-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_8406661-8682615

-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_15-snap.1792-T1
Valid prediction for Augustus_model.g24374.t1
Valid prediction for snap_scaffold_15-snap.1771-T1
Couldn't classify 33876, 33912
Couldn't classify 35903, 35991
Sorry, prediction pasa_asmbl_15331.p1 fails validation.
(TGT)	 CA	33876-33912	GT	ACG
(CCC)	 AG	34346-34455	GT	AGG
(GGA)	 AG	34922-35014	GT	AGG
(GAC)	 AG	35286-35367	GT	AGG
(AGC)	 AG	35903-35991	GG	AGG
-recovered pasa_asmbl_15331.p1, internal, 34346, 34455
-recovered pasa_asmbl_15331.p1, internal, 34922, 35014
-recovered pasa_asmbl_15331.p1, internal, 35286, 35367
Valid prediction for GlimmerHMM_glimmerT_36604-T1
Valid prediction for GlimmerHMM_glimmerT_36598-T1
Valid prediction for pasa_asmbl_15333.p1
Valid prediction for CodingQuarry_transcript_18072-T1
Valid prediction for pasa_asmbl_15334.p1
Valid prediction for snap_scaffold_15-snap.1769-T1
Valid prediction for CodingQuarry_transcript_18076-T1
Valid prediction for pasa_asmbl_15340.p1
Valid prediction for snap_scaffold_15-snap.1779-T1
Valid prediction for snap_scaffold_15-snap.1789-T1
Valid prediction for GlimmerHMM_glimmerT_36590-T1
Valid prediction for snap_scaffold_15-snap.1763-T1
Valid prediction for snap_scaffold_15-snap.1772-T1
Valid prediction for GlimmerHMM_glimmerT_36587-T1
Valid prediction for CodingQuarry_transcript_18071-T1
Valid prediction for snap_scaffold_15-snap.1762-T1
Valid prediction for CodingQuarry_transcript_18077-T1
Valid prediction for GlimmerHMM_glimmerT_36588-T1
Valid prediction for HiQ_model.g24357.t1
Valid prediction for HiQ_model.g24372.t1
Valid prediction for GlimmerHMM_glimmerT_36595-T1
Valid prediction for Augustus_model.g24363.t1
Valid prediction for snap_scaffold_15-snap.1783-T1
Valid prediction for GlimmerHMM_glimmerT_36592-T1
Valid prediction for CodingQuarry_transcript_18074-T1
Couldn't classify 12995, 13053
Couldn't classify 14264, 14324
Sorry, prediction pasa_asmbl_15327.p1 fails validation.
(GGG)	 GC	12995-13053	GT	AGG
(GTC)	 AG	13224-13385	GT	AGG
(GGA)	 AG	13575-13716	GT	AGG
(GCC)	 AG	13840-14060	GT	AGG
(GGC)	 AG	14264-14324	GA	AGG
-recovered pasa_asmbl_15327.p1, internal, 13224, 13385
-recovered pasa_asmbl_15327.p1, internal, 13575, 13716
-recovered pasa_asmbl_15327.p1, internal, 13840, 14060
Valid prediction for GlimmerHMM_glimmerT_36584-T1
Valid prediction for snap_scaffold_15-snap.1784-T1
Valid prediction for Augustus_model.g24364.t1
Valid prediction for snap_scaffold_15-snap.1764-T1
Valid prediction for snap_scaffold_15-snap.1778-T1
Valid prediction for CodingQuarry_transcript_18069-T1
Valid prediction for Augustus_model.g24367.t1
Valid prediction for snap_scaffold_15-snap.1775-T1
Valid prediction for snap_scaffold_15-snap.1770-T1
Valid prediction for GlimmerHMM_glimmerT_36600-T1
Valid prediction for GlimmerHMM_glimmerT_36605-T1
Valid prediction for GlimmerHMM_glimmerT_36602-T1
Valid prediction for HiQ_model.g24370.t1
Valid prediction for pasa_asmbl_15345.p1
Valid prediction for GlimmerHMM_glimmerT_36599-T1
Valid prediction for Augustus_model.g24366.t1
Valid prediction for snap_scaffold_15-snap.1788-T1
Valid prediction for snap_scaffold_15-snap.1786-T1
Valid prediction for snap_scaffold_15-snap.1766-T1
Valid prediction for GlimmerHMM_glimmerT_36589-T1
Valid prediction for snap_scaffold_15-snap.1781-T1
Valid prediction for Augustus_model.g24361.t1
Valid prediction for snap_scaffold_15-snap.1765-T1
Valid prediction for snap_scaffold_15-snap.1796-T1
Valid prediction for snap_scaffold_15-snap.1774-T1
Valid prediction for snap_scaffold_15-snap.1787-T1
Valid prediction for Augustus_model.g24358.t1
Valid prediction for Augustus_model.g24365.t1
Couldn't classify 185314, 185476
Sorry, prediction pasa_asmbl_15339.p1 fails validation.
(TGT)	 CT	185314-185476	GT	CGG
(ATC)	 AG	185610-185819	GT	AGG
(AAG)	 AG	185914-186830	GA	GAG
-recovered pasa_asmbl_15339.p1, terminal, 185914, 186830
-recovered pasa_asmbl_15339.p1, internal, 185610, 185819
Valid prediction for Augustus_model.g24356.t1
Valid prediction for GlimmerHMM_glimmerT_36581-T1
Valid prediction for HiQ_model.g24362.t1
Valid prediction for snap_scaffold_15-snap.1773-T1
Valid prediction for GlimmerHMM_glimmerT_36582-T1
Valid prediction for snap_scaffold_15-snap.1790-T1
Valid prediction for snap_scaffold_15-snap.1780-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 snap_scaffold_15-snap.1797-T1
Valid prediction for GlimmerHMM_glimmerT_36593-T1
Valid prediction for snap_scaffold_15-snap.1761-T1
Valid prediction for snap_scaffold_15-snap.1798-T1
Valid prediction for snap_scaffold_15-snap.1785-T1
Valid prediction for CodingQuarry_transcript_18073-T1
Valid prediction for Augustus_model.g24360.t1
Valid prediction for GlimmerHMM_glimmerT_36586-T1
Valid prediction for snap_scaffold_15-snap.1793-T1
Valid prediction for Augustus_model.g24359.t1
Valid prediction for GlimmerHMM_glimmerT_36594-T1
Valid prediction for GlimmerHMM_glimmerT_36591-T1
Valid prediction for Augustus_model.g24375.t1
Valid prediction for GlimmerHMM_glimmerT_36603-T1
Valid prediction for pasa_asmbl_14343.p1
Valid prediction for HiQ_model.g24373.t1
Valid prediction for GlimmerHMM_glimmerT_36585-T1
Valid prediction for GlimmerHMM_glimmerT_36597-T1
Valid prediction for snap_scaffold_15-snap.1767-T1
Valid prediction for Augustus_model.g24368.t1
Couldn't classify 263561, 263956
Sorry, prediction pasa_asmbl_14338.p1 fails validation.
(CTA)	 AA	263561-263956	TG	GAT
Valid prediction for GlimmerHMM_glimmerT_36580-T1
Valid prediction for GlimmerHMM_glimmerT_36583-T1
Valid prediction for snap_scaffold_15-snap.1768-T1
Valid prediction for GlimmerHMM_glimmerT_36601-T1
Valid prediction for snap_scaffold_15-snap.1794-T1
Valid prediction for snap_scaffold_15-snap.1777-T1
Valid prediction for Augustus_model.g24355.t1
Valid prediction for Augustus_model.g24371.t1
Valid prediction for snap_scaffold_15-snap.1782-T1
Valid prediction for snap_scaffold_15-snap.1776-T1
Valid prediction for Augustus_model.g24369.t1
Valid prediction for GlimmerHMM_glimmerT_36596-T1
Couldn't classify 71796, 71817
Sorry, prediction pasa_asmbl_14340.p1 fails validation.
(CTG)	 AG	71796-71817	GT	TGG
(TGC)	 AG	73340-73404	GT	AGG
(GAG)	 AG	75317-75427	GT	AGG
(GCT)	 AG	76148-76238	GT	ATG
(TTG)	 AG	77715-77802	GT	AGG
(CTA)	 AG	79517-79586	GT	AGG
(ACG)	 AG	80363-80455	GT	AGG
(TTT)	 AG	80826-81029	GT	CGG
(CAG)	 AG	82952-83080	GT	AGG
(GCT)	 AG	83428-83505	GT	AGG
(ATG)	 AG	83974-84048	GT	TGG
(GAC)	 AG	84150-84191	GT	CAG
(ACA)	 AG	84405-84524	TC	AAT
-recovered pasa_asmbl_14340.p1, initial, 83974, 84048
-recovered pasa_asmbl_14340.p1, terminal, 84405, 84524
-recovered pasa_asmbl_14340.p1, internal, 71796, 71817
-recovered pasa_asmbl_14340.p1, internal, 73340, 73404
-recovered pasa_asmbl_14340.p1, internal, 75317, 75427
-recovered pasa_asmbl_14340.p1, internal, 76148, 76238
-recovered pasa_asmbl_14340.p1, internal, 77715, 77802
-recovered pasa_asmbl_14340.p1, internal, 79517, 79586
-recovered pasa_asmbl_14340.p1, internal, 80363, 80455
-recovered pasa_asmbl_14340.p1, internal, 80826, 81029
-recovered pasa_asmbl_14340.p1, internal, 82952, 83080
-recovered pasa_asmbl_14340.p1, internal, 83428, 83505
-recovered pasa_asmbl_14340.p1, internal, 83974, 84048
-recovered pasa_asmbl_14340.p1, internal, 84150, 84191
Valid prediction for snap_scaffold_15-snap.1791-T1
Valid prediction for snap_scaffold_15-snap.1795-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 86884, rend_intergenic: 86084  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149338, rend_intergenic: 145145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178741, rend_intergenic: 166622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204289, rend_intergenic: 191594  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 112847, rend_intergenic: 112844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 275955
-exon list size: 335


building trellis

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-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 86884, rend_intergenic: 86084  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149338, rend_intergenic: 145145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178741, rend_intergenic: 166622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204289, rend_intergenic: 191594  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 112847, rend_intergenic: 112844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 29 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 262196 - 275955
-exon list size: 2


building trellis

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-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support