-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_16/scaffold_16_11456367-11616274

-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_16-snap.2188-T1
Valid prediction for GeneMark_model.68461_t
Valid prediction for GeneMark_model.68484_t
Valid prediction for snap_scaffold_16-snap.2173-T1
Valid prediction for GeneMark_model.68457_t
Valid prediction for GeneMark_model.68465_t
Valid prediction for GlimmerHMM_glimmerT_39948-T1
Valid prediction for snap_scaffold_16-snap.2162-T1
Valid prediction for GeneMark_model.68450_t
Valid prediction for snap_scaffold_16-snap.2184-T1
Valid prediction for snap_scaffold_16-snap.2158-T1
Valid prediction for GeneMark_model.68472_t
Valid prediction for GlimmerHMM_glimmerT_39946-T1
Valid prediction for snap_scaffold_16-snap.2169-T1
Valid prediction for snap_scaffold_16-snap.2175-T1
Couldn't classify 148413, 148518
Sorry, prediction pasa_asmbl_17393.p1 fails validation.
(TGG)	 GG	148413-148518	GT	AGG
(GAG)	 AG	149185-149368	GT	AGG
(GTT)	 AG	149502-149613	GT	AGG
(ATC)	 AG	150264-150401	GT	AGG
(GCC)	 AG	150660-151001	CT	GAC
-recovered pasa_asmbl_17393.p1, terminal, 150660, 151001
-recovered pasa_asmbl_17393.p1, internal, 149185, 149368
-recovered pasa_asmbl_17393.p1, internal, 149502, 149613
-recovered pasa_asmbl_17393.p1, internal, 150264, 150401
Valid prediction for GlimmerHMM_glimmerT_39937-T1
Valid prediction for GeneMark_model.68483_t
Valid prediction for Augustus_model.g26845.t1
Valid prediction for GeneMark_model.68469_t
Valid prediction for GeneMark_model.68459_t
Valid prediction for Augustus_model.g26841.t1
Valid prediction for GeneMark_model.68464_t
Valid prediction for snap_scaffold_16-snap.2155-T1
Valid prediction for Augustus_model.g26844.t1
Valid prediction for snap_scaffold_16-snap.2153-T1
Valid prediction for GlimmerHMM_glimmerT_39935-T1
Valid prediction for snap_scaffold_16-snap.2179-T1
Valid prediction for GeneMark_model.68455_t
Valid prediction for GeneMark_model.68481_t
Valid prediction for snap_scaffold_16-snap.2157-T1
Valid prediction for HiQ_model.g26843.t1
Valid prediction for GeneMark_model.68487_t
Couldn't classify 112837, 113199
Sorry, prediction pasa_asmbl_16760.p2 fails validation.
(TCC)	 CC	112837-113199	CT	GTC
Valid prediction for GeneMark_model.68474_t
Valid prediction for snap_scaffold_16-snap.2189-T1
Valid prediction for GeneMark_model.68466_t
Valid prediction for snap_scaffold_16-snap.2164-T1
Valid prediction for GeneMark_model.68476_t
Valid prediction for snap_scaffold_16-snap.2166-T1
Valid prediction for snap_scaffold_16-snap.2186-T1
Valid prediction for Augustus_model.g26838.t1
Valid prediction for snap_scaffold_16-snap.2183-T1
Valid prediction for GeneMark_model.68445_t
Valid prediction for GlimmerHMM_glimmerT_39933-T1
Valid prediction for GeneMark_model.68477_t
Valid prediction for snap_scaffold_16-snap.2190-T1
Valid prediction for GeneMark_model.68485_t
Valid prediction for GlimmerHMM_glimmerT_39940-T1
Valid prediction for snap_scaffold_16-snap.2180-T1
Valid prediction for GeneMark_model.68453_t
Valid prediction for GeneMark_model.68489_t
Valid prediction for GeneMark_model.68471_t
Valid prediction for snap_scaffold_16-snap.2160-T1
Valid prediction for GlimmerHMM_glimmerT_39947-T1
Valid prediction for GeneMark_model.68467_t
Valid prediction for GeneMark_model.68479_t

-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.68458_t
Valid prediction for GlimmerHMM_glimmerT_39943-T1
Valid prediction for GlimmerHMM_glimmerT_39945-T1
Valid prediction for GlimmerHMM_glimmerT_39939-T1
Valid prediction for snap_scaffold_16-snap.2174-T1
Couldn't classify 14450, 15061
Sorry, prediction pasa_asmbl_16531.p1 fails validation.
(ATG)	 GG	12364-12387	GT	AGG
(AGA)	 AG	12782-12806	GT	AGG
(CGC)	 AG	13828-13907	GT	AGG
(AAT)	 AG	14450-15061	AA	CCA
-recovered pasa_asmbl_16531.p1, initial, 12364, 12387
-recovered pasa_asmbl_16531.p1, internal, 12782, 12806
-recovered pasa_asmbl_16531.p1, internal, 13828, 13907
Valid prediction for snap_scaffold_16-snap.2156-T1
Sorry, intron length (4) is less than minimum required (10)
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_39936-T1
Valid prediction for snap_scaffold_16-snap.2161-T1
Valid prediction for snap_scaffold_16-snap.2185-T1
Valid prediction for GeneMark_model.68462_t
Valid prediction for GeneMark_model.68463_t
Valid prediction for snap_scaffold_16-snap.2165-T1
Valid prediction for snap_scaffold_16-snap.2181-T1
Valid prediction for snap_scaffold_16-snap.2168-T1
Valid prediction for GeneMark_model.68488_t
Valid prediction for GlimmerHMM_glimmerT_39931-T1
Valid prediction for GeneMark_model.68473_t
Valid prediction for snap_scaffold_16-snap.2170-T1
Valid prediction for GeneMark_model.68447_t
Valid prediction for Augustus_model.g26840.t1
Valid prediction for snap_scaffold_16-snap.2154-T1
Valid prediction for GeneMark_model.68454_t
Valid prediction for snap_scaffold_16-snap.2178-T1
Valid prediction for Augustus_model.g26842.t1
Couldn't classify 15476, 16210
Sorry, prediction pasa_asmbl_16529.p1 fails validation.
(CAT)	 AA	15476-16210	GT	GGG
(GAG)	 AG	19165-19188	CC	AAC
-recovered pasa_asmbl_16529.p1, terminal, 19165, 19188
Valid prediction for Augustus_model.g26839.t1
Valid prediction for snap_scaffold_16-snap.2159-T1
Valid prediction for GeneMark_model.68482_t
Valid prediction for GlimmerHMM_glimmerT_39942-T1
Valid prediction for GlimmerHMM_glimmerT_39941-T1
Valid prediction for snap_scaffold_16-snap.2187-T1
Valid prediction for GeneMark_model.68460_t
Valid prediction for snap_scaffold_16-snap.2167-T1
Valid prediction for GeneMark_model.68486_t
Valid prediction for snap_scaffold_16-snap.2163-T1
Valid prediction for snap_scaffold_16-snap.2171-T1
Valid prediction for GlimmerHMM_glimmerT_39934-T1
Valid prediction for GeneMark_model.68446_t
Valid prediction for snap_scaffold_16-snap.2177-T1
Valid prediction for GeneMark_model.68470_t
Valid prediction for GlimmerHMM_glimmerT_39932-T1
Valid prediction for GeneMark_model.68451_t
Valid prediction for snap_scaffold_16-snap.2172-T1
Valid prediction for snap_scaffold_16-snap.2176-T1
Valid prediction for GeneMark_model.68478_t
Valid prediction for GeneMark_model.68456_t
Valid prediction for GlimmerHMM_glimmerT_39938-T1
Valid prediction for GeneMark_model.68480_t
Valid prediction for GeneMark_model.68468_t
Valid prediction for GeneMark_model.68452_t
Valid prediction for GeneMark_model.68449_t
Valid prediction for snap_scaffold_16-snap.2182-T1
Valid prediction for GlimmerHMM_glimmerT_39944-T1
Valid prediction for GeneMark_model.68475_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19566, rend_intergenic: 15355  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20481, rend_intergenic: 19591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26957, rend_intergenic: 23318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49396, rend_intergenic: 46799  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91708, rend_intergenic: 90733  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95106, rend_intergenic: 92742  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110337, rend_intergenic: 100802  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115564, rend_intergenic: 112209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131501, rend_intergenic: 124817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136783, rend_intergenic: 134261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 159908
-exon list size: 512


building trellis

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99.0    
99.2    
99.4    
99.6    
99.8    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 19566, rend_intergenic: 15355  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20481, rend_intergenic: 19591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26957, rend_intergenic: 23318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49396, rend_intergenic: 46799  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91708, rend_intergenic: 90733  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95106, rend_intergenic: 92742  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110337, rend_intergenic: 100802  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115564, rend_intergenic: 112209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131501, rend_intergenic: 124817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136783, rend_intergenic: 134261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 9 predictions persist after filtering for low support