-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_919934-1111197

-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_10-snap.213-T1
Valid prediction for snap_scaffold_10-snap.227-T1
Valid prediction for GlimmerHMM_glimmerT_24059-T1
Valid prediction for Augustus_model.g16054.t1
Valid prediction for GlimmerHMM_glimmerT_24049-T1
Valid prediction for Augustus_model.g16049.t1
Valid prediction for snap_scaffold_10-snap.241-T1
Valid prediction for GlimmerHMM_glimmerT_24060-T1
Valid prediction for Augustus_model.g16042.t1
Couldn't classify 13582, 13631
Sorry, prediction pasa_asmbl_2888.p1 fails validation.
(CAC)	 GT	13582-13631	GT	AGG
(CTA)	 AG	14090-14999	AA	AAA
-recovered pasa_asmbl_2888.p1, terminal, 14090, 14999
Valid prediction for CodingQuarry_transcript_5270-T1
Valid prediction for GlimmerHMM_glimmerT_24054-T1
Valid prediction for GlimmerHMM_glimmerT_24055-T1
Couldn't classify 46373, 46387
Couldn't classify 49751, 49882
Sorry, prediction pasa_asmbl_2895.p1 fails validation.
(AGC)	 AC	46373-46387	GT	CGG
(CTG)	 AG	46565-46650	GT	AGG
(TCT)	 AG	47338-47483	GT	TGG
(GTG)	 AG	47571-47749	GT	GGG
(GTG)	 AG	48093-48293	GT	AGG
(GGC)	 AG	48512-48604	GT	AGG
(GCG)	 AG	48693-48845	GT	AGG
(TGT)	 AG	48976-49113	GT	AGG
(GTA)	 AG	49200-49274	GT	AGG
(GCA)	 AG	49431-49664	GT	AGG
(TGT)	 AG	49751-49882	GT	AGG
-recovered pasa_asmbl_2895.p1, internal, 46565, 46650
-recovered pasa_asmbl_2895.p1, internal, 47338, 47483
-recovered pasa_asmbl_2895.p1, internal, 47571, 47749
-recovered pasa_asmbl_2895.p1, internal, 48093, 48293
-recovered pasa_asmbl_2895.p1, internal, 48512, 48604
-recovered pasa_asmbl_2895.p1, internal, 48693, 48845
-recovered pasa_asmbl_2895.p1, internal, 48976, 49113
-recovered pasa_asmbl_2895.p1, internal, 49200, 49274
-recovered pasa_asmbl_2895.p1, internal, 49431, 49664
-recovered pasa_asmbl_2895.p1, internal, 49751, 49882
Valid prediction for snap_scaffold_10-snap.243-T1
Valid prediction for snap_scaffold_10-snap.234-T1
Valid prediction for snap_scaffold_10-snap.215-T1
Valid prediction for GlimmerHMM_glimmerT_24075-T1
Valid prediction for GlimmerHMM_glimmerT_24050-T1
Valid prediction for snap_scaffold_10-snap.230-T1
Valid prediction for GlimmerHMM_glimmerT_24074-T1
Valid prediction for Augustus_model.g16048.t1
Valid prediction for Augustus_model.g16040.t1
Valid prediction for snap_scaffold_10-snap.237-T1
Valid prediction for HiQ_model.g16038.t1
Valid prediction for Augustus_model.g16036.t1
Valid prediction for pasa_asmbl_2889.p1
Valid prediction for snap_scaffold_10-snap.224-T1
Valid prediction for pasa_asmbl_2891.p1
Valid prediction for GlimmerHMM_glimmerT_24070-T1
Valid prediction for GlimmerHMM_glimmerT_24051-T1
Valid prediction for Augustus_model.g16053.t1
Valid prediction for pasa_asmbl_2886.p1
Valid prediction for snap_scaffold_10-snap.225-T1
Valid prediction for HiQ_model.g16037.t1
Valid prediction for snap_scaffold_10-snap.214-T1
Valid prediction for GlimmerHMM_glimmerT_24069-T1
Valid prediction for snap_scaffold_10-snap.211-T1
Valid prediction for Augustus_model.g16047.t1
Valid prediction for snap_scaffold_10-snap.217-T1
Valid prediction for GlimmerHMM_glimmerT_24052-T1
Valid prediction for GlimmerHMM_glimmerT_24071-T1
Valid prediction for GlimmerHMM_glimmerT_24066-T1
Valid prediction for snap_scaffold_10-snap.222-T1
Valid prediction for GlimmerHMM_glimmerT_24056-T1
Valid prediction for CodingQuarry_transcript_5269-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 snap_scaffold_10-snap.210-T1
Valid prediction for snap_scaffold_10-snap.240-T1
Valid prediction for snap_scaffold_10-snap.232-T1
Valid prediction for GlimmerHMM_glimmerT_24053-T1
Valid prediction for Augustus_model.g16051.t1
Valid prediction for CodingQuarry_transcript_5268-T1
Couldn't classify 107609, 107771
Sorry, prediction pasa_asmbl_4033.p1 fails validation.
(ATG)	 GG	100724-100794	GT	AGG
(CTG)	 AG	103708-103760	GT	AGG
(CCC)	 AG	104782-104843	GT	ACG
(CAA)	 AG	105842-105952	GT	CGG
(AAC)	 AG	106755-106831	GT	TCG
(GAA)	 AG	106921-107044	GT	AGG
(GAT)	 AG	107308-107513	GT	GGG
(GGT)	 AG	107609-107771	GT	AGG
-recovered pasa_asmbl_4033.p1, initial, 100724, 100794
-recovered pasa_asmbl_4033.p1, internal, 103708, 103760
-recovered pasa_asmbl_4033.p1, internal, 104782, 104843
-recovered pasa_asmbl_4033.p1, internal, 105842, 105952
-recovered pasa_asmbl_4033.p1, internal, 106755, 106831
-recovered pasa_asmbl_4033.p1, internal, 106921, 107044
-recovered pasa_asmbl_4033.p1, internal, 107308, 107513
-recovered pasa_asmbl_4033.p1, internal, 107609, 107771
Valid prediction for snap_scaffold_10-snap.219-T1
Valid prediction for snap_scaffold_10-snap.209-T1
Valid prediction for CodingQuarry_transcript_5278-T1
Valid prediction for GlimmerHMM_glimmerT_24065-T1
Valid prediction for snap_scaffold_10-snap.221-T1
Valid prediction for CodingQuarry_transcript_5275-T1
Couldn't classify 181506, 181862
Sorry, prediction pasa_asmbl_4014.p1 fails validation.
(TGC)	 AC	181506-181862	GT	AGG
(GTG)	 AG	181943-182082	GT	AGG
(GAA)	 AG	182285-182420	GA	AAG
-recovered pasa_asmbl_4014.p1, terminal, 182285, 182420
-recovered pasa_asmbl_4014.p1, internal, 181943, 182082
Valid prediction for GlimmerHMM_glimmerT_24062-T1
Valid prediction for CodingQuarry_transcript_5273-T1
Valid prediction for GlimmerHMM_glimmerT_24072-T1
Valid prediction for CodingQuarry_transcript_5267-T1
Valid prediction for snap_scaffold_10-snap.212-T1
Valid prediction for snap_scaffold_10-snap.226-T1
Valid prediction for GlimmerHMM_glimmerT_24047-T1
Couldn't classify 48645, 49028
Sorry, prediction pasa_asmbl_4040.p1 fails validation.
(CCT)	 AC	48645-49028	GC	GAG
Valid prediction for Augustus_model.g16043.t1
Valid prediction for snap_scaffold_10-snap.242-T1
Valid prediction for GlimmerHMM_glimmerT_24063-T1
Valid prediction for HiQ_model.g16045.t1
Valid prediction for CodingQuarry_transcript_5274-T1
Valid prediction for HiQ_model.g16034.t1
Couldn't classify 132375, 132562
Sorry, prediction pasa_asmbl_4024.p1 fails validation.
(ATG)	 AC	114750-114857	GT	AGG
(ATC)	 AG	115054-115170	GT	ACG
(GAG)	 AG	115269-115415	GT	AGG
(GCC)	 AG	115574-115695	GT	AGG
(CGC)	 AG	115863-116002	GT	AGG
(GTG)	 AG	118703-118843	GT	AGG
(CCG)	 AG	119100-119215	GT	AGG
(CTC)	 AG	119859-120020	GT	AGG
(CTC)	 AG	120512-120613	GT	AGG
(GCT)	 AG	120808-120923	GT	AGG
(GGA)	 AG	121062-121506	GT	CGG
(ACG)	 AG	121599-123222	GT	AGG
(CAC)	 AG	123822-123935	GT	AGG
(ACG)	 AG	124428-124576	GT	AGG
(AAC)	 AG	124808-125169	GT	AGG
(GAT)	 AG	125388-125620	GT	AGG
(GAG)	 AG	125980-126031	GT	AGG
(ACT)	 AG	128389-128579	GT	CGG
(GGG)	 AG	131181-131531	GT	AGG
(ACC)	 AG	131730-131855	GT	AGG
(CAG)	 AG	132130-132246	GT	AGG
(ACA)	 AG	132375-132562	AG	ACA
-recovered pasa_asmbl_4024.p1, initial, 114750, 114857
-recovered pasa_asmbl_4024.p1, internal, 115054, 115170
-recovered pasa_asmbl_4024.p1, internal, 115269, 115415
-recovered pasa_asmbl_4024.p1, internal, 115574, 115695
-recovered pasa_asmbl_4024.p1, internal, 115863, 116002
-recovered pasa_asmbl_4024.p1, internal, 118703, 118843
-recovered pasa_asmbl_4024.p1, internal, 119100, 119215
-recovered pasa_asmbl_4024.p1, internal, 119859, 120020
-recovered pasa_asmbl_4024.p1, internal, 120512, 120613
-recovered pasa_asmbl_4024.p1, internal, 120808, 120923
-recovered pasa_asmbl_4024.p1, internal, 121062, 121506
-recovered pasa_asmbl_4024.p1, internal, 121599, 123222
-recovered pasa_asmbl_4024.p1, internal, 123822, 123935
-recovered pasa_asmbl_4024.p1, internal, 124428, 124576
-recovered pasa_asmbl_4024.p1, internal, 124808, 125169
-recovered pasa_asmbl_4024.p1, internal, 125388, 125620
-recovered pasa_asmbl_4024.p1, internal, 125980, 126031
-recovered pasa_asmbl_4024.p1, internal, 128389, 128579
-recovered pasa_asmbl_4024.p1, internal, 131181, 131531
-recovered pasa_asmbl_4024.p1, internal, 131730, 131855
-recovered pasa_asmbl_4024.p1, internal, 132130, 132246
Valid prediction for GlimmerHMM_glimmerT_24057-T1
Valid prediction for Augustus_model.g16044.t1
Valid prediction for snap_scaffold_10-snap.231-T1
Couldn't classify 29715, 29836
Sorry, prediction pasa_asmbl_4044.p1 fails validation.
(TTA)	 CC	29715-29836	GT	ATG
(TTA)	 AG	30235-30328	GT	AGG
(CTG)	 AG	30471-30615	GT	CGG
(GGC)	 AG	31072-31159	GT	AGG
(GCT)	 AG	31451-31675	GT	CGG
(GGA)	 AG	31852-32371	GT	AGG
(GTC)	 AG	33563-33689	GT	CGG
(ATG)	 AG	33927-34231	CT	AGC
-recovered pasa_asmbl_4044.p1, terminal, 33927, 34231
-recovered pasa_asmbl_4044.p1, internal, 30235, 30328
-recovered pasa_asmbl_4044.p1, internal, 30471, 30615
-recovered pasa_asmbl_4044.p1, internal, 31072, 31159
-recovered pasa_asmbl_4044.p1, internal, 31451, 31675
-recovered pasa_asmbl_4044.p1, internal, 31852, 32371
-recovered pasa_asmbl_4044.p1, internal, 33563, 33689
Valid prediction for Augustus_model.g16052.t1
Valid prediction for GlimmerHMM_glimmerT_24067-T1
Couldn't classify 156254, 157102
Sorry, prediction pasa_asmbl_4016.p1 fails validation.
(CGC)	 CA	156254-157102	AA	AGA
Valid prediction for GlimmerHMM_glimmerT_24061-T1
Couldn't classify 112486, 112602
Couldn't classify 113632, 113712
Sorry, prediction pasa_asmbl_4031.p1 fails validation.
(GCA)	 CG	112486-112602	GT	AGG
(GAG)	 AG	112756-112866	GT	AGG
(CAA)	 AG	113034-113171	GT	CCG
(AAC)	 AG	113367-113546	GT	AGG
(GAC)	 AG	113632-113712	AA	TGA
-recovered pasa_asmbl_4031.p1, internal, 112756, 112866
-recovered pasa_asmbl_4031.p1, internal, 113034, 113171
-recovered pasa_asmbl_4031.p1, internal, 113367, 113546
Valid prediction for GlimmerHMM_glimmerT_24064-T1
Valid prediction for GlimmerHMM_glimmerT_24048-T1
Valid prediction for HiQ_model.g16046.t1
Valid prediction for GlimmerHMM_glimmerT_24068-T1
Couldn't classify 110948, 111085
Couldn't classify 112202, 112321
Sorry, prediction pasa_asmbl_4032.p1 fails validation.
(CAG)	 TC	110948-111085	GT	AGG
(GCT)	 AG	111302-111421	GT	AGG
(ATT)	 AG	111709-111801	GC	AGG
(GGG)	 AG	112024-112101	GT	AGG
(GTT)	 AG	112202-112321	AA	AGA
-recovered pasa_asmbl_4032.p1, internal, 111302, 111421
-recovered pasa_asmbl_4032.p1, internal, 111709, 111801
-recovered pasa_asmbl_4032.p1, internal, 112024, 112101
Valid prediction for CodingQuarry_transcript_5271-T1
Valid prediction for snap_scaffold_10-snap.233-T1
Valid prediction for Augustus_model.g16050.t1
Valid prediction for pasa_asmbl_4038.p1
Valid prediction for snap_scaffold_10-snap.218-T1
Valid prediction for pasa_asmbl_4009.p1
Valid prediction for Augustus_model.g16039.t1
Valid prediction for snap_scaffold_10-snap.239-T1
Valid prediction for GlimmerHMM_glimmerT_24058-T1
Valid prediction for pasa_asmbl_4020.p1
Valid prediction for Augustus_model.g16041.t1
Valid prediction for snap_scaffold_10-snap.216-T1
Valid prediction for snap_scaffold_10-snap.238-T1
Valid prediction for GlimmerHMM_glimmerT_24073-T1
Valid prediction for snap_scaffold_10-snap.236-T1
Valid prediction for snap_scaffold_10-snap.229-T1
Valid prediction for snap_scaffold_10-snap.223-T1
Valid prediction for HiQ_model.g16035.t1
Valid prediction for snap_scaffold_10-snap.220-T1
Valid prediction for snap_scaffold_10-snap.228-T1
Valid prediction for CodingQuarry_transcript_5276-T1
Valid prediction for snap_scaffold_10-snap.235-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 50693, rend_intergenic: 38385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60251, rend_intergenic: 55927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61591, rend_intergenic: 61310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81729, rend_intergenic: 68278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83482, rend_intergenic: 81962  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88266, rend_intergenic: 84988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116052, rend_intergenic: 110652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183715, rend_intergenic: 171452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 191264
-exon list size: 466


building trellis

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94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.2    
96.4    
96.6    
96.8    
97.0    
97.2    
97.4    
97.6    
97.9    
98.1    
98.3    
98.5    
98.7    
98.9    
99.1    
99.4    
99.6    
99.8    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 50693, rend_intergenic: 38385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60251, rend_intergenic: 55927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61591, rend_intergenic: 61310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81729, rend_intergenic: 68278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83482, rend_intergenic: 81962  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88266, rend_intergenic: 84988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116052, rend_intergenic: 110652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183715, rend_intergenic: 171452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support