-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_13151163-13342588

-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 GlimmerHMM_glimmerT_21147-T1
Valid prediction for GlimmerHMM_glimmerT_21128-T1
Valid prediction for snap_scaffold_8-snap.2417-T1
Valid prediction for snap_scaffold_8-snap.2392-T1
Valid prediction for Augustus_model.g14188.t1
Valid prediction for GeneMark_model.36034_t
Valid prediction for GeneMark_model.36048_t
Valid prediction for GlimmerHMM_glimmerT_21125-T1
Valid prediction for GeneMark_model.36009_t
Valid prediction for GeneMark_model.36051_t
Valid prediction for snap_scaffold_8-snap.2414-T1
Valid prediction for GeneMark_model.36047_t
Valid prediction for GeneMark_model.36026_t
Valid prediction for GeneMark_model.36032_t
Valid prediction for GlimmerHMM_glimmerT_21138-T1
Valid prediction for snap_scaffold_8-snap.2419-T1
Valid prediction for snap_scaffold_8-snap.2408-T1
Valid prediction for GeneMark_model.36023_t
Valid prediction for snap_scaffold_8-snap.2410-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GeneMark_model.36007_t
Valid prediction for GlimmerHMM_glimmerT_21142-T1
Valid prediction for GeneMark_model.36049_t
Valid prediction for GlimmerHMM_glimmerT_21145-T1
Valid prediction for GeneMark_model.36006_t
Couldn't classify 125929, 126339
Couldn't classify 126730, 126888
Sorry, prediction pasa_asmbl_52344.p1 fails validation.
(CTC)	 CT	125929-126339	GT	AGG
(GTG)	 AG	126730-126888	CA	ACC
Valid prediction for snap_scaffold_8-snap.2401-T1
Valid prediction for GeneMark_model.36022_t
Valid prediction for GlimmerHMM_glimmerT_21132-T1
Valid prediction for Augustus_model.g14186.t1
Valid prediction for HiQ_model.g14193.t1
Valid prediction for snap_scaffold_8-snap.2400-T1
Couldn't classify 138375, 138524
Couldn't classify 140724, 140844
Sorry, prediction pasa_asmbl_52645.p1 fails validation.
(GTG)	 AT	138375-138524	GT	AGG
(CTG)	 AG	138662-138765	GT	AGG
(TCT)	 AG	140724-140844	TG	TTT
-recovered pasa_asmbl_52645.p1, internal, 138662, 138765
Valid prediction for GlimmerHMM_glimmerT_21143-T1
Valid prediction for snap_scaffold_8-snap.2396-T1
Valid prediction for Augustus_model.g14194.t1
Valid prediction for GeneMark_model.36013_t
Valid prediction for pasa_asmbl_52581.p1
Valid prediction for GlimmerHMM_glimmerT_21140-T1
Valid prediction for GeneMark_model.36018_t
Valid prediction for GeneMark_model.36011_t
Valid prediction for Augustus_model.g14197.t1
Valid prediction for snap_scaffold_8-snap.2418-T1
Valid prediction for GlimmerHMM_glimmerT_21129-T1
Valid prediction for snap_scaffold_8-snap.2406-T1
Valid prediction for GeneMark_model.36019_t
Valid prediction for CodingQuarry_transcript_59738-T1
Valid prediction for snap_scaffold_8-snap.2413-T1
Couldn't classify 105023, 105062
Sorry, prediction pasa_asmbl_52343.p1 fails validation.
(TTC)	 AT	105023-105062	GT	AAG
(TTA)	 AG	105564-105910	GT	AGG
(GTG)	 AG	106109-106261	GT	GAG
-recovered pasa_asmbl_52343.p1, terminal, 106109, 106261
-recovered pasa_asmbl_52343.p1, internal, 105564, 105910
-recovered pasa_asmbl_52343.p1, internal, 106109, 106261
Valid prediction for GlimmerHMM_glimmerT_21149-T1
Valid prediction for Augustus_model.g14198.t1
Valid prediction for GlimmerHMM_glimmerT_21148-T1
Valid prediction for GlimmerHMM_glimmerT_21136-T1
Valid prediction for snap_scaffold_8-snap.2398-T1
Valid prediction for GeneMark_model.36014_t
Valid prediction for CodingQuarry_transcript_59736-T1
Valid prediction for GeneMark_model.36016_t
Couldn't classify 128880, 129022
Couldn't classify 130642, 130848
Sorry, prediction pasa_asmbl_52345.p1 fails validation.
(AGC)	 AC	128880-129022	GT	GAG
(AGA)	 AG	129244-129352	GC	AGG
(GTG)	 AG	130079-130195	GT	AGG
(ATG)	 AG	130642-130848	AA	ACA
-recovered pasa_asmbl_52345.p1, internal, 129244, 129352
-recovered pasa_asmbl_52345.p1, internal, 130079, 130195
Valid prediction for Augustus_model.g14195.t1
Valid prediction for GeneMark_model.36036_t
Valid prediction for HiQ_model.g14185.t1
Valid prediction for snap_scaffold_8-snap.2395-T1
Valid prediction for GeneMark_model.36029_t
Valid prediction for GeneMark_model.36044_t
Valid prediction for GeneMark_model.36040_t
Valid prediction for GlimmerHMM_glimmerT_21133-T1
Valid prediction for Augustus_model.g14196.t1
Valid prediction for GlimmerHMM_glimmerT_21141-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 GeneMark_model.36046_t
Valid prediction for GeneMark_model.36035_t
Valid prediction for snap_scaffold_8-snap.2404-T1
Valid prediction for GeneMark_model.36028_t
Valid prediction for snap_scaffold_8-snap.2397-T1
Valid prediction for snap_scaffold_8-snap.2420-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.2421-T1
Valid prediction for GlimmerHMM_glimmerT_21150-T1
Couldn't classify 105733, 105831
Couldn't classify 107578, 107805
Sorry, prediction pasa_asmbl_53288.p1 fails validation.
(ATC)	 AG	105733-105831	GT	GGG
(CAA)	 AG	106357-106417	GT	GGG
(TGA)	 AG	106870-107021	GT	AGG
(GAA)	 AG	107267-107341	GT	GGG
(ATG)	 AG	107578-107805	GG	TCG
-recovered pasa_asmbl_53288.p1, internal, 105733, 105831
-recovered pasa_asmbl_53288.p1, internal, 106357, 106417
-recovered pasa_asmbl_53288.p1, internal, 106870, 107021
-recovered pasa_asmbl_53288.p1, internal, 107267, 107341
Valid prediction for CodingQuarry_transcript_59734-T1
Couldn't classify 108801, 108909
Couldn't classify 110209, 110403
Sorry, prediction pasa_asmbl_53287.p1 fails validation.
(AGC)	 GC	108801-108909	GT	GGG
(TCA)	 AG	109102-109307	GT	ATG
(GCC)	 AG	109464-109666	GT	AGG
(GTA)	 AG	109909-110014	GT	AGG
(CAC)	 AG	110209-110403	AA	ACA
-recovered pasa_asmbl_53287.p1, internal, 109102, 109307
-recovered pasa_asmbl_53287.p1, internal, 109464, 109666
-recovered pasa_asmbl_53287.p1, internal, 109909, 110014
Valid prediction for GeneMark_model.36041_t
Valid prediction for GeneMark_model.36004_t
Valid prediction for GeneMark_model.36030_t
Valid prediction for GeneMark_model.36005_t
Valid prediction for pasa_asmbl_53290.p1
Valid prediction for Augustus_model.g14199.t1
Valid prediction for GeneMark_model.36039_t
Couldn't classify 105361, 105445
Sorry, prediction pasa_asmbl_53289.p1 fails validation.
(ATG)	 AC	99316-99354	GT	AGG
(ACA)	 AG	102033-102140	GT	AGG
(GAG)	 AG	103665-103733	GT	TGG
(GAC)	 AG	104105-104203	GT	AGG
(GCC)	 AG	104297-104482	GT	TAG
(GTG)	 AG	104628-104747	GT	ATG
(TGT)	 AG	104864-104979	GT	AGG
(GAA)	 AG	105361-105445	GT	GCG
-recovered pasa_asmbl_53289.p1, initial, 99316, 99354
-recovered pasa_asmbl_53289.p1, internal, 102033, 102140
-recovered pasa_asmbl_53289.p1, internal, 103665, 103733
-recovered pasa_asmbl_53289.p1, internal, 104105, 104203
-recovered pasa_asmbl_53289.p1, internal, 104297, 104482
-recovered pasa_asmbl_53289.p1, internal, 104628, 104747
-recovered pasa_asmbl_53289.p1, internal, 104864, 104979
-recovered pasa_asmbl_53289.p1, internal, 105361, 105445
Valid prediction for snap_scaffold_8-snap.2409-T1
Valid prediction for GlimmerHMM_glimmerT_21139-T1
Valid prediction for snap_scaffold_8-snap.2422-T1
Valid prediction for Augustus_model.g14189.t1
Valid prediction for GeneMark_model.36042_t
Valid prediction for GeneMark_model.36017_t
Valid prediction for GlimmerHMM_glimmerT_21137-T1
Valid prediction for GeneMark_model.36021_t
Valid prediction for Augustus_model.g14187.t1
Valid prediction for GeneMark_model.36033_t
Valid prediction for GlimmerHMM_glimmerT_21131-T1
Valid prediction for GeneMark_model.36020_t
Valid prediction for snap_scaffold_8-snap.2393-T1
Valid prediction for CodingQuarry_transcript_59733-T1
Valid prediction for GlimmerHMM_glimmerT_21151-T1
Valid prediction for GeneMark_model.36045_t
Valid prediction for snap_scaffold_8-snap.2405-T1
Valid prediction for GeneMark_model.36043_t
Valid prediction for snap_scaffold_8-snap.2407-T1
Valid prediction for GlimmerHMM_glimmerT_21130-T1
Valid prediction for GeneMark_model.36038_t
Valid prediction for GlimmerHMM_glimmerT_21144-T1
Valid prediction for GlimmerHMM_glimmerT_21127-T1
Valid prediction for GeneMark_model.36031_t
Valid prediction for CodingQuarry_transcript_59737-T1
Valid prediction for GeneMark_model.36008_t
Valid prediction for GlimmerHMM_glimmerT_21135-T1
Valid prediction for snap_scaffold_8-snap.2412-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.2402-T1
Valid prediction for GeneMark_model.36024_t
Valid prediction for snap_scaffold_8-snap.2415-T1
Valid prediction for HiQ_model.g14192.t1
Valid prediction for snap_scaffold_8-snap.2403-T1
Valid prediction for GlimmerHMM_glimmerT_21134-T1
Valid prediction for snap_scaffold_8-snap.2411-T1
Valid prediction for GeneMark_model.36027_t
Valid prediction for snap_scaffold_8-snap.2416-T1
Valid prediction for pasa_asmbl_53284.p1
Valid prediction for GlimmerHMM_glimmerT_21146-T1
Valid prediction for Augustus_model.g14191.t1
Valid prediction for GeneMark_model.36010_t
Valid prediction for Augustus_model.g14190.t1
Valid prediction for GlimmerHMM_glimmerT_21126-T1
Valid prediction for GeneMark_model.36025_t
Valid prediction for snap_scaffold_8-snap.2394-T1
Valid prediction for snap_scaffold_8-snap.2399-T1
Valid prediction for GeneMark_model.36015_t
Valid prediction for HiQ_model.g14184.t1
Valid prediction for GeneMark_model.36037_t
Valid prediction for GeneMark_model.36050_t
Valid prediction for CodingQuarry_transcript_59735-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10689, rend_intergenic: 10479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30961, rend_intergenic: 26057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50460, rend_intergenic: 43010  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61500, rend_intergenic: 56911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96737, rend_intergenic: 87194  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107392, rend_intergenic: 106832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123431, rend_intergenic: 109680  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137992, rend_intergenic: 123665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141212, rend_intergenic: 138060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156583, rend_intergenic: 141235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181220, rend_intergenic: 157711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 191426
-exon list size: 651


building trellis

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93.3    
93.4    
93.6    
93.7    
93.9    
94.0    
94.2    
94.3    
94.5    
94.6    
94.8    
94.9    
95.1    
95.3    
95.4    
95.6    
95.7    
95.9    
96.0    
96.2    
96.3    
96.5    
96.6    
96.8    
96.9    
97.1    
97.2    
97.4    
97.5    
97.7    
97.9    
98.0    
98.2    
98.3    
98.5    
98.6    
98.8    
98.9    
99.1    
99.2    
99.4    
99.5    
99.7    
99.8    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 10689, rend_intergenic: 10479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30961, rend_intergenic: 26057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50460, rend_intergenic: 43010  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61500, rend_intergenic: 56911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96737, rend_intergenic: 87194  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107392, rend_intergenic: 106832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123431, rend_intergenic: 109680  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137992, rend_intergenic: 123665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141212, rend_intergenic: 138060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156583, rend_intergenic: 141235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181220, rend_intergenic: 157711  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support