-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_4098874-4247957

-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_14-snap.780-T1
Valid prediction for snap_scaffold_14-snap.756-T1
Valid prediction for snap_scaffold_14-snap.760-T1
Couldn't classify 80957, 81053
Couldn't classify 82805, 82887
Sorry, prediction pasa_asmbl_12747.p2 fails validation.
(GCC)	 CC	80957-81053	GT	AGG
(GGG)	 AG	81437-81625	GT	AGG
(GCT)	 AG	81826-81981	GT	AGG
(GTG)	 AG	82342-82506	GT	AGG
(GCA)	 AG	82805-82887	AC	GGA
-recovered pasa_asmbl_12747.p2, internal, 81437, 81625
-recovered pasa_asmbl_12747.p2, internal, 81826, 81981
-recovered pasa_asmbl_12747.p2, internal, 82342, 82506
Valid prediction for snap_scaffold_14-snap.781-T1
Valid prediction for GlimmerHMM_glimmerT_33624-T1
Valid prediction for Augustus_model.g22491.t1
Valid prediction for GlimmerHMM_glimmerT_33619-T1
Valid prediction for GlimmerHMM_glimmerT_33616-T1
Couldn't classify 45812, 45920
Sorry, prediction pasa_asmbl_11980.p1 fails validation.
(TCT)	 AG	45812-45920	GT	AGG
(AAG)	 AG	46317-46435	GT	CGG
(GAA)	 AG	46789-46833	GT	AGG
(AAT)	 AG	49507-49549	GT	TGG
(CCC)	 AG	52406-52494	GT	AGG
(GAG)	 AG	54145-54236	GT	AGG
(TAT)	 AG	54351-54463	GT	CGG
(CCA)	 AG	54569-54627	GT	AGG
(ATC)	 AG	55582-55666	GT	AGG
(AAG)	 AG	55806-55984	AC	GAA
-recovered pasa_asmbl_11980.p1, terminal, 55806, 55984
-recovered pasa_asmbl_11980.p1, internal, 45812, 45920
-recovered pasa_asmbl_11980.p1, internal, 46317, 46435
-recovered pasa_asmbl_11980.p1, internal, 46789, 46833
-recovered pasa_asmbl_11980.p1, internal, 49507, 49549
-recovered pasa_asmbl_11980.p1, internal, 52406, 52494
-recovered pasa_asmbl_11980.p1, internal, 54145, 54236
-recovered pasa_asmbl_11980.p1, internal, 54351, 54463
-recovered pasa_asmbl_11980.p1, internal, 54569, 54627
-recovered pasa_asmbl_11980.p1, internal, 55582, 55666
Valid prediction for Augustus_model.g22493.t1
Valid prediction for snap_scaffold_14-snap.753-T1
Valid prediction for GlimmerHMM_glimmerT_33623-T1
Couldn't classify 79226, 79332
Sorry, prediction pasa_asmbl_11984.p1 fails validation.
(ATG)	 CC	74712-74852	GT	AGG
(GTG)	 AG	75092-75272	GT	TGG
(TCC)	 AG	75733-75870	GT	GAG
(AGC)	 AG	76087-76269	GT	CAG
(TCC)	 AG	76587-76715	GT	AGG
(ACC)	 AG	78755-78964	GT	AGG
(GAG)	 AG	79226-79332	AA	AGA
-recovered pasa_asmbl_11984.p1, initial, 74712, 74852
-recovered pasa_asmbl_11984.p1, internal, 75092, 75272
-recovered pasa_asmbl_11984.p1, internal, 75733, 75870
-recovered pasa_asmbl_11984.p1, internal, 76087, 76269
-recovered pasa_asmbl_11984.p1, internal, 76587, 76715
-recovered pasa_asmbl_11984.p1, internal, 78755, 78964
Valid prediction for snap_scaffold_14-snap.758-T1
Valid prediction for snap_scaffold_14-snap.779-T1
Valid prediction for GlimmerHMM_glimmerT_33629-T1
Valid prediction for snap_scaffold_14-snap.773-T1
Valid prediction for GlimmerHMM_glimmerT_33611-T1
Valid prediction for snap_scaffold_14-snap.762-T1
Valid prediction for Augustus_model.g22489.t1
Valid prediction for Augustus_model.g22484.t1
Valid prediction for pasa_asmbl_11973.p1
Valid prediction for snap_scaffold_14-snap.775-T1
Valid prediction for GlimmerHMM_glimmerT_33613-T1
Valid prediction for GlimmerHMM_glimmerT_33632-T1
Valid prediction for snap_scaffold_14-snap.770-T1
Valid prediction for GlimmerHMM_glimmerT_33621-T1
Valid prediction for snap_scaffold_14-snap.783-T1
Valid prediction for GlimmerHMM_glimmerT_33617-T1
Valid prediction for GlimmerHMM_glimmerT_33618-T1
Valid prediction for GlimmerHMM_glimmerT_33626-T1
Valid prediction for HiQ_model.g22488.t1
Valid prediction for Augustus_model.g22486.t1
Valid prediction for snap_scaffold_14-snap.772-T1
Valid prediction for CodingQuarry_transcript_15625-T1
Valid prediction for HiQ_model.g22482.t1
Valid prediction for CodingQuarry_transcript_15628-T1
Couldn't classify 73241, 73372
Couldn't classify 73628, 73810
Sorry, prediction pasa_asmbl_12692.p1 fails validation.
(TTC)	 CC	73241-73372	GT	GGG
(GAC)	 AG	73628-73810	AC	GCA
Valid prediction for snap_scaffold_14-snap.761-T1
Valid prediction for GlimmerHMM_glimmerT_33610-T1
Couldn't classify 133669, 133747
Sorry, prediction pasa_asmbl_11990.p1 fails validation.
(CTG)	 CG	133669-133747	GT	AGG
(CAA)	 AG	134168-134359	GT	TGG
(GCG)	 AG	134464-134595	GT	ATG
(TTA)	 AG	134862-135064	GT	AGG
(GCG)	 AG	135666-135738	GT	AGG
(ACG)	 AG	135883-135928	GT	GTG
(AGG)	 AG	136253-136405	GT	AGG
(TGT)	 AG	136639-136775	GT	CCG
(ACA)	 AG	137129-137265	GC	GAG
-recovered pasa_asmbl_11990.p1, terminal, 137129, 137265
-recovered pasa_asmbl_11990.p1, internal, 134168, 134359
-recovered pasa_asmbl_11990.p1, internal, 134464, 134595
-recovered pasa_asmbl_11990.p1, internal, 134862, 135064
-recovered pasa_asmbl_11990.p1, internal, 135666, 135738
-recovered pasa_asmbl_11990.p1, internal, 135883, 135928
-recovered pasa_asmbl_11990.p1, internal, 136253, 136405
-recovered pasa_asmbl_11990.p1, internal, 136639, 136775
-recovered pasa_asmbl_11990.p1, internal, 137129, 137265
Valid prediction for Augustus_model.g22487.t1
Valid prediction for snap_scaffold_14-snap.786-T1
Valid prediction for HiQ_model.g22497.t1
Valid prediction for Augustus_model.g22495.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 GlimmerHMM_glimmerT_33634-T1
Valid prediction for snap_scaffold_14-snap.763-T1
Valid prediction for CodingQuarry_transcript_15627-T1
Valid prediction for CodingQuarry_transcript_15629-T1
Valid prediction for CodingQuarry_transcript_15626-T1
Valid prediction for GlimmerHMM_glimmerT_33615-T1
Valid prediction for snap_scaffold_14-snap.766-T1
Valid prediction for snap_scaffold_14-snap.776-T1
Valid prediction for Augustus_model.g22498.t1
Valid prediction for pasa_asmbl_13038.p2
Valid prediction for HiQ_model.g22483.t1
Valid prediction for snap_scaffold_14-snap.767-T1
Valid prediction for snap_scaffold_14-snap.785-T1
Valid prediction for GlimmerHMM_glimmerT_33622-T1
Valid prediction for GlimmerHMM_glimmerT_33631-T1
Valid prediction for snap_scaffold_14-snap.788-T1
Valid prediction for GlimmerHMM_glimmerT_33612-T1
Valid prediction for Augustus_model.g22499.t1
Valid prediction for snap_scaffold_14-snap.764-T1
Couldn't classify 7849, 7908
Couldn't classify 8893, 9033
Sorry, prediction pasa_asmbl_13043.p1 fails validation.
(GTG)	 GG	7849-7908	GT	AGG
(GAA)	 AG	8226-8310	GT	AGG
(CTC)	 AG	8524-8723	GT	AGG
(GGA)	 AG	8893-9033	AA	CCA
-recovered pasa_asmbl_13043.p1, internal, 8226, 8310
-recovered pasa_asmbl_13043.p1, internal, 8524, 8723
Valid prediction for snap_scaffold_14-snap.765-T1
Valid prediction for GlimmerHMM_glimmerT_33620-T1
Valid prediction for snap_scaffold_14-snap.771-T1
Valid prediction for snap_scaffold_14-snap.768-T1
Valid prediction for Augustus_model.g22496.t1
Valid prediction for GlimmerHMM_glimmerT_33628-T1
Valid prediction for pasa_asmbl_13035.p1
Valid prediction for snap_scaffold_14-snap.754-T1
Valid prediction for snap_scaffold_14-snap.769-T1
Valid prediction for Augustus_model.g22494.t1
Valid prediction for snap_scaffold_14-snap.759-T1
Valid prediction for Augustus_model.g22490.t1
Valid prediction for snap_scaffold_14-snap.774-T1
Valid prediction for pasa_asmbl_13042.p1
Valid prediction for GlimmerHMM_glimmerT_33630-T1
Valid prediction for snap_scaffold_14-snap.755-T1
Valid prediction for snap_scaffold_14-snap.777-T1
Valid prediction for GlimmerHMM_glimmerT_33633-T1
Valid prediction for snap_scaffold_14-snap.778-T1
Valid prediction for snap_scaffold_14-snap.784-T1
Valid prediction for Augustus_model.g22485.t1
Valid prediction for GlimmerHMM_glimmerT_33625-T1
Valid prediction for Augustus_model.g22500.t1
Valid prediction for snap_scaffold_14-snap.757-T1
Valid prediction for GlimmerHMM_glimmerT_33614-T1
Valid prediction for HiQ_model.g22492.t1
Valid prediction for GlimmerHMM_glimmerT_33627-T1
Valid prediction for snap_scaffold_14-snap.782-T1
Valid prediction for snap_scaffold_14-snap.787-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7403, rend_intergenic: 6546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31860, rend_intergenic: 26570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41155, rend_intergenic: 38211  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83389, rend_intergenic: 46763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89400, rend_intergenic: 88250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90194, rend_intergenic: 89400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107834, rend_intergenic: 101637  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121973, rend_intergenic: 110506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137265, rend_intergenic: 134741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143308, rend_intergenic: 139522  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 149084
-exon list size: 450


building trellis

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-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 7403, rend_intergenic: 6546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31860, rend_intergenic: 26570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41155, rend_intergenic: 38211  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83389, rend_intergenic: 46763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89400, rend_intergenic: 88250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90194, rend_intergenic: 89400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107834, rend_intergenic: 101637  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121973, rend_intergenic: 110506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137265, rend_intergenic: 134741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143308, rend_intergenic: 139522  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support