa_asmbl_18158.p1 fails validation.
(ATG)	 TG	36669-36744	GT	GGG
(CTC)	 AG	37565-37659	GT	AGG
(TTT)	 AG	37876-37987	GT	AGG
(GCA)	 AG	38099-38193	GT	AGG
(ACC)	 AG	38323-38466	GT	AGG
(GCG)	 AG	38616-38854	GT	AGG
(TCT)	 AG	39436-39475	GT	CTG
-recovered pasa_asmbl_18158.p1, initial, 36669, 36744
-recovered pasa_asmbl_18158.p1, internal, 37565, 37659
-recovered pasa_asmbl_18158.p1, internal, 37876, 37987
-recovered pasa_asmbl_18158.p1, internal, 38099, 38193
-recovered pasa_asmbl_18158.p1, internal, 38323, 38466
-recovered pasa_asmbl_18158.p1, internal, 38616, 38854
-recovered pasa_asmbl_18158.p1, internal, 39436, 39475
Valid prediction for Augustus_model.g27206.t1
Valid prediction for snap_scaffold_17-snap.1788-T1
Valid prediction for snap_scaffold_17-snap.1798-T1
Valid prediction for GlimmerHMM_glimmerT_40795-T1
Valid prediction for snap_scaffold_17-snap.1801-T1
Valid prediction for snap_scaffold_17-snap.1790-T1
Valid prediction for snap_scaffold_17-snap.1776-T1
Valid prediction for snap_scaffold_17-snap.1777-T1
Valid prediction for GlimmerHMM_glimmerT_40786-T1
Valid prediction for Augustus_model.g27200.t1
Valid prediction for snap_scaffold_17-snap.1769-T1
Valid prediction for GlimmerHMM_glimmerT_40797-T1
Valid prediction for snap_scaffold_17-snap.1783-T1
Valid prediction for snap_scaffold_17-snap.1780-T1
Valid prediction for HiQ_model.g27207.t1
Valid prediction for pasa_asmbl_18148.p1
Valid prediction for HiQ_model.g27208.t1
Valid prediction for snap_scaffold_17-snap.1796-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 77268, rend_intergenic: 72351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83927, rend_intergenic: 79515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91173, rend_intergenic: 83935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100158, rend_intergenic: 96187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208321, rend_intergenic: 196912  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 232084, rend_intergenic: 208617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 250015
-exon list size: 433


building trellis

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97.7    
97.9    
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98.4    
98.6    
98.9    
99.1    
99.3    
99.5    
99.8    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 77268, rend_intergenic: 72351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83927, rend_intergenic: 79515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91173, rend_intergenic: 83935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100158, rend_intergenic: 96187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208321, rend_intergenic: 196912  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 232084, rend_intergenic: 208617  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 30 predictions persist after filtering for low support