-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_13153821-13343748

-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 Augustus_model.g23376.t1
Valid prediction for Augustus_model.g23391.t1
Valid prediction for snap_scaffold_14-snap.2707-T1
Valid prediction for snap_scaffold_14-snap.2711-T1
Valid prediction for GlimmerHMM_glimmerT_34958-T1
Valid prediction for GlimmerHMM_glimmerT_34982-T1
Valid prediction for snap_scaffold_14-snap.2731-T1
Valid prediction for snap_scaffold_14-snap.2700-T1
Valid prediction for Augustus_model.g23378.t1
Valid prediction for snap_scaffold_14-snap.2738-T1
Valid prediction for Augustus_model.g23379.t1
Valid prediction for snap_scaffold_14-snap.2717-T1
Valid prediction for GlimmerHMM_glimmerT_34959-T1
Valid prediction for GlimmerHMM_glimmerT_34960-T1
Valid prediction for pasa_asmbl_12464.p1
Valid prediction for snap_scaffold_14-snap.2708-T1
Valid prediction for pasa_asmbl_12462.p1
Valid prediction for snap_scaffold_14-snap.2695-T1
Valid prediction for snap_scaffold_14-snap.2733-T1
Valid prediction for HiQ_model.g23382.t1
Valid prediction for snap_scaffold_14-snap.2705-T1
Couldn't classify 127989, 128184
Sorry, prediction pasa_asmbl_12470.p1 fails validation.
(ATG)	 AA	127002-127102	GC	AGG
(CGG)	 AG	127989-128184	GC	GGG
-recovered pasa_asmbl_12470.p1, initial, 127002, 127102
-recovered pasa_asmbl_12470.p1, internal, 127989, 128184
Valid prediction for GlimmerHMM_glimmerT_34972-T1
Valid prediction for Augustus_model.g23394.t1
Valid prediction for GlimmerHMM_glimmerT_34973-T1
Valid prediction for CodingQuarry_transcript_15902-T1
Valid prediction for GlimmerHMM_glimmerT_34956-T1
Valid prediction for HiQ_model.g23381.t1
Valid prediction for GlimmerHMM_glimmerT_34981-T1
Valid prediction for snap_scaffold_14-snap.2709-T1
Valid prediction for snap_scaffold_14-snap.2713-T1
Couldn't classify 38914, 39122
Couldn't classify 41945, 42040
Sorry, prediction pasa_asmbl_12454.p1 fails validation.
(AAC)	 AG	38914-39122	GT	TGG
(GTT)	 AG	41054-41237	GT	AGG
(GCC)	 AG	41945-42040	GG	AGG
-recovered pasa_asmbl_12454.p1, internal, 38914, 39122
-recovered pasa_asmbl_12454.p1, internal, 41054, 41237
Valid prediction for GlimmerHMM_glimmerT_34962-T1
Valid prediction for Augustus_model.g23385.t1
Valid prediction for pasa_asmbl_12457.p1
Valid prediction for snap_scaffold_14-snap.2730-T1
Valid prediction for Augustus_model.g23388.t1
Valid prediction for CodingQuarry_transcript_15903-T1
Valid prediction for snap_scaffold_14-snap.2728-T1
Valid prediction for snap_scaffold_14-snap.2724-T1
Valid prediction for snap_scaffold_14-snap.2726-T1
Valid prediction for Augustus_model.g23389.t1
Valid prediction for snap_scaffold_14-snap.2725-T1
Valid prediction for GlimmerHMM_glimmerT_34964-T1
Valid prediction for GlimmerHMM_glimmerT_34950-T1
Valid prediction for GlimmerHMM_glimmerT_34969-T1
Valid prediction for snap_scaffold_14-snap.2739-T1
Valid prediction for GlimmerHMM_glimmerT_34954-T1
Valid prediction for snap_scaffold_14-snap.2720-T1
Valid prediction for snap_scaffold_14-snap.2740-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_34974-T1
Valid prediction for GlimmerHMM_glimmerT_34978-T1
Valid prediction for snap_scaffold_14-snap.2737-T1
Valid prediction for snap_scaffold_14-snap.2704-T1
Valid prediction for Augustus_model.g23380.t1
Valid prediction for Augustus_model.g23393.t1
Valid prediction for CodingQuarry_transcript_15900-T1
Valid prediction for GlimmerHMM_glimmerT_34951-T1
Valid prediction for GlimmerHMM_glimmerT_34957-T1
Valid prediction for GlimmerHMM_glimmerT_34961-T1
Valid prediction for snap_scaffold_14-snap.2702-T1
Valid prediction for snap_scaffold_14-snap.2735-T1
Valid prediction for snap_scaffold_14-snap.2696-T1
Couldn't classify 162026, 162183
Sorry, prediction pasa_asmbl_12473.p2 fails validation.
(ATG)	 GC	160586-160862	GT	ACG
(TGC)	 AG	162026-162183	CC	GTC
-recovered pasa_asmbl_12473.p2, initial, 160586, 160862

-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 HiQ_model.g23396.t1
Valid prediction for snap_scaffold_14-snap.2710-T1
Valid prediction for GlimmerHMM_glimmerT_34952-T1
Valid prediction for snap_scaffold_14-snap.2698-T1
Valid prediction for snap_scaffold_14-snap.2716-T1
Valid prediction for snap_scaffold_14-snap.2729-T1
Valid prediction for Augustus_model.g23374.t1
Valid prediction for GlimmerHMM_glimmerT_34955-T1
Valid prediction for snap_scaffold_14-snap.2736-T1
Valid prediction for GlimmerHMM_glimmerT_34985-T1
Valid prediction for snap_scaffold_14-snap.2727-T1
Valid prediction for Augustus_model.g23392.t1
Valid prediction for GlimmerHMM_glimmerT_34983-T1
Valid prediction for GlimmerHMM_glimmerT_34971-T1
Valid prediction for snap_scaffold_14-snap.2712-T1
Valid prediction for snap_scaffold_14-snap.2701-T1
Valid prediction for GlimmerHMM_glimmerT_34949-T1
Valid prediction for Augustus_model.g23377.t1
Valid prediction for GlimmerHMM_glimmerT_34965-T1
Valid prediction for snap_scaffold_14-snap.2706-T1
Valid prediction for snap_scaffold_14-snap.2715-T1
Valid prediction for snap_scaffold_14-snap.2741-T1
Valid prediction for snap_scaffold_14-snap.2732-T1
Valid prediction for snap_scaffold_14-snap.2734-T1
Valid prediction for snap_scaffold_14-snap.2694-T1
Valid prediction for Augustus_model.g23384.t1
Valid prediction for Augustus_model.g23387.t1
Valid prediction for GlimmerHMM_glimmerT_34966-T1
Couldn't classify 797, 1125
Sorry, prediction pasa_asmbl_13635.p1 fails validation.
(ACA)	 TC	797-1125	GT	AGG
(CAA)	 AG	1388-1706	AA	AAA
-recovered pasa_asmbl_13635.p1, terminal, 1388, 1706
Valid prediction for GlimmerHMM_glimmerT_34967-T1
Valid prediction for snap_scaffold_14-snap.2714-T1
Valid prediction for snap_scaffold_14-snap.2722-T1
Valid prediction for GlimmerHMM_glimmerT_34970-T1
Valid prediction for pasa_asmbl_13632.p1
Valid prediction for GlimmerHMM_glimmerT_34953-T1
Valid prediction for CodingQuarry_transcript_15904-T1
Valid prediction for GlimmerHMM_glimmerT_34968-T1
Valid prediction for snap_scaffold_14-snap.2723-T1
Valid prediction for GlimmerHMM_glimmerT_34980-T1
Valid prediction for snap_scaffold_14-snap.2703-T1
Valid prediction for GlimmerHMM_glimmerT_34979-T1
Valid prediction for Augustus_model.g23395.t1
Valid prediction for Augustus_model.g23383.t1
Valid prediction for snap_scaffold_14-snap.2697-T1
Valid prediction for GlimmerHMM_glimmerT_34984-T1
Valid prediction for Augustus_model.g23386.t1
Couldn't classify 2177, 2307
Sorry, prediction pasa_asmbl_13634.p1 fails validation.
(CTT)	 CT	2177-2307	GT	AGG
(GCC)	 AG	2406-2508	GT	AGG
(ACT)	 AG	2622-2690	GT	AGG
(GTC)	 AG	2894-3035	GT	AGG
(AGC)	 AG	3276-3412	GT	AGG
(TAT)	 AG	3559-3680	GT	AGG
(GAT)	 AG	3841-3945	GT	AGG
(CGA)	 AG	4040-4128	GT	CGG
(CCT)	 AG	4259-4350	GT	AGG
(GTT)	 AG	4594-4710	GT	CTG
(GTG)	 AG	4910-4981	GT	AGG
(GTT)	 AG	5081-5254	GT	AGG
(GGT)	 AG	5382-5473	GT	AGG
(ACC)	 AG	5679-5778	GT	CAG
(GTA)	 AG	5880-5944	GT	CAG
(GAT)	 AG	6200-6315	GT	AGG
(ATG)	 AG	7174-7292	CC	GAC
-recovered pasa_asmbl_13634.p1, terminal, 3841, 3945
-recovered pasa_asmbl_13634.p1, terminal, 7174, 7292
-recovered pasa_asmbl_13634.p1, internal, 2406, 2508
-recovered pasa_asmbl_13634.p1, internal, 2622, 2690
-recovered pasa_asmbl_13634.p1, internal, 2894, 3035
-recovered pasa_asmbl_13634.p1, internal, 3276, 3412
-recovered pasa_asmbl_13634.p1, internal, 3559, 3680
-recovered pasa_asmbl_13634.p1, internal, 3841, 3945
-recovered pasa_asmbl_13634.p1, internal, 4040, 4128
-recovered pasa_asmbl_13634.p1, internal, 4259, 4350
-recovered pasa_asmbl_13634.p1, internal, 4594, 4710
-recovered pasa_asmbl_13634.p1, internal, 4910, 4981
-recovered pasa_asmbl_13634.p1, internal, 5081, 5254
-recovered pasa_asmbl_13634.p1, internal, 5382, 5473
-recovered pasa_asmbl_13634.p1, internal, 5679, 5778
-recovered pasa_asmbl_13634.p1, internal, 5880, 5944
-recovered pasa_asmbl_13634.p1, internal, 6200, 6315
Valid prediction for Augustus_model.g23375.t1
Valid prediction for snap_scaffold_14-snap.2699-T1
Valid prediction for snap_scaffold_14-snap.2718-T1
Valid prediction for snap_scaffold_14-snap.2719-T1
Valid prediction for GlimmerHMM_glimmerT_34975-T1
Valid prediction for GlimmerHMM_glimmerT_34963-T1
Valid prediction for GlimmerHMM_glimmerT_34976-T1
Valid prediction for GlimmerHMM_glimmerT_34977-T1
Valid prediction for snap_scaffold_14-snap.2721-T1
Valid prediction for Augustus_model.g23390.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19820, rend_intergenic: 15468  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27407, rend_intergenic: 23959  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28498, rend_intergenic: 27704  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32090, rend_intergenic: 28885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43525, rend_intergenic: 34250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48565, rend_intergenic: 43566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57047, rend_intergenic: 54868  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61047, rend_intergenic: 58098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66731, rend_intergenic: 65296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74871, rend_intergenic: 74218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76062, rend_intergenic: 75801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98652, rend_intergenic: 87624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140124, rend_intergenic: 135382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151016, rend_intergenic: 148529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162158, rend_intergenic: 155906  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167515, rend_intergenic: 165397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180661, rend_intergenic: 173994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187789, rend_intergenic: 183981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 172632, rend_intergenic: 172629  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 189928
-exon list size: 442


building trellis

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-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 19820, rend_intergenic: 15468  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27407, rend_intergenic: 23959  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28498, rend_intergenic: 27704  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32090, rend_intergenic: 28885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43525, rend_intergenic: 34250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48565, rend_intergenic: 43566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57047, rend_intergenic: 54868  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61047, rend_intergenic: 58098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66731, rend_intergenic: 65296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74871, rend_intergenic: 74218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76062, rend_intergenic: 75801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98652, rend_intergenic: 87624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140124, rend_intergenic: 135382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151016, rend_intergenic: 148529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162158, rend_intergenic: 155906  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167515, rend_intergenic: 165397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180661, rend_intergenic: 173994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187789, rend_intergenic: 183981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 172632, rend_intergenic: 172629  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 32 predictions persist after filtering for low support