-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_13536627-13761068

-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_25757-T1
Valid prediction for Augustus_model.g17161.t1
Valid prediction for snap_scaffold_10-snap.2730-T1
Valid prediction for snap_scaffold_10-snap.2731-T1
Valid prediction for GlimmerHMM_glimmerT_25756-T1
Valid prediction for Augustus_model.g17153.t1
Couldn't classify 169058, 169462
Sorry, prediction pasa_asmbl_3615.p1 fails validation.
(TCA)	 TG	169058-169462	CC	GAC
Valid prediction for GlimmerHMM_glimmerT_25767-T1
Valid prediction for snap_scaffold_10-snap.2725-T1
Valid prediction for GlimmerHMM_glimmerT_25762-T1
Valid prediction for Augustus_model.g17156.t1
Valid prediction for snap_scaffold_10-snap.2702-T1
Valid prediction for GlimmerHMM_glimmerT_25780-T1
Valid prediction for GlimmerHMM_glimmerT_25761-T1
Valid prediction for Augustus_model.g17151.t1
Valid prediction for Augustus_model.g17148.t1
Valid prediction for GlimmerHMM_glimmerT_25769-T1
Valid prediction for snap_scaffold_10-snap.2695-T1
Valid prediction for snap_scaffold_10-snap.2714-T1
Valid prediction for snap_scaffold_10-snap.2696-T1
Valid prediction for GlimmerHMM_glimmerT_25760-T1
Valid prediction for GlimmerHMM_glimmerT_25777-T1
Valid prediction for snap_scaffold_10-snap.2721-T1
Valid prediction for snap_scaffold_10-snap.2715-T1
Valid prediction for Augustus_model.g17159.t1
Valid prediction for GlimmerHMM_glimmerT_25753-T1
Valid prediction for Augustus_model.g17152.t1
Valid prediction for Augustus_model.g17157.t1
Valid prediction for snap_scaffold_10-snap.2710-T1
Valid prediction for Augustus_model.g17142.t1
Valid prediction for GlimmerHMM_glimmerT_25774-T1
Valid prediction for GlimmerHMM_glimmerT_25772-T1
Valid prediction for snap_scaffold_10-snap.2713-T1
Valid prediction for snap_scaffold_10-snap.2707-T1
Valid prediction for snap_scaffold_10-snap.2699-T1
Valid prediction for snap_scaffold_10-snap.2720-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_10-snap.2722-T1
Valid prediction for snap_scaffold_10-snap.2729-T1
Valid prediction for snap_scaffold_10-snap.2711-T1
Valid prediction for snap_scaffold_10-snap.2705-T1
Valid prediction for snap_scaffold_10-snap.2727-T1
Valid prediction for snap_scaffold_10-snap.2709-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.g17144.t1
Valid prediction for Augustus_model.g17143.t1
Valid prediction for Augustus_model.g17138.t1
Valid prediction for GlimmerHMM_glimmerT_25779-T1
Valid prediction for GlimmerHMM_glimmerT_25764-T1
Valid prediction for GlimmerHMM_glimmerT_25755-T1
Valid prediction for Augustus_model.g17139.t1
Valid prediction for snap_scaffold_10-snap.2700-T1
Valid prediction for snap_scaffold_10-snap.2716-T1
Valid prediction for GlimmerHMM_glimmerT_25776-T1
Couldn't classify 139405, 139443
Sorry, prediction pasa_asmbl_4916.p1 fails validation.
(AAC)	 CC	139405-139443	GT	TGG
(GAA)	 AG	140019-140229	GT	AGG
(GCT)	 AG	140868-141037	GT	AGG
(AAC)	 AG	141400-141486	GT	AGG
(CCG)	 AG	141601-141653	GT	AGG
(CAA)	 AG	141763-141958	GT	AGG
(GTT)	 AG	142353-142571	CC	AAC
-recovered pasa_asmbl_4916.p1, terminal, 142353, 142571
-recovered pasa_asmbl_4916.p1, internal, 140019, 140229
-recovered pasa_asmbl_4916.p1, internal, 140868, 141037
-recovered pasa_asmbl_4916.p1, internal, 141400, 141486
-recovered pasa_asmbl_4916.p1, internal, 141601, 141653
-recovered pasa_asmbl_4916.p1, internal, 141763, 141958
Valid prediction for snap_scaffold_10-snap.2697-T1
Valid prediction for snap_scaffold_10-snap.2706-T1
Valid prediction for Augustus_model.g17147.t1
Valid prediction for HiQ_model.g17154.t1
Couldn't classify 212939, 213061
Sorry, prediction pasa_asmbl_4904.p1 fails validation.
(ACT)	 AG	212939-213061	GT	TGG
(GTG)	 AG	214239-214368	GT	AGG
(GCT)	 AG	214567-214748	GT	CGG
(GAG)	 AG	215095-215214	GT	CTG
(AAA)	 AG	215427-215531	GT	AGG
(GGT)	 AG	215855-216000	GT	AGG
(GTT)	 AG	216361-216418	GT	AGG
(TCG)	 AG	216792-217034	GT	TAG
(AAG)	 AG	217175-217294	GA	AGG
-recovered pasa_asmbl_4904.p1, terminal, 217175, 217294
-recovered pasa_asmbl_4904.p1, internal, 212939, 213061
-recovered pasa_asmbl_4904.p1, internal, 214239, 214368
-recovered pasa_asmbl_4904.p1, internal, 214567, 214748
-recovered pasa_asmbl_4904.p1, internal, 215095, 215214
-recovered pasa_asmbl_4904.p1, internal, 215427, 215531
-recovered pasa_asmbl_4904.p1, internal, 215855, 216000
-recovered pasa_asmbl_4904.p1, internal, 216361, 216418
-recovered pasa_asmbl_4904.p1, internal, 216792, 217034
Valid prediction for Augustus_model.g17146.t1
Valid prediction for Augustus_model.g17158.t1
Valid prediction for GlimmerHMM_glimmerT_25766-T1
Valid prediction for GlimmerHMM_glimmerT_25770-T1
Valid prediction for snap_scaffold_10-snap.2690-T1
Valid prediction for GlimmerHMM_glimmerT_25775-T1
Valid prediction for GlimmerHMM_glimmerT_25752-T1
Valid prediction for snap_scaffold_10-snap.2717-T1
Valid prediction for GlimmerHMM_glimmerT_25758-T1
Valid prediction for Augustus_model.g17160.t1
Valid prediction for snap_scaffold_10-snap.2692-T1
Valid prediction for Augustus_model.g17141.t1
Valid prediction for snap_scaffold_10-snap.2726-T1
Valid prediction for snap_scaffold_10-snap.2718-T1
Valid prediction for Augustus_model.g17140.t1
Couldn't classify 188928, 188974
Sorry, prediction pasa_asmbl_4913.p1 fails validation.
(GTG)	 TG	188928-188974	GT	GGG
(GGG)	 AG	189603-189668	GT	TGG
(GTC)	 AG	190235-190429	GT	CGG
(GCC)	 AG	190527-190620	GT	AGG
(ATC)	 AG	190899-191027	GT	TGG
(GGC)	 AG	191353-191399	GT	GGG
(GAT)	 AG	191673-191823	GA	GAG
-recovered pasa_asmbl_4913.p1, terminal, 191673, 191823
-recovered pasa_asmbl_4913.p1, internal, 189603, 189668
-recovered pasa_asmbl_4913.p1, internal, 190235, 190429
-recovered pasa_asmbl_4913.p1, internal, 190527, 190620
-recovered pasa_asmbl_4913.p1, internal, 190899, 191027
-recovered pasa_asmbl_4913.p1, internal, 191353, 191399
Valid prediction for snap_scaffold_10-snap.2691-T1
Valid prediction for snap_scaffold_10-snap.2693-T1
Valid prediction for snap_scaffold_10-snap.2703-T1
Valid prediction for snap_scaffold_10-snap.2723-T1
Valid prediction for GlimmerHMM_glimmerT_25763-T1
Valid prediction for GlimmerHMM_glimmerT_25778-T1
Valid prediction for GlimmerHMM_glimmerT_25768-T1
Valid prediction for snap_scaffold_10-snap.2708-T1
Valid prediction for snap_scaffold_10-snap.2719-T1
Valid prediction for snap_scaffold_10-snap.2712-T1
Valid prediction for snap_scaffold_10-snap.2701-T1
Valid prediction for snap_scaffold_10-snap.2724-T1
Couldn't classify 123914, 124102
Sorry, prediction pasa_asmbl_4921.p1 fails validation.
(CTG)	 AG	123914-124102	GT	AGG
(GGA)	 AG	126582-126668	GT	AGG
(ACC)	 AG	126920-126946	GT	CGG
(TGT)	 AG	127841-127918	GA	AGG
-recovered pasa_asmbl_4921.p1, terminal, 127841, 127918
-recovered pasa_asmbl_4921.p1, internal, 123914, 124102
-recovered pasa_asmbl_4921.p1, internal, 126582, 126668
-recovered pasa_asmbl_4921.p1, internal, 126920, 126946
Valid prediction for snap_scaffold_10-snap.2728-T1
Couldn't classify 178394, 178431
Sorry, prediction pasa_asmbl_4914.p2 fails validation.
(TCG)	 GG	178394-178431	GT	CGG
(GAT)	 AG	178813-178894	GT	AGG
(GTT)	 AG	179094-179183	GT	AGG
(GTG)	 AG	179456-179689	TT	AAT
-recovered pasa_asmbl_4914.p2, terminal, 179456, 179689
-recovered pasa_asmbl_4914.p2, internal, 178813, 178894
-recovered pasa_asmbl_4914.p2, internal, 179094, 179183
Valid prediction for GlimmerHMM_glimmerT_25773-T1
Valid prediction for Augustus_model.g17149.t1
Valid prediction for CodingQuarry_transcript_5642-T1
Valid prediction for snap_scaffold_10-snap.2704-T1
Valid prediction for pasa_asmbl_4924.p1
Valid prediction for GlimmerHMM_glimmerT_25771-T1
Valid prediction for GlimmerHMM_glimmerT_25759-T1
Valid prediction for GlimmerHMM_glimmerT_25765-T1
Valid prediction for snap_scaffold_10-snap.2694-T1
Valid prediction for Augustus_model.g17155.t1
Valid prediction for snap_scaffold_10-snap.2698-T1
Valid prediction for GlimmerHMM_glimmerT_25754-T1
Valid prediction for GlimmerHMM_glimmerT_25751-T1
Valid prediction for Augustus_model.g17150.t1
Valid prediction for CodingQuarry_transcript_5641-T1
Valid prediction for Augustus_model.g17145.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 38634, rend_intergenic: 27669  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79990, rend_intergenic: 64262  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97188, rend_intergenic: 93633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106002, rend_intergenic: 103030  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118018, rend_intergenic: 113624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180390, rend_intergenic: 179343  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188590, rend_intergenic: 184586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197619, rend_intergenic: 192835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 224442
-exon list size: 489


building trellis

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-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 38634, rend_intergenic: 27669  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79990, rend_intergenic: 64262  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97188, rend_intergenic: 93633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106002, rend_intergenic: 103030  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118018, rend_intergenic: 113624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180390, rend_intergenic: 179343  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188590, rend_intergenic: 184586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197619, rend_intergenic: 192835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 31 predictions persist after filtering for low support