-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_16512899-16752498

-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 CodingQuarry_transcript_59934-T1
Valid prediction for CodingQuarry_transcript_59932-T1
Valid prediction for snap_scaffold_8-snap.2999-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_21129-T1
Valid prediction for snap_scaffold_8-snap.3028-T1
Couldn't classify 20968, 20971
Couldn't classify 21017, 21138
Sorry, prediction CodingQuarry_transcript_59928-T1 fails validation.
(ATG)	 CA	20968-20971	AA	GAA
(AAG)	 GG	21017-21138	CA	GAC
Valid prediction for GlimmerHMM_glimmerT_21123-T1
Valid prediction for snap_scaffold_8-snap.3015-T1
Valid prediction for Augustus_model.g14060.t1
Valid prediction for CodingQuarry_transcript_59929-T1
Valid prediction for snap_scaffold_8-snap.3005-T1
Valid prediction for GlimmerHMM_glimmerT_21125-T1
Couldn't classify 136923, 138213
Sorry, prediction pasa_asmbl_53463.p1 fails validation.
(GTC)	 AA	136923-138213	GT	TGG
(AGT)	 AG	138311-138549	GC	AGG
-recovered pasa_asmbl_53463.p1, terminal, 138311, 138549
-recovered pasa_asmbl_53463.p1, internal, 138311, 138549
Valid prediction for snap_scaffold_8-snap.3040-T1
Valid prediction for snap_scaffold_8-snap.3033-T1
Valid prediction for GlimmerHMM_glimmerT_21121-T1
Valid prediction for Augustus_model.g14067.t1
Valid prediction for GlimmerHMM_glimmerT_21135-T1
Couldn't classify 21327, 21356
Sorry, prediction pasa_asmbl_53459.p1 fails validation.
(TCA)	 AG	21327-21356	GT	ATG
(GAG)	 AG	22322-22414	GT	TGG
(CCC)	 AG	22836-22980	GT	AGG
(CCC)	 AG	23191-23347	GT	GGG
(GAG)	 AG	23491-23578	GG	AGG
-recovered pasa_asmbl_53459.p1, terminal, 23491, 23578
-recovered pasa_asmbl_53459.p1, internal, 21327, 21356
-recovered pasa_asmbl_53459.p1, internal, 22322, 22414
-recovered pasa_asmbl_53459.p1, internal, 22836, 22980
-recovered pasa_asmbl_53459.p1, internal, 23191, 23347
Valid prediction for GlimmerHMM_glimmerT_21136-T1
Valid prediction for snap_scaffold_8-snap.3016-T1
Valid prediction for pasa_asmbl_53466.p1
Valid prediction for HiQ_model.g14063.t1
Valid prediction for Augustus_model.g14072.t1
Valid prediction for snap_scaffold_8-snap.3037-T1
Valid prediction for snap_scaffold_8-snap.3039-T1
Valid prediction for snap_scaffold_8-snap.3018-T1
Valid prediction for HiQ_model.g14064.t1
Valid prediction for snap_scaffold_8-snap.3007-T1
Valid prediction for GlimmerHMM_glimmerT_21137-T1
Valid prediction for snap_scaffold_8-snap.3026-T1
Valid prediction for snap_scaffold_8-snap.2998-T1
Valid prediction for snap_scaffold_8-snap.3047-T1
Valid prediction for snap_scaffold_8-snap.3019-T1
Valid prediction for HiQ_model.g14071.t1
Valid prediction for snap_scaffold_8-snap.3048-T1
Valid prediction for Augustus_model.g14048.t1
Valid prediction for Augustus_model.g14065.t1
Valid prediction for Augustus_model.g14047.t1
Valid prediction for snap_scaffold_8-snap.3035-T1
Valid prediction for Augustus_model.g14070.t1
Valid prediction for snap_scaffold_8-snap.3001-T1
Valid prediction for GlimmerHMM_glimmerT_21122-T1
Valid prediction for Augustus_model.g14068.t1
Valid prediction for GlimmerHMM_glimmerT_21131-T1
Valid prediction for pasa_asmbl_53467.p1
Valid prediction for GlimmerHMM_glimmerT_21120-T1
Valid prediction for snap_scaffold_8-snap.3046-T1
Valid prediction for GlimmerHMM_glimmerT_21127-T1
Valid prediction for snap_scaffold_8-snap.3002-T1
Valid prediction for GlimmerHMM_glimmerT_21114-T1
Valid prediction for GlimmerHMM_glimmerT_21128-T1
Valid prediction for snap_scaffold_8-snap.3034-T1
Valid prediction for snap_scaffold_8-snap.3032-T1
Valid prediction for pasa_asmbl_53468.p1
Valid prediction for snap_scaffold_8-snap.3043-T1
Valid prediction for snap_scaffold_8-snap.3029-T1
Valid prediction for snap_scaffold_8-snap.3031-T1
Valid prediction for snap_scaffold_8-snap.3022-T1
Valid prediction for pasa_asmbl_53465.p1
Valid prediction for snap_scaffold_8-snap.3020-T1
Valid prediction for GlimmerHMM_glimmerT_21132-T1
Valid prediction for CodingQuarry_transcript_59935-T1
Valid prediction for Augustus_model.g14066.t1
Couldn't classify 227017, 227085
Couldn't classify 231614, 231715
Sorry, prediction pasa_asmbl_53472.p1 fails validation.
(ATC)	 AC	227017-227085	GT	AGG
(GTG)	 AG	227186-227298	GT	AGG
(GCT)	 AG	229212-229420	GT	TGG
(GCT)	 AG	230016-230170	GT	AGG
(GGT)	 AG	230362-230517	GT	AGG
(GTG)	 AG	230708-230842	GT	AGG
(GGT)	 AG	231098-231223	GT	AGG
(GAG)	 AG	231371-231466	GT	AGG
(GAG)	 AG	231614-231715	AG	GGA
-recovered pasa_asmbl_53472.p1, internal, 227186, 227298
-recovered pasa_asmbl_53472.p1, internal, 229212, 229420
-recovered pasa_asmbl_53472.p1, internal, 230016, 230170
-recovered pasa_asmbl_53472.p1, internal, 230362, 230517
-recovered pasa_asmbl_53472.p1, internal, 230708, 230842
-recovered pasa_asmbl_53472.p1, internal, 231098, 231223
-recovered pasa_asmbl_53472.p1, internal, 231371, 231466
Valid prediction for snap_scaffold_8-snap.3017-T1
Valid prediction for CodingQuarry_transcript_59933-T1
Valid prediction for GlimmerHMM_glimmerT_21130-T1
Valid prediction for Augustus_model.g14051.t1
Valid prediction for snap_scaffold_8-snap.3050-T1
Valid prediction for snap_scaffold_8-snap.3036-T1
Valid prediction for snap_scaffold_8-snap.3014-T1
Couldn't classify 223120, 223137
Couldn't classify 224672, 224789
Sorry, prediction pasa_asmbl_53471.p1 fails validation.
(AGG)	 AG	223120-223137	GT	AGG
(GAT)	 AG	223237-223398	GT	AGG
(CCC)	 AG	223562-223669	GT	AGG
(GCC)	 AG	224043-224167	GT	AGG
(AGC)	 AG	224302-224439	GT	AGG
(GGA)	 AG	224672-224789	CG	CCC
-recovered pasa_asmbl_53471.p1, internal, 223120, 223137
-recovered pasa_asmbl_53471.p1, internal, 223237, 223398
-recovered pasa_asmbl_53471.p1, internal, 223562, 223669
-recovered pasa_asmbl_53471.p1, internal, 224043, 224167
-recovered pasa_asmbl_53471.p1, internal, 224302, 224439
Valid prediction for GlimmerHMM_glimmerT_21133-T1
Valid prediction for GlimmerHMM_glimmerT_21124-T1
Valid prediction for Augustus_model.g14056.t1
Valid prediction for Augustus_model.g14057.t1
Valid prediction for snap_scaffold_8-snap.3023-T1
Valid prediction for snap_scaffold_8-snap.3025-T1
Valid prediction for snap_scaffold_8-snap.3021-T1
Valid prediction for GlimmerHMM_glimmerT_21113-T1
Valid prediction for HiQ_model.g14062.t1
Valid prediction for Augustus_model.g14061.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_21126-T1
Valid prediction for Augustus_model.g14052.t1
Valid prediction for snap_scaffold_8-snap.3041-T1
Valid prediction for snap_scaffold_8-snap.3038-T1
Valid prediction for GlimmerHMM_glimmerT_21117-T1
Valid prediction for GlimmerHMM_glimmerT_21119-T1
Valid prediction for HiQ_model.g14058.t1
Valid prediction for Augustus_model.g14050.t1
Couldn't classify 208896, 209088
Sorry, prediction pasa_asmbl_52428.p1 fails validation.
(CTC)	 CC	208896-209088	GT	AAG
(AGT)	 AG	209197-209309	GT	AGG
(ATC)	 AG	209392-209499	GT	AGG
(CTG)	 AG	209963-210170	GT	AGG
(AGG)	 AG	210343-210458	GT	AGG
(GTG)	 AG	210576-210695	GT	AGG
(GTT)	 AG	210829-211636	GT	ATG
(GTC)	 AG	211756-211931	GT	AGG
(ATA)	 AG	212048-212128	GT	AGG
(CCG)	 AG	212255-212370	GT	AGG
(GTT)	 AG	212508-212626	GT	CGG
(AGC)	 AG	212816-212946	GT	AGG
(CTC)	 AG	213333-213380	GT	AGG
(GGC)	 AG	213472-213602	GT	AGG
(GGA)	 AG	213696-213870	GG	GAG
-recovered pasa_asmbl_52428.p1, terminal, 213696, 213870
-recovered pasa_asmbl_52428.p1, internal, 209197, 209309
-recovered pasa_asmbl_52428.p1, internal, 209392, 209499
-recovered pasa_asmbl_52428.p1, internal, 209963, 210170
-recovered pasa_asmbl_52428.p1, internal, 210343, 210458
-recovered pasa_asmbl_52428.p1, internal, 210576, 210695
-recovered pasa_asmbl_52428.p1, internal, 210829, 211636
-recovered pasa_asmbl_52428.p1, internal, 211756, 211931
-recovered pasa_asmbl_52428.p1, internal, 212048, 212128
-recovered pasa_asmbl_52428.p1, internal, 212255, 212370
-recovered pasa_asmbl_52428.p1, internal, 212508, 212626
-recovered pasa_asmbl_52428.p1, internal, 212816, 212946
-recovered pasa_asmbl_52428.p1, internal, 213333, 213380
-recovered pasa_asmbl_52428.p1, internal, 213472, 213602
Valid prediction for snap_scaffold_8-snap.3003-T1
Valid prediction for Augustus_model.g14054.t1
Valid prediction for snap_scaffold_8-snap.3030-T1
Valid prediction for Augustus_model.g14073.t1
Valid prediction for GlimmerHMM_glimmerT_21112-T1
Valid prediction for snap_scaffold_8-snap.3009-T1
Valid prediction for snap_scaffold_8-snap.3044-T1
Valid prediction for snap_scaffold_8-snap.3049-T1
Valid prediction for snap_scaffold_8-snap.3024-T1
Valid prediction for snap_scaffold_8-snap.3010-T1
Valid prediction for Augustus_model.g14046.t1
Couldn't classify 131737, 131894
Sorry, prediction pasa_asmbl_52432.p1 fails validation.
(AAA)	 AG	131737-131894	GT	AGG
(GAT)	 AG	132127-132218	GT	AGG
(TGC)	 AG	132315-132407	GT	TGG
(CAA)	 AG	132635-132732	GT	CTG
(GTC)	 AG	132809-132889	GT	ATG
(GAT)	 AG	133043-133134	GT	CGG
(GGA)	 AG	133258-133702	GC	GAG
-recovered pasa_asmbl_52432.p1, terminal, 133258, 133702
-recovered pasa_asmbl_52432.p1, internal, 131737, 131894
-recovered pasa_asmbl_52432.p1, internal, 132127, 132218
-recovered pasa_asmbl_52432.p1, internal, 132315, 132407
-recovered pasa_asmbl_52432.p1, internal, 132635, 132732
-recovered pasa_asmbl_52432.p1, internal, 132809, 132889
-recovered pasa_asmbl_52432.p1, internal, 133043, 133134
-recovered pasa_asmbl_52432.p1, internal, 133258, 133702
Valid prediction for HiQ_model.g14049.t1
Valid prediction for snap_scaffold_8-snap.3000-T1
Valid prediction for snap_scaffold_8-snap.3027-T1
Valid prediction for Augustus_model.g14055.t1
Valid prediction for snap_scaffold_8-snap.3012-T1
Valid prediction for GlimmerHMM_glimmerT_21134-T1
Valid prediction for Augustus_model.g14059.t1
Valid prediction for snap_scaffold_8-snap.3013-T1
Valid prediction for snap_scaffold_8-snap.3008-T1
Valid prediction for snap_scaffold_8-snap.3004-T1
Valid prediction for GlimmerHMM_glimmerT_21116-T1
Valid prediction for snap_scaffold_8-snap.3011-T1
Valid prediction for GlimmerHMM_glimmerT_21115-T1
Valid prediction for snap_scaffold_8-snap.2997-T1
Valid prediction for pasa_asmbl_52429.p1
Valid prediction for snap_scaffold_8-snap.3042-T1
Valid prediction for HiQ_model.g14053.t1
Valid prediction for snap_scaffold_8-snap.3006-T1
Valid prediction for CodingQuarry_transcript_59931-T1
Valid prediction for Augustus_model.g14069.t1
Valid prediction for pasa_asmbl_52425.p1
Valid prediction for CodingQuarry_transcript_59930-T1
Valid prediction for snap_scaffold_8-snap.3045-T1
Valid prediction for GlimmerHMM_glimmerT_21118-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8669, rend_intergenic: 5442  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37098, rend_intergenic: 28897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138549, rend_intergenic: 136277  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193797, rend_intergenic: 193004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 234825, rend_intergenic: 224762  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 239600
-exon list size: 541


building trellis

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98.5    
98.7    
98.9    
99.1    
99.3    
99.4    
99.6    
99.8    
-found 44 predictions from path traversal
Error with prediction: snap lend_intergenic: 8669, rend_intergenic: 5442  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37098, rend_intergenic: 28897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138549, rend_intergenic: 136277  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193797, rend_intergenic: 193004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 234825, rend_intergenic: 224762  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 39 predictions persist after filtering for low support