-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_10493050-11021673

-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 Augustus_model.g13631.t1
Valid prediction for snap_scaffold_8-snap.2037-T1
Valid prediction for GlimmerHMM_glimmerT_20463-T1
Valid prediction for GlimmerHMM_glimmerT_20455-T1
Valid prediction for Augustus_model.g13620.t1
Valid prediction for GlimmerHMM_glimmerT_20436-T1
Valid prediction for GlimmerHMM_glimmerT_20437-T1
Valid prediction for snap_scaffold_8-snap.2061-T1
Valid prediction for snap_scaffold_8-snap.2074-T1
Valid prediction for GlimmerHMM_glimmerT_20447-T1
Valid prediction for snap_scaffold_8-snap.2066-T1
Valid prediction for HiQ_model.g13627.t1
Couldn't classify 65908, 65971
Sorry, prediction pasa_asmbl_53175.p1 fails validation.
(ATG)	 TT	61658-61744	GT	TGG
(GAG)	 AG	62126-62236	GT	AGG
(TTG)	 AG	62664-62749	GT	ACG
(CCA)	 AG	62878-63076	GT	AGG
(GAC)	 AG	63308-63406	GT	AGG
(GTG)	 AG	65595-65671	GT	AGG
(CGA)	 AG	65908-65971	GC	AGG
-recovered pasa_asmbl_53175.p1, initial, 61658, 61744
-recovered pasa_asmbl_53175.p1, internal, 62126, 62236
-recovered pasa_asmbl_53175.p1, internal, 62664, 62749
-recovered pasa_asmbl_53175.p1, internal, 62878, 63076
-recovered pasa_asmbl_53175.p1, internal, 63308, 63406
-recovered pasa_asmbl_53175.p1, internal, 65595, 65671
-recovered pasa_asmbl_53175.p1, internal, 65908, 65971
Valid prediction for GlimmerHMM_glimmerT_20445-T1
Valid prediction for pasa_asmbl_53183.p1
Couldn't classify 67138, 67206
Sorry, prediction pasa_asmbl_53176.p1 fails validation.
(AAC)	 TC	67138-67206	GT	CTG
(TTG)	 AG	67670-67765	GT	ATG
(ATA)	 AG	68523-68636	GT	AGG
(CTT)	 AG	68800-68880	TG	AAT
-recovered pasa_asmbl_53176.p1, terminal, 68800, 68880
-recovered pasa_asmbl_53176.p1, internal, 67670, 67765
-recovered pasa_asmbl_53176.p1, internal, 68523, 68636
Valid prediction for snap_scaffold_8-snap.2069-T1
Valid prediction for GlimmerHMM_glimmerT_20467-T1
Valid prediction for snap_scaffold_8-snap.2054-T1
Valid prediction for snap_scaffold_8-snap.2073-T1
Valid prediction for snap_scaffold_8-snap.2035-T1
Valid prediction for pasa_asmbl_53177.p1
Valid prediction for snap_scaffold_8-snap.2081-T1
Valid prediction for GlimmerHMM_glimmerT_20431-T1
Valid prediction for GlimmerHMM_glimmerT_20451-T1
Valid prediction for GlimmerHMM_glimmerT_20434-T1
Valid prediction for pasa_asmbl_53185.p1
Valid prediction for CodingQuarry_transcript_59798-T1
Couldn't classify 276661, 276700
Sorry, prediction pasa_asmbl_53179.p1 fails validation.
(AAA)	 TG	276661-276700	GT	GAG
(GCT)	 AG	277543-277626	GT	CGG
(ACT)	 AG	277881-278065	CT	AAC
-recovered pasa_asmbl_53179.p1, terminal, 277881, 278065
-recovered pasa_asmbl_53179.p1, internal, 277543, 277626
Valid prediction for GlimmerHMM_glimmerT_20453-T1
Valid prediction for snap_scaffold_8-snap.2049-T1
Couldn't classify 265474, 265794
Sorry, prediction pasa_asmbl_53178.p1 fails validation.
(CTA)	 AC	265474-265794	TT	AGT
Valid prediction for HiQ_model.g13621.t1
Valid prediction for snap_scaffold_8-snap.2036-T1
Valid prediction for GlimmerHMM_glimmerT_20435-T1
Valid prediction for GlimmerHMM_glimmerT_20450-T1
Valid prediction for GlimmerHMM_glimmerT_20458-T1
Valid prediction for CodingQuarry_transcript_59799-T1
Valid prediction for GlimmerHMM_glimmerT_20457-T1
Valid prediction for Augustus_model.g13616.t1
Valid prediction for Augustus_model.g13619.t1
Valid prediction for Augustus_model.g13604.t1
Valid prediction for snap_scaffold_8-snap.2065-T1
Valid prediction for Augustus_model.g13603.t1
Valid prediction for Augustus_model.g13613.t1
Valid prediction for GlimmerHMM_glimmerT_20456-T1
Valid prediction for snap_scaffold_8-snap.2067-T1
Valid prediction for snap_scaffold_8-snap.2063-T1
Valid prediction for GlimmerHMM_glimmerT_20444-T1
Valid prediction for GlimmerHMM_glimmerT_20449-T1
Valid prediction for snap_scaffold_8-snap.2056-T1
Valid prediction for Augustus_model.g13623.t1
Valid prediction for snap_scaffold_8-snap.2046-T1
Valid prediction for snap_scaffold_8-snap.2064-T1
Valid prediction for snap_scaffold_8-snap.2058-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_20438-T1
Valid prediction for GlimmerHMM_glimmerT_20459-T1
Valid prediction for Augustus_model.g13612.t1
Valid prediction for snap_scaffold_8-snap.2070-T1
Valid prediction for snap_scaffold_8-snap.2057-T1
Valid prediction for snap_scaffold_8-snap.2076-T1
Valid prediction for Augustus_model.g13630.t1
Valid prediction for snap_scaffold_8-snap.2077-T1
Valid prediction for Augustus_model.g13629.t1
Valid prediction for Augustus_model.g13622.t1
Valid prediction for snap_scaffold_8-snap.2039-T1
Valid prediction for snap_scaffold_8-snap.2047-T1
Valid prediction for Augustus_model.g13624.t1
Valid prediction for GlimmerHMM_glimmerT_20439-T1
Valid prediction for HiQ_model.g13609.t1
Valid prediction for GlimmerHMM_glimmerT_20460-T1
Couldn't classify 153898, 154038
Sorry, prediction pasa_asmbl_52126.p1 fails validation.
(ATG)	 GC	152912-152953	GT	GGG
(AAC)	 AG	153207-153316	GT	AGG
(GCA)	 AG	153522-153669	GT	CAG
(ATG)	 AG	153898-154038	TA	GGT
-recovered pasa_asmbl_52126.p1, initial, 152912, 152953
-recovered pasa_asmbl_52126.p1, internal, 153207, 153316
-recovered pasa_asmbl_52126.p1, internal, 153522, 153669
Valid prediction for GlimmerHMM_glimmerT_20465-T1
Valid prediction for snap_scaffold_8-snap.2041-T1
Valid prediction for GlimmerHMM_glimmerT_20448-T1
Valid prediction for GlimmerHMM_glimmerT_20461-T1
Valid prediction for snap_scaffold_8-snap.2060-T1
Valid prediction for snap_scaffold_8-snap.2042-T1
Valid prediction for snap_scaffold_8-snap.2079-T1
Valid prediction for snap_scaffold_8-snap.2050-T1
Valid prediction for GlimmerHMM_glimmerT_20432-T1
Valid prediction for snap_scaffold_8-snap.2045-T1
Valid prediction for snap_scaffold_8-snap.2068-T1
Couldn't classify 432274, 432360
Sorry, prediction pasa_asmbl_52111.p1 fails validation.
(CTG)	 AG	432274-432360	GT	TGG
(ATC)	 AG	432677-432911	GT	AGG
(AGC)	 AG	433269-433354	GT	AGG
(GCT)	 AG	433442-433526	GT	AGG
(AGG)	 AG	433647-433795	GT	TCG
(CCC)	 AG	433889-433996	GT	CGG
(GTG)	 AG	436158-436264	GT	AAG
(GTG)	 AG	438554-438608	TG	GAT
-recovered pasa_asmbl_52111.p1, terminal, 438554, 438608
-recovered pasa_asmbl_52111.p1, internal, 432274, 432360
-recovered pasa_asmbl_52111.p1, internal, 432677, 432911
-recovered pasa_asmbl_52111.p1, internal, 433269, 433354
-recovered pasa_asmbl_52111.p1, internal, 433442, 433526
-recovered pasa_asmbl_52111.p1, internal, 433647, 433795
-recovered pasa_asmbl_52111.p1, internal, 433889, 433996
-recovered pasa_asmbl_52111.p1, internal, 436158, 436264
Valid prediction for snap_scaffold_8-snap.2048-T1
Valid prediction for Augustus_model.g13605.t1
Valid prediction for snap_scaffold_8-snap.2043-T1
Valid prediction for Augustus_model.g13608.t1
Valid prediction for snap_scaffold_8-snap.2053-T1
Valid prediction for GlimmerHMM_glimmerT_20462-T1
Valid prediction for Augustus_model.g13626.t1
Valid prediction for snap_scaffold_8-snap.2059-T1
Valid prediction for snap_scaffold_8-snap.2040-T1
Valid prediction for snap_scaffold_8-snap.2078-T1
Valid prediction for Augustus_model.g13607.t1
Valid prediction for Augustus_model.g13602.t1
Valid prediction for GlimmerHMM_glimmerT_20441-T1
Valid prediction for snap_scaffold_8-snap.2044-T1
Couldn't classify 265467, 265487
Sorry, prediction pasa_asmbl_52117.p1 fails validation.
(GCT)	 TG	265467-265487	GT	TGG
(CTC)	 AG	266341-266383	GT	AGG
(CTC)	 AG	268392-268471	GT	AGG
(GCG)	 AG	269029-269092	GT	AGG
(CAC)	 AG	269285-269396	GT	CTG
(GTT)	 AG	269629-269701	GT	GGG
(GAG)	 AG	269779-269832	GT	GCG
(GCA)	 AG	269995-270122	GT	GAG
(ATA)	 AG	270663-270717	GT	AAG
(CTT)	 AG	270884-270952	GT	CGG
(GCC)	 AG	271053-271205	GT	CAG
(GCC)	 AG	271427-271598	GT	TGG
(TGG)	 AG	271841-271910	GT	GAG
(GTC)	 AG	272063-272201	GT	AGG
(CTC)	 AG	272441-272651	GT	AGG
(GAA)	 AG	272876-273039	CC	AGC
-recovered pasa_asmbl_52117.p1, terminal, 272876, 273039
-recovered pasa_asmbl_52117.p1, internal, 266341, 266383
-recovered pasa_asmbl_52117.p1, internal, 268392, 268471
-recovered pasa_asmbl_52117.p1, internal, 269029, 269092
-recovered pasa_asmbl_52117.p1, internal, 269285, 269396
-recovered pasa_asmbl_52117.p1, internal, 269629, 269701
-recovered pasa_asmbl_52117.p1, internal, 269779, 269832
-recovered pasa_asmbl_52117.p1, internal, 269995, 270122
-recovered pasa_asmbl_52117.p1, internal, 270663, 270717
-recovered pasa_asmbl_52117.p1, internal, 270884, 270952
-recovered pasa_asmbl_52117.p1, internal, 271053, 271205
-recovered pasa_asmbl_52117.p1, internal, 271427, 271598
-recovered pasa_asmbl_52117.p1, internal, 271841, 271910
-recovered pasa_asmbl_52117.p1, internal, 272063, 272201
-recovered pasa_asmbl_52117.p1, internal, 272441, 272651
Valid prediction for Augustus_model.g13610.t1
Valid prediction for snap_scaffold_8-snap.2075-T1
Valid prediction for snap_scaffold_8-snap.2052-T1
Valid prediction for Augustus_model.g13611.t1
Valid prediction for GlimmerHMM_glimmerT_20433-T1
Valid prediction for snap_scaffold_8-snap.2038-T1
Valid prediction for GlimmerHMM_glimmerT_20442-T1
Valid prediction for snap_scaffold_8-snap.2080-T1
Valid prediction for snap_scaffold_8-snap.2071-T1
Valid prediction for GlimmerHMM_glimmerT_20464-T1
Valid prediction for snap_scaffold_8-snap.2062-T1
Valid prediction for Augustus_model.g13628.t1
Couldn't classify 443189, 443287
Sorry, prediction pasa_asmbl_52108.p1 fails validation.
(CCA)	 AG	443189-443287	GT	TTG
(GGT)	 AG	443913-444064	GT	GGG
(GTA)	 AG	444359-444464	GT	AGG
(GTC)	 AG	444875-444940	GT	TGG
(GAC)	 AG	445212-445289	AC	AGA
-recovered pasa_asmbl_52108.p1, terminal, 445212, 445289
-recovered pasa_asmbl_52108.p1, internal, 443189, 443287
-recovered pasa_asmbl_52108.p1, internal, 443913, 444064
-recovered pasa_asmbl_52108.p1, internal, 444359, 444464
-recovered pasa_asmbl_52108.p1, internal, 444875, 444940
Valid prediction for GlimmerHMM_glimmerT_20452-T1
Valid prediction for GlimmerHMM_glimmerT_20454-T1
Valid prediction for pasa_asmbl_52114.p1
Valid prediction for Augustus_model.g13615.t1
Valid prediction for GlimmerHMM_glimmerT_20466-T1
Valid prediction for Augustus_model.g13625.t1
Valid prediction for pasa_asmbl_52121.p1
Valid prediction for snap_scaffold_8-snap.2055-T1
Valid prediction for GlimmerHMM_glimmerT_20446-T1
Couldn't classify 180082, 180129
Couldn't classify 182750, 182815
Sorry, prediction pasa_asmbl_52119.p1 fails validation.
(GTT)	 TA	180082-180129	GT	AGG
(CTG)	 AG	180444-180519	GT	TGG
(AAA)	 AG	181111-181218	GT	GGG
(TAA)	 AG	181410-181474	GT	GTG
(TTC)	 AG	181597-181641	GT	AGG
(ATG)	 AG	181902-181936	GT	AGG
(AAA)	 AG	182274-182355	GT	AGG
(GCA)	 AG	182750-182815	GT	AGG
-recovered pasa_asmbl_52119.p1, initial, 181902, 181936
-recovered pasa_asmbl_52119.p1, internal, 180444, 180519
-recovered pasa_asmbl_52119.p1, internal, 181111, 181218
-recovered pasa_asmbl_52119.p1, internal, 181410, 181474
-recovered pasa_asmbl_52119.p1, internal, 181597, 181641
-recovered pasa_asmbl_52119.p1, internal, 181902, 181936
-recovered pasa_asmbl_52119.p1, internal, 182274, 182355
-recovered pasa_asmbl_52119.p1, internal, 182750, 182815
Valid prediction for snap_scaffold_8-snap.2051-T1
Valid prediction for HiQ_model.g13606.t1
Valid prediction for GlimmerHMM_glimmerT_20440-T1
Valid prediction for Augustus_model.g13617.t1
Valid prediction for GlimmerHMM_glimmerT_20443-T1
Valid prediction for HiQ_model.g13618.t1
Valid prediction for Augustus_model.g13614.t1
Valid prediction for snap_scaffold_8-snap.2034-T1
Valid prediction for snap_scaffold_8-snap.2072-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 142151, rend_intergenic: 138378  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149895, rend_intergenic: 147347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181185, rend_intergenic: 178122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196273, rend_intergenic: 191431  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 209601, rend_intergenic: 205356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 528624
-exon list size: 533


building trellis

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83.7    
83.9    
84.1    
84.3    
84.5    
84.7    
84.9    
85.0    
85.2    
85.4    
85.6    
85.8    
86.0    
86.2    
86.4    
86.5    
86.7    
86.9    
87.1    
87.3    
87.5    
87.7    
87.9    
88.0    
88.2    
88.4    
88.6    
88.8    
89.0    
89.2    
89.3    
89.5    
89.7    
89.9    
90.1    
90.3    
90.5    
90.7    
90.8    
91.0    
91.2    
91.4    
91.6    
91.8    
92.0    
92.1    
92.3    
92.5    
92.7    
92.9    
93.1    
93.3    
93.5    
93.6    
93.8    
94.0    
94.2    
94.4    
94.6    
94.8    
95.0    
95.1    
95.3    
95.5    
95.7    
95.9    
96.1    
96.3    
96.4    
96.6    
96.8    
97.0    
97.2    
97.4    
97.6    
97.8    
97.9    
98.1    
98.3    
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: 142151, rend_intergenic: 138378  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149895, rend_intergenic: 147347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181185, rend_intergenic: 178122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196273, rend_intergenic: 191431  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 209601, rend_intergenic: 205356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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