-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_12342330-12613280

-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: +)Couldn't classify 158729, 158951
Sorry, prediction pasa_asmbl_50274.p1 fails validation.
(AGC)	 GT	158729-158951	GT	AGG
(AGA)	 AG	159487-159635	GT	AGG
(CTT)	 AG	159810-159929	GT	CTG
(GGC)	 AG	160066-160161	GT	AGG
(GAG)	 AG	160248-160347	GT	AGG
(GGA)	 AG	160639-160822	GT	AGG
(GTA)	 AG	160944-161099	GT	AGG
(TGA)	 AG	161212-161445	GT	CAG
(CTT)	 AG	161562-161709	AG	GAA
-recovered pasa_asmbl_50274.p1, terminal, 161562, 161709
-recovered pasa_asmbl_50274.p1, internal, 159487, 159635
-recovered pasa_asmbl_50274.p1, internal, 159810, 159929
-recovered pasa_asmbl_50274.p1, internal, 160066, 160161
-recovered pasa_asmbl_50274.p1, internal, 160248, 160347
-recovered pasa_asmbl_50274.p1, internal, 160639, 160822
-recovered pasa_asmbl_50274.p1, internal, 160944, 161099
-recovered pasa_asmbl_50274.p1, internal, 161212, 161445
Valid prediction for GlimmerHMM_glimmerT_18254-T1
Valid prediction for snap_scaffold_7-snap.2301-T1
Valid prediction for pasa_asmbl_50270.p1
Valid prediction for GlimmerHMM_glimmerT_18250-T1
Couldn't classify 246962, 247437
Couldn't classify 247561, 247603
Sorry, prediction pasa_asmbl_50277.p1 fails validation.
(AAT)	 AC	246962-247437	GT	AGG
(CGA)	 AG	247561-247603	GA	GCG
Valid prediction for CodingQuarry_transcript_57669-T1
Valid prediction for GlimmerHMM_glimmerT_18232-T1
Valid prediction for pasa_asmbl_50269.p1
Valid prediction for snap_scaffold_7-snap.2316-T1
Valid prediction for snap_scaffold_7-snap.2330-T1
Valid prediction for GlimmerHMM_glimmerT_18258-T1
Couldn't classify 4046, 4133
Couldn't classify 4247, 4378
Sorry, prediction CodingQuarry_transcript_57659-T1 fails validation.
(ATG)	 CA	2765-2789	GT	TGG
(CCC)	 AG	3340-3425	GT	GGG
(GTT)	 AG	3571-3711	GT	AAG
(GTT)	 AG	3834-3875	GT	GGG
(GTG)	 AG	4046-4133	AT	AGA
(ACA)	 AC	4247-4378	GT	TGG
(AGC)	 AG	4486-4625	GT	AGG
(GTC)	 AG	4737-4834	GT	AAG
(AGA)	 AG	4925-5097	GT	AGG
(CTT)	 AG	5230-5353	GT	GTG
(GTA)	 AG	5460-5577	GT	GTG
(TCG)	 AG	5678-5843	GT	AGG
(GTG)	 AG	6055-6188	GT	CGG
(TCA)	 AG	6764-6928	GT	AGG
(GCA)	 AG	7020-7108	GT	AGG
(GTT)	 AG	7262-7388	TC	AAT
-recovered CodingQuarry_transcript_57659-T1, initial, 2765, 2789
-recovered CodingQuarry_transcript_57659-T1, terminal, 7262, 7388
-recovered CodingQuarry_transcript_57659-T1, internal, 3340, 3425
-recovered CodingQuarry_transcript_57659-T1, internal, 3571, 3711
-recovered CodingQuarry_transcript_57659-T1, internal, 3834, 3875
-recovered CodingQuarry_transcript_57659-T1, internal, 4486, 4625
-recovered CodingQuarry_transcript_57659-T1, internal, 4737, 4834
-recovered CodingQuarry_transcript_57659-T1, internal, 4925, 5097
-recovered CodingQuarry_transcript_57659-T1, internal, 5230, 5353
-recovered CodingQuarry_transcript_57659-T1, internal, 5460, 5577
-recovered CodingQuarry_transcript_57659-T1, internal, 5678, 5843
-recovered CodingQuarry_transcript_57659-T1, internal, 6055, 6188
-recovered CodingQuarry_transcript_57659-T1, internal, 6764, 6928
-recovered CodingQuarry_transcript_57659-T1, internal, 7020, 7108
Valid prediction for GlimmerHMM_glimmerT_18263-T1
Valid prediction for snap_scaffold_7-snap.2324-T1
Valid prediction for HiQ_model.g12286.t1
Valid prediction for pasa_asmbl_50271.p1
Valid prediction for GlimmerHMM_glimmerT_18251-T1
Couldn't classify 4046, 4135
Couldn't classify 4249, 4378
Sorry, prediction CodingQuarry_transcript_57658-T1 fails validation.
(ATG)	 CA	2765-2789	GT	TGG
(CCC)	 AG	3340-3425	GT	GGG
(GTT)	 AG	3571-3711	GT	AAG
(GTT)	 AG	3834-3875	GT	GGG
(GTG)	 AG	4046-4135	AT	ATA
(AGT)	 AC	4249-4378	GT	TGG
(AGC)	 AG	4486-4625	GT	AGG
(GTC)	 AG	4737-4834	GT	AAG
(AGA)	 AG	4925-5097	GT	AGG
(CTT)	 AG	5230-5353	GT	GTG
(GTA)	 AG	5460-5577	GT	GTG
(TCG)	 AG	5678-5843	GT	AGG
(GTG)	 AG	6055-6188	GT	CGG
(TCA)	 AG	6764-6928	GT	AGG
(GCA)	 AG	7020-7108	GT	AGG
(GTT)	 AG	7262-7388	TC	AAT
-recovered CodingQuarry_transcript_57658-T1, initial, 2765, 2789
-recovered CodingQuarry_transcript_57658-T1, terminal, 7262, 7388
-recovered CodingQuarry_transcript_57658-T1, internal, 3340, 3425
-recovered CodingQuarry_transcript_57658-T1, internal, 3571, 3711
-recovered CodingQuarry_transcript_57658-T1, internal, 3834, 3875
-recovered CodingQuarry_transcript_57658-T1, internal, 4486, 4625
-recovered CodingQuarry_transcript_57658-T1, internal, 4737, 4834
-recovered CodingQuarry_transcript_57658-T1, internal, 4925, 5097
-recovered CodingQuarry_transcript_57658-T1, internal, 5230, 5353
-recovered CodingQuarry_transcript_57658-T1, internal, 5460, 5577
-recovered CodingQuarry_transcript_57658-T1, internal, 5678, 5843
-recovered CodingQuarry_transcript_57658-T1, internal, 6055, 6188
-recovered CodingQuarry_transcript_57658-T1, internal, 6764, 6928
-recovered CodingQuarry_transcript_57658-T1, internal, 7020, 7108
Valid prediction for GlimmerHMM_glimmerT_18255-T1
Valid prediction for snap_scaffold_7-snap.2343-T1
Valid prediction for Augustus_model.g12294.t1
Valid prediction for GlimmerHMM_glimmerT_18246-T1
Couldn't classify 137445, 137457
Sorry, prediction pasa_asmbl_50273.p1 fails validation.
(CAT)	 AC	137445-137457	GT	TGG
(CAC)	 AG	137545-137652	GC	AGG
(GGC)	 AG	137751-137865	GT	TGG
(GTA)	 AG	138022-138190	GT	CAG
(GAA)	 AG	138322-138433	GT	TTG
(ATG)	 AG	138593-138670	GT	AGG
(GAC)	 AG	138977-139068	GT	AGG
(GTA)	 AG	139184-139364	GT	TGG
(GCA)	 AG	139460-139553	GT	CTG
(GAG)	 AG	139708-139927	GT	AGG
(ACA)	 AG	140137-140217	GT	TAG
(GAC)	 AG	140308-140484	GT	AGG
(TTT)	 AG	140978-141126	GT	AGG
(CTA)	 AG	141324-141702	GT	GAG
add_exon() Sorry, pasa_asmbl_50273.p1 138593-138670-initial-1 is invalid.
-recovered pasa_asmbl_50273.p1, initial, 138593, 138670
add_exon() Sorry, pasa_asmbl_50273.p1 138593-138670-terminal-1 is invalid.
-recovered pasa_asmbl_50273.p1, terminal, 138593, 138670
-recovered pasa_asmbl_50273.p1, terminal, 141324, 141702
-recovered pasa_asmbl_50273.p1, internal, 137545, 137652
-recovered pasa_asmbl_50273.p1, internal, 137751, 137865
-recovered pasa_asmbl_50273.p1, internal, 138022, 138190
-recovered pasa_asmbl_50273.p1, internal, 138322, 138433
-recovered pasa_asmbl_50273.p1, internal, 138593, 138670
-recovered pasa_asmbl_50273.p1, internal, 138977, 139068
-recovered pasa_asmbl_50273.p1, internal, 139184, 139364
-recovered pasa_asmbl_50273.p1, internal, 139460, 139553
-recovered pasa_asmbl_50273.p1, internal, 139708, 139927
-recovered pasa_asmbl_50273.p1, internal, 140137, 140217
-recovered pasa_asmbl_50273.p1, internal, 140308, 140484
-recovered pasa_asmbl_50273.p1, internal, 140978, 141126
-recovered pasa_asmbl_50273.p1, internal, 141324, 141702
Couldn't classify 100780, 100840
Sorry, prediction pasa_asmbl_50267.p1 fails validation.
(ATG)	 AC	98780-98886	GT	TGG
(TCT)	 AG	99168-99258	GT	GGG
(AAA)	 AG	99354-99452	GT	AGG
(GCC)	 AG	99551-99624	GT	AGG
(AGC)	 AG	99699-99771	GT	TTG
(GTG)	 AG	99888-99979	GT	AGG
(GTA)	 AG	100059-100101	GT	AGG
(CAA)	 AG	100194-100282	GT	AGG
(GGA)	 AG	100404-100516	GT	CCG
(ATC)	 AG	100606-100699	GT	AGG
(CTT)	 AG	100780-100840	TT	ACT
-recovered pasa_asmbl_50267.p1, initial, 98780, 98886
-recovered pasa_asmbl_50267.p1, internal, 99168, 99258
-recovered pasa_asmbl_50267.p1, internal, 99354, 99452
-recovered pasa_asmbl_50267.p1, internal, 99551, 99624
-recovered pasa_asmbl_50267.p1, internal, 99699, 99771
-recovered pasa_asmbl_50267.p1, internal, 99888, 99979
-recovered pasa_asmbl_50267.p1, internal, 100059, 100101
-recovered pasa_asmbl_50267.p1, internal, 100194, 100282
-recovered pasa_asmbl_50267.p1, internal, 100404, 100516
-recovered pasa_asmbl_50267.p1, internal, 100606, 100699
Valid prediction for GlimmerHMM_glimmerT_18240-T1
Valid prediction for Augustus_model.g12300.t1
Valid prediction for HiQ_model.g12280.t1
Valid prediction for pasa_asmbl_50258.p1
Valid prediction for snap_scaffold_7-snap.2336-T1
Valid prediction for HiQ_model.g12296.t1
Couldn't classify 100904, 100933
Sorry, prediction pasa_asmbl_50268.p1 fails validation.
(TCC)	 GC	100904-100933	GT	AGG
(ACC)	 AG	101079-101401	GT	AGG
(GAA)	 AG	101507-101646	GT	AGG
(GTC)	 AG	101757-101865	GT	AGG
(CCA)	 AG	101969-102032	GT	CGG
(ACT)	 AG	102130-102294	GT	AGG
(GAG)	 AG	102395-102487	GT	AGG
(GTG)	 AG	102579-102692	GT	AGG
(GAT)	 AG	102818-102973	AA	GAA
-recovered pasa_asmbl_50268.p1, terminal, 102818, 102973
-recovered pasa_asmbl_50268.p1, internal, 101079, 101401
-recovered pasa_asmbl_50268.p1, internal, 101507, 101646
-recovered pasa_asmbl_50268.p1, internal, 101757, 101865
-recovered pasa_asmbl_50268.p1, internal, 101969, 102032
-recovered pasa_asmbl_50268.p1, internal, 102130, 102294
-recovered pasa_asmbl_50268.p1, internal, 102395, 102487
-recovered pasa_asmbl_50268.p1, internal, 102579, 102692
Valid prediction for GlimmerHMM_glimmerT_18252-T1
Valid prediction for Augustus_model.g12279.t1
Valid prediction for snap_scaffold_7-snap.2317-T1
Valid prediction for CodingQuarry_transcript_57670-T1
Valid prediction for snap_scaffold_7-snap.2302-T1
Valid prediction for snap_scaffold_7-snap.2345-T1
Valid prediction for snap_scaffold_7-snap.2328-T1
Valid prediction for GlimmerHMM_glimmerT_18264-T1
Valid prediction for pasa_asmbl_50276.p1
Valid prediction for GlimmerHMM_glimmerT_18244-T1
Valid prediction for snap_scaffold_7-snap.2326-T1
Valid prediction for pasa_asmbl_50247.p1
Couldn't classify 4046, 4135
Couldn't classify 4249, 4378
Sorry, prediction pasa_asmbl_50245.p1 fails validation.
(ATG)	 TT	2729-2789	GT	TGG
(CCC)	 AG	3340-3425	GT	GGG
(GTT)	 AG	3571-3711	GT	AAG
(GTT)	 AG	3834-3875	GT	GGG
(GTG)	 AG	4046-4135	AT	ATA
(AGT)	 AC	4249-4378	GT	TGG
(AGC)	 AG	4486-4625	GT	AGG
(GTC)	 AG	4737-4834	GT	AAG
(AGA)	 AG	4925-5097	GT	AGG
(CTT)	 AG	5230-5353	GT	GTG
(GTA)	 AG	5460-5577	GT	GTG
(TCG)	 AG	5678-5843	GT	AGG
(GTG)	 AG	6055-6188	GT	CGG
(TCA)	 AG	6764-6928	GT	AGG
(GCA)	 AG	7020-7108	GT	AGG
(GTT)	 AG	7262-7388	TC	AAT
-recovered pasa_asmbl_50245.p1, initial, 2729, 2789
-recovered pasa_asmbl_50245.p1, terminal, 7262, 7388
-recovered pasa_asmbl_50245.p1, internal, 3340, 3425
-recovered pasa_asmbl_50245.p1, internal, 3571, 3711
-recovered pasa_asmbl_50245.p1, internal, 3834, 3875
-recovered pasa_asmbl_50245.p1, internal, 4486, 4625
-recovered pasa_asmbl_50245.p1, internal, 4737, 4834
-recovered pasa_asmbl_50245.p1, internal, 4925, 5097
-recovered pasa_asmbl_50245.p1, internal, 5230, 5353
-recovered pasa_asmbl_50245.p1, internal, 5460, 5577
-recovered pasa_asmbl_50245.p1, internal, 5678, 5843
-recovered pasa_asmbl_50245.p1, internal, 6055, 6188
-recovered pasa_asmbl_50245.p1, internal, 6764, 6928
-recovered pasa_asmbl_50245.p1, internal, 7020, 7108
Valid prediction for GlimmerHMM_glimmerT_18248-T1
Valid prediction for CodingQuarry_transcript_57661-T1
Valid prediction for GlimmerHMM_glimmerT_18256-T1
Valid prediction for snap_scaffold_7-snap.2298-T1
Valid prediction for snap_scaffold_7-snap.2319-T1
Valid prediction for snap_scaffold_7-snap.2348-T1
Valid prediction for Augustus_model.g12271.t1
Valid prediction for Augustus_model.g12298.t1
Valid prediction for snap_scaffold_7-snap.2339-T1
Valid prediction for snap_scaffold_7-snap.2342-T1
Valid prediction for CodingQuarry_transcript_57671-T1
Valid prediction for Augustus_model.g12291.t1
Valid prediction for snap_scaffold_7-snap.2333-T1
Valid prediction for HiQ_model.g12289.t1
Valid prediction for CodingQuarry_transcript_57672-T1
Valid prediction for GlimmerHMM_glimmerT_18229-T1
Valid prediction for snap_scaffold_7-snap.2321-T1
Valid prediction for HiQ_model.g12285.t1
Valid prediction for pasa_asmbl_50265.p1
Valid prediction for Augustus_model.g12304.t1
Valid prediction for snap_scaffold_7-snap.2303-T1
Valid prediction for GlimmerHMM_glimmerT_18228-T1
Valid prediction for HiQ_model.g12290.t1
Valid prediction for snap_scaffold_7-snap.2322-T1
Valid prediction for HiQ_model.g12274.t1
Valid prediction for Augustus_model.g12292.t1
Valid prediction for CodingQuarry_transcript_57666-T1
Valid prediction for snap_scaffold_7-snap.2320-T1
Valid prediction for snap_scaffold_7-snap.2329-T1
Couldn't classify 156577, 156663
Couldn't classify 158150, 158360
Sorry, prediction pasa_asmbl_50642.p1 fails validation.
(GTG)	 AG	156577-156663	GT	GGG
(CTG)	 AG	156807-156926	GT	AGG
(GGA)	 AG	157020-157115	GT	GGG
(GAC)	 AG	157310-157409	GT	CGG
(GTA)	 AG	157523-157706	GT	CTG
(GTT)	 AG	157835-157990	GT	AAG
(GAC)	 AG	158150-158360	TC	GAT
-recovered pasa_asmbl_50642.p1, internal, 156577, 156663
-recovered pasa_asmbl_50642.p1, internal, 156807, 156926
-recovered pasa_asmbl_50642.p1, internal, 157020, 157115
-recovered pasa_asmbl_50642.p1, internal, 157310, 157409
-recovered pasa_asmbl_50642.p1, internal, 157523, 157706
-recovered pasa_asmbl_50642.p1, internal, 157835, 157990
Valid prediction for HiQ_model.g12282.t1
Valid prediction for CodingQuarry_transcript_57665-T1
Valid prediction for pasa_asmbl_50244.p1
Valid prediction for snap_scaffold_7-snap.2338-T1
Valid prediction for GlimmerHMM_glimmerT_18249-T1
Valid prediction for GlimmerHMM_glimmerT_18245-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_18236-T1
Valid prediction for Augustus_model.g12288.t1
Valid prediction for GlimmerHMM_glimmerT_18247-T1
Valid prediction for snap_scaffold_7-snap.2341-T1
Valid prediction for pasa_asmbl_51206.p1
Valid prediction for Augustus_model.g12295.t1
Valid prediction for pasa_asmbl_51217.p1
Valid prediction for snap_scaffold_7-snap.2334-T1
Valid prediction for snap_scaffold_7-snap.2344-T1
Valid prediction for GlimmerHMM_glimmerT_18242-T1
Valid prediction for GlimmerHMM_glimmerT_18231-T1
Valid prediction for pasa_asmbl_51245.p1
Valid prediction for CodingQuarry_transcript_57667-T1
Valid prediction for GlimmerHMM_glimmerT_18257-T1
Valid prediction for snap_scaffold_7-snap.2307-T1
Valid prediction for CodingQuarry_transcript_57673-T1
Valid prediction for Augustus_model.g12302.t1
Couldn't classify 2254, 2270
Couldn't classify 6020, 6036
Sorry, prediction pasa_asmbl_51251.p1 fails validation.
(CAA)	 TC	2254-2270	GT	AGG
(GTA)	 AG	2452-2602	GT	CAG
(GAC)	 AG	2705-2848	GT	AGG
(CCT)	 AG	5086-5194	GT	CGG
(GCC)	 AG	5345-5533	GT	GGG
(GGC)	 AG	6020-6036	GT	AGG
-recovered pasa_asmbl_51251.p1, internal, 2452, 2602
-recovered pasa_asmbl_51251.p1, internal, 2705, 2848
-recovered pasa_asmbl_51251.p1, internal, 5086, 5194
-recovered pasa_asmbl_51251.p1, internal, 5345, 5533
-recovered pasa_asmbl_51251.p1, internal, 6020, 6036
Valid prediction for snap_scaffold_7-snap.2318-T1
Valid prediction for snap_scaffold_7-snap.2311-T1
Valid prediction for snap_scaffold_7-snap.2337-T1
Valid prediction for GlimmerHMM_glimmerT_18260-T1
Valid prediction for GlimmerHMM_glimmerT_18238-T1
Couldn't classify 257072, 257125
Sorry, prediction pasa_asmbl_51197.p1 fails validation.
(ATG)	 GG	256594-256771	GT	AGG
(GGG)	 AG	256915-256982	GT	AGG
(GTC)	 AG	257072-257125	TA	CAT
-recovered pasa_asmbl_51197.p1, initial, 256594, 256771
-recovered pasa_asmbl_51197.p1, internal, 256915, 256982
Valid prediction for snap_scaffold_7-snap.2308-T1
Valid prediction for GlimmerHMM_glimmerT_18253-T1
Valid prediction for Augustus_model.g12272.t1
Valid prediction for snap_scaffold_7-snap.2306-T1
Valid prediction for snap_scaffold_7-snap.2314-T1
Valid prediction for Augustus_model.g12283.t1
Valid prediction for Augustus_model.g12276.t1
Valid prediction for snap_scaffold_7-snap.2349-T1
Valid prediction for snap_scaffold_7-snap.2323-T1
Valid prediction for snap_scaffold_7-snap.2305-T1
Valid prediction for snap_scaffold_7-snap.2310-T1
Valid prediction for snap_scaffold_7-snap.2325-T1
Valid prediction for pasa_asmbl_51244.p1
Couldn't classify 32633, 33049
Sorry, prediction pasa_asmbl_51249.p1 fails validation.
(ATG)	 GC	32633-33049	AT	ACA
Valid prediction for pasa_asmbl_51214.p1
Valid prediction for CodingQuarry_transcript_57662-T1
Valid prediction for snap_scaffold_7-snap.2346-T1
Valid prediction for pasa_asmbl_51247.p1
Valid prediction for GlimmerHMM_glimmerT_18230-T1
Valid prediction for Augustus_model.g12287.t1
Valid prediction for snap_scaffold_7-snap.2309-T1
Valid prediction for pasa_asmbl_51198.p1
Valid prediction for snap_scaffold_7-snap.2299-T1
Couldn't classify 156053, 156142
Sorry, prediction pasa_asmbl_51233.p1 fails validation.
(CAG)	 CA	156053-156142	GT	AGG
(CTC)	 AG	156552-156602	GT	TGG
(GCT)	 AG	157195-157257	GT	GGG
(GGG)	 AG	157519-157566	GT	GGG
(TCC)	 AG	157702-157773	GT	CAG
(TCG)	 AG	158087-158197	GT	CTG
(AGC)	 AG	158344-158415	GT	TGG
(ACT)	 AG	158540-158626	GT	GGG
(GCC)	 AG	159346-159402	GT	TGG
(GCC)	 AG	159791-159841	GT	CTG
(CCC)	 AG	159989-160045	GT	CGG
(TCC)	 AG	160497-160568	GT	TGG
(TCG)	 AG	160775-160888	GT	CTG
(CTG)	 AG	161300-161341	GT	GGG
(CCG)	 AG	161600-161731	GT	GGG
(GAT)	 AG	162221-162292	GT	AGG
(GAA)	 AG	163356-163526	GT	AGG
(GAA)	 AG	163646-163738	GT	AGG
(GAG)	 AG	164171-164263	GT	GGG
(GCA)	 AG	165051-165152	GT	AGG
(AAA)	 AG	165456-165588	GT	GGG
(ACG)	 AG	165699-165748	GT	AGG
(ATC)	 AG	165877-165997	GT	GAG
(GAG)	 AG	166139-166218	GT	ACG
(ATT)	 AG	166438-166542	GT	AGG
(CTG)	 AG	166724-166834	GG	GAG
-recovered pasa_asmbl_51233.p1, terminal, 166724, 166834
-recovered pasa_asmbl_51233.p1, internal, 156552, 156602
-recovered pasa_asmbl_51233.p1, internal, 157195, 157257
-recovered pasa_asmbl_51233.p1, internal, 157519, 157566
-recovered pasa_asmbl_51233.p1, internal, 157702, 157773
-recovered pasa_asmbl_51233.p1, internal, 158087, 158197
-recovered pasa_asmbl_51233.p1, internal, 158344, 158415
-recovered pasa_asmbl_51233.p1, internal, 158540, 158626
-recovered pasa_asmbl_51233.p1, internal, 159346, 159402
-recovered pasa_asmbl_51233.p1, internal, 159791, 159841
-recovered pasa_asmbl_51233.p1, internal, 159989, 160045
-recovered pasa_asmbl_51233.p1, internal, 160497, 160568
-recovered pasa_asmbl_51233.p1, internal, 160775, 160888
-recovered pasa_asmbl_51233.p1, internal, 161300, 161341
-recovered pasa_asmbl_51233.p1, internal, 161600, 161731
-recovered pasa_asmbl_51233.p1, internal, 162221, 162292
-recovered pasa_asmbl_51233.p1, internal, 163356, 163526
-recovered pasa_asmbl_51233.p1, internal, 163646, 163738
-recovered pasa_asmbl_51233.p1, internal, 164171, 164263
-recovered pasa_asmbl_51233.p1, internal, 165051, 165152
-recovered pasa_asmbl_51233.p1, internal, 165456, 165588
-recovered pasa_asmbl_51233.p1, internal, 165699, 165748
-recovered pasa_asmbl_51233.p1, internal, 165877, 165997
-recovered pasa_asmbl_51233.p1, internal, 166139, 166218
-recovered pasa_asmbl_51233.p1, internal, 166438, 166542
Valid prediction for snap_scaffold_7-snap.2347-T1
Valid prediction for HiQ_model.g12273.t1
Valid prediction for GlimmerHMM_glimmerT_18259-T1
Couldn't classify 346, 420
Couldn't classify 1924, 2070
Sorry, prediction pasa_asmbl_51253.p1 fails validation.
(CTA)	 AG	346-420	GT	AGG
(GAT)	 AG	908-1014	GT	GGG
(ATC)	 AG	1216-1346	GT	AGG
(ACT)	 AG	1436-1519	GT	TGG
(GTC)	 AG	1623-1747	GT	CCG
(CAA)	 AG	1924-2070	CA	CAC
-recovered pasa_asmbl_51253.p1, internal, 346, 420
-recovered pasa_asmbl_51253.p1, internal, 908, 1014
-recovered pasa_asmbl_51253.p1, internal, 1216, 1346
-recovered pasa_asmbl_51253.p1, internal, 1436, 1519
-recovered pasa_asmbl_51253.p1, internal, 1623, 1747
Valid prediction for snap_scaffold_7-snap.2331-T1
Valid prediction for pasa_asmbl_51204.p1
Valid prediction for pasa_asmbl_51222.p1
Valid prediction for GlimmerHMM_glimmerT_18241-T1
Valid prediction for pasa_asmbl_51226.p1
Valid prediction for CodingQuarry_transcript_57663-T1
Valid prediction for GlimmerHMM_glimmerT_18243-T1
Valid prediction for CodingQuarry_transcript_57668-T1
Valid prediction for CodingQuarry_transcript_57664-T1
Valid prediction for GlimmerHMM_glimmerT_18233-T1
Valid prediction for snap_scaffold_7-snap.2327-T1
Valid prediction for snap_scaffold_7-snap.2315-T1
Couldn't classify 180532, 181191
Sorry, prediction pasa_asmbl_51224.p1 fails validation.
(TTT)	 GT	180532-181191	TC	CAT
Valid prediction for pasa_asmbl_51212.p1
Valid prediction for GlimmerHMM_glimmerT_18237-T1
Valid prediction for GlimmerHMM_glimmerT_18239-T1
Valid prediction for snap_scaffold_7-snap.2313-T1
Valid prediction for HiQ_model.g12303.t1
Valid prediction for Augustus_model.g12284.t1
Valid prediction for HiQ_model.g12277.t1
Valid prediction for snap_scaffold_7-snap.2340-T1
Valid prediction for pasa_asmbl_51215.p1
Valid prediction for HiQ_model.g12297.t1
Valid prediction for snap_scaffold_7-snap.2332-T1
Valid prediction for snap_scaffold_7-snap.2335-T1
Valid prediction for HiQ_model.g12301.t1
Couldn't classify 258163, 258220
Sorry, prediction pasa_asmbl_51196.p1 fails validation.
(TCA)	 AC	258163-258220	GT	CGG
(ATC)	 AG	258324-258522	GT	AGG
(CCT)	 AG	258668-258739	GT	TAG
(CTA)	 AG	258833-258906	GT	AGG
(GCC)	 AG	259077-259205	GT	AGG
(ACA)	 AG	259317-259404	GT	AGG
(GCG)	 AG	259539-260658	CG	AGC
add_exon() Sorry, pasa_asmbl_51196.p1 258833-258906-terminal-2 is invalid.
-recovered pasa_asmbl_51196.p1, terminal, 258833, 258906
-recovered pasa_asmbl_51196.p1, terminal, 259539, 260658
-recovered pasa_asmbl_51196.p1, internal, 258324, 258522
-recovered pasa_asmbl_51196.p1, internal, 258668, 258739
-recovered pasa_asmbl_51196.p1, internal, 258833, 258906
-recovered pasa_asmbl_51196.p1, internal, 259077, 259205
-recovered pasa_asmbl_51196.p1, internal, 259317, 259404
Valid prediction for Augustus_model.g12305.t1
Valid prediction for GlimmerHMM_glimmerT_18261-T1
Valid prediction for snap_scaffold_7-snap.2300-T1
Valid prediction for HiQ_model.g12278.t1
Valid prediction for HiQ_model.g12281.t1
Valid prediction for GlimmerHMM_glimmerT_18234-T1
Valid prediction for Augustus_model.g12275.t1
Valid prediction for Augustus_model.g12293.t1
Valid prediction for GlimmerHMM_glimmerT_18262-T1
Valid prediction for snap_scaffold_7-snap.2312-T1
Valid prediction for GlimmerHMM_glimmerT_18265-T1
Valid prediction for snap_scaffold_7-snap.2304-T1
Valid prediction for Augustus_model.g12299.t1
Valid prediction for GlimmerHMM_glimmerT_18235-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 141702, rend_intergenic: 139661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146242, rend_intergenic: 142855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149131, rend_intergenic: 146524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154899, rend_intergenic: 151376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165984, rend_intergenic: 164336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195563, rend_intergenic: 189583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210847, rend_intergenic: 204555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 230052, rend_intergenic: 218688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231788, rend_intergenic: 231410  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 255584, rend_intergenic: 251198  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 263100, rend_intergenic: 260961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 265783, rend_intergenic: 264835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 270951
-exon list size: 740


building trellis

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-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 141702, rend_intergenic: 139661  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146242, rend_intergenic: 142855  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149131, rend_intergenic: 146524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154899, rend_intergenic: 151376  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165984, rend_intergenic: 164336  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195563, rend_intergenic: 189583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210847, rend_intergenic: 204555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 230052, rend_intergenic: 218688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231788, rend_intergenic: 231410  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 255584, rend_intergenic: 251198  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 263100, rend_intergenic: 260961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 265783, rend_intergenic: 264835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 36 predictions persist after filtering for low support