-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_18187254-18368747

-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_7-snap.3523-T1
Valid prediction for snap_scaffold_7-snap.3526-T1
Valid prediction for GlimmerHMM_glimmerT_18984-T1
Valid prediction for snap_scaffold_7-snap.3528-T1
Valid prediction for snap_scaffold_7-snap.3519-T1
Valid prediction for snap_scaffold_7-snap.3529-T1
Valid prediction for GlimmerHMM_glimmerT_18981-T1
Valid prediction for GlimmerHMM_glimmerT_18985-T1
Valid prediction for GlimmerHMM_glimmerT_18969-T1
Valid prediction for GlimmerHMM_glimmerT_18966-T1
Valid prediction for GlimmerHMM_glimmerT_18974-T1
Valid prediction for snap_scaffold_7-snap.3503-T1
Valid prediction for snap_scaffold_7-snap.3525-T1
Valid prediction for snap_scaffold_7-snap.3498-T1
Valid prediction for snap_scaffold_7-snap.3493-T1
Valid prediction for GlimmerHMM_glimmerT_18977-T1
Valid prediction for GlimmerHMM_glimmerT_18986-T1
Valid prediction for snap_scaffold_7-snap.3520-T1
Valid prediction for CodingQuarry_transcript_57758-T1
Couldn't classify 148056, 148478
Sorry, prediction pasa_asmbl_50517.p1 fails validation.
(ACA)	 AG	148056-148478	AG	ACA
Couldn't classify 18132, 18249
Couldn't classify 20571, 20779
Sorry, prediction pasa_asmbl_50516.p2 fails validation.
(ATG)	 GT	16321-16341	GT	AGG
(GAT)	 AG	18132-18249	AT	CCA
(AGT)	 AC	20571-20779	CC	GAC
-recovered pasa_asmbl_50516.p2, initial, 16321, 16341
Valid prediction for snap_scaffold_7-snap.3512-T1
Valid prediction for GlimmerHMM_glimmerT_18968-T1
Valid prediction for CodingQuarry_transcript_57759-T1
Valid prediction for snap_scaffold_7-snap.3509-T1
Valid prediction for Augustus_model.g12717.t1
Valid prediction for GlimmerHMM_glimmerT_18972-T1
Valid prediction for snap_scaffold_7-snap.3501-T1
Valid prediction for snap_scaffold_7-snap.3524-T1
Valid prediction for snap_scaffold_7-snap.3511-T1
Valid prediction for snap_scaffold_7-snap.3500-T1
Valid prediction for Augustus_model.g12715.t1
Valid prediction for Augustus_model.g12726.t1
Valid prediction for snap_scaffold_7-snap.3507-T1
Valid prediction for snap_scaffold_7-snap.3517-T1
Valid prediction for snap_scaffold_7-snap.3505-T1
Valid prediction for snap_scaffold_7-snap.3504-T1
Valid prediction for snap_scaffold_7-snap.3490-T1
Valid prediction for snap_scaffold_7-snap.3489-T1
Valid prediction for snap_scaffold_7-snap.3510-T1
Valid prediction for pasa_asmbl_50519.p1
Valid prediction for GlimmerHMM_glimmerT_18970-T1
Valid prediction for snap_scaffold_7-snap.3496-T1
Valid prediction for Augustus_model.g12727.t1
Valid prediction for snap_scaffold_7-snap.3514-T1
Valid prediction for snap_scaffold_7-snap.3506-T1
Valid prediction for Augustus_model.g12725.t1
Valid prediction for snap_scaffold_7-snap.3518-T1
Valid prediction for snap_scaffold_7-snap.3495-T1
Valid prediction for Augustus_model.g12714.t1
Valid prediction for snap_scaffold_7-snap.3508-T1
Sorry, intron length (5) is less than minimum required (10)

-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.g12718.t1
Valid prediction for GlimmerHMM_glimmerT_18967-T1
Valid prediction for GlimmerHMM_glimmerT_18971-T1
Valid prediction for GlimmerHMM_glimmerT_18983-T1
Couldn't classify 17005, 17610
Sorry, prediction pasa_asmbl_51459.p1 fails validation.
(GTA)	 TG	17005-17610	GT	AGG
(GAG)	 AG	17714-17830	GT	TGG
(AGG)	 AG	18011-18088	GT	AGG
(GCT)	 AG	18865-18951	GT	GGG
(AGT)	 AG	19841-19932	GT	AGG
(GTT)	 AG	21013-21098	GT	AGG
(GTC)	 AG	21327-21390	GT	CAG
(CTG)	 AG	21507-21676	GT	TGG
(GAG)	 AG	21803-22021	GT	AGG
(CAA)	 AG	22129-22376	AG	GAA
-recovered pasa_asmbl_51459.p1, terminal, 22129, 22376
-recovered pasa_asmbl_51459.p1, internal, 17714, 17830
-recovered pasa_asmbl_51459.p1, internal, 18011, 18088
-recovered pasa_asmbl_51459.p1, internal, 18865, 18951
-recovered pasa_asmbl_51459.p1, internal, 19841, 19932
-recovered pasa_asmbl_51459.p1, internal, 21013, 21098
-recovered pasa_asmbl_51459.p1, internal, 21327, 21390
-recovered pasa_asmbl_51459.p1, internal, 21507, 21676
-recovered pasa_asmbl_51459.p1, internal, 21803, 22021
Valid prediction for GlimmerHMM_glimmerT_18987-T1
Valid prediction for Augustus_model.g12728.t1
Valid prediction for Augustus_model.g12723.t1
Valid prediction for snap_scaffold_7-snap.3497-T1
Valid prediction for snap_scaffold_7-snap.3502-T1
Couldn't classify 15285, 16340
Sorry, prediction pasa_asmbl_51461.p1 fails validation.
(GTG)	 AT	15285-16340	GA	GAG
Valid prediction for snap_scaffold_7-snap.3499-T1
Valid prediction for GlimmerHMM_glimmerT_18976-T1
Valid prediction for snap_scaffold_7-snap.3530-T1
Valid prediction for GlimmerHMM_glimmerT_18975-T1
Valid prediction for snap_scaffold_7-snap.3527-T1
Valid prediction for Augustus_model.g12720.t1
Valid prediction for Augustus_model.g12724.t1
Valid prediction for Augustus_model.g12729.t1
Valid prediction for GlimmerHMM_glimmerT_18988-T1
Valid prediction for Augustus_model.g12721.t1
Valid prediction for snap_scaffold_7-snap.3516-T1
Valid prediction for GlimmerHMM_glimmerT_18982-T1
Valid prediction for snap_scaffold_7-snap.3522-T1
Valid prediction for snap_scaffold_7-snap.3492-T1
Couldn't classify 12156, 12230
Sorry, prediction pasa_asmbl_51464.p1 fails validation.
(ATG)	 GG	3125-3219	GT	AGG
(CAG)	 AG	3685-3781	GT	AGG
(ACC)	 AG	4531-4680	GT	AGG
(GAA)	 AG	4933-5082	GT	GAG
(GCT)	 AG	5681-5937	GT	AAG
(GTA)	 AG	7927-8065	GC	AGG
(GCT)	 AG	8120-8191	GT	AGG
(CCT)	 AG	8381-8572	GT	GGG
(CAT)	 AG	8914-9066	GT	AGG
(ATC)	 AG	10074-10291	GT	ATG
(ATC)	 AG	10447-10630	GT	CGG
(ATC)	 AG	11062-11217	GT	CGG
(AAC)	 AG	11343-11885	GT	GGG
(CCC)	 AG	12156-12230	AA	AGA
-recovered pasa_asmbl_51464.p1, initial, 3125, 3219
-recovered pasa_asmbl_51464.p1, internal, 3685, 3781
-recovered pasa_asmbl_51464.p1, internal, 4531, 4680
-recovered pasa_asmbl_51464.p1, internal, 4933, 5082
-recovered pasa_asmbl_51464.p1, internal, 5681, 5937
-recovered pasa_asmbl_51464.p1, internal, 7927, 8065
-recovered pasa_asmbl_51464.p1, internal, 8120, 8191
-recovered pasa_asmbl_51464.p1, internal, 8381, 8572
-recovered pasa_asmbl_51464.p1, internal, 8914, 9066
-recovered pasa_asmbl_51464.p1, internal, 10074, 10291
-recovered pasa_asmbl_51464.p1, internal, 10447, 10630
-recovered pasa_asmbl_51464.p1, internal, 11062, 11217
-recovered pasa_asmbl_51464.p1, internal, 11343, 11885
Valid prediction for GlimmerHMM_glimmerT_18980-T1
Valid prediction for Augustus_model.g12719.t1
Valid prediction for GlimmerHMM_glimmerT_18990-T1
Valid prediction for Augustus_model.g12722.t1
Valid prediction for CodingQuarry_transcript_57760-T1
Valid prediction for GlimmerHMM_glimmerT_18978-T1
Valid prediction for GlimmerHMM_glimmerT_18989-T1
Valid prediction for snap_scaffold_7-snap.3494-T1
Valid prediction for Augustus_model.g12716.t1
Valid prediction for snap_scaffold_7-snap.3515-T1
Valid prediction for snap_scaffold_7-snap.3491-T1
Valid prediction for snap_scaffold_7-snap.3513-T1
Valid prediction for GlimmerHMM_glimmerT_18973-T1
Valid prediction for GlimmerHMM_glimmerT_18979-T1
Valid prediction for snap_scaffold_7-snap.3521-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 21668, rend_intergenic: 3981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26717, rend_intergenic: 25288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32894, rend_intergenic: 26886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47148, rend_intergenic: 44680  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59778, rend_intergenic: 47437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77798, rend_intergenic: 61844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133010, rend_intergenic: 77858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136109, rend_intergenic: 133235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140031, rend_intergenic: 136511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159803, rend_intergenic: 155073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172785, rend_intergenic: 160896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172855, rend_intergenic: 172845  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178443, rend_intergenic: 172873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180677, rend_intergenic: 179356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 181494
-exon list size: 393


building trellis

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-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 21668, rend_intergenic: 3981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26717, rend_intergenic: 25288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32894, rend_intergenic: 26886  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47148, rend_intergenic: 44680  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59778, rend_intergenic: 47437  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77798, rend_intergenic: 61844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133010, rend_intergenic: 77858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136109, rend_intergenic: 133235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140031, rend_intergenic: 136511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159803, rend_intergenic: 155073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172785, rend_intergenic: 160896  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172855, rend_intergenic: 172845  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178443, rend_intergenic: 172873  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180677, rend_intergenic: 179356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support