-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_10445510-10645600

-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.g24544.t1
Valid prediction for HiQ_model.g24553.t1
Valid prediction for snap_scaffold_15-snap.2152-T1
Valid prediction for GlimmerHMM_glimmerT_36862-T1
Valid prediction for snap_scaffold_15-snap.2150-T1
Valid prediction for snap_scaffold_15-snap.2186-T1
Valid prediction for snap_scaffold_15-snap.2167-T1
Valid prediction for snap_scaffold_15-snap.2174-T1
Valid prediction for snap_scaffold_15-snap.2160-T1
Valid prediction for GlimmerHMM_glimmerT_36841-T1
Valid prediction for pasa_asmbl_15459.p1
Valid prediction for snap_scaffold_15-snap.2141-T1
Valid prediction for GlimmerHMM_glimmerT_36860-T1
Valid prediction for snap_scaffold_15-snap.2148-T1
Valid prediction for Augustus_model.g24543.t1
Valid prediction for snap_scaffold_15-snap.2173-T1
Valid prediction for Augustus_model.g24549.t1
Valid prediction for GlimmerHMM_glimmerT_36857-T1
Valid prediction for GlimmerHMM_glimmerT_36863-T1
Valid prediction for CodingQuarry_transcript_18124-T1
Valid prediction for snap_scaffold_15-snap.2177-T1
Valid prediction for snap_scaffold_15-snap.2158-T1
Valid prediction for GlimmerHMM_glimmerT_36858-T1
Valid prediction for GlimmerHMM_glimmerT_36844-T1
Valid prediction for snap_scaffold_15-snap.2183-T1
Valid prediction for Augustus_model.g24551.t1
Valid prediction for snap_scaffold_15-snap.2144-T1
Valid prediction for snap_scaffold_15-snap.2169-T1
Valid prediction for GlimmerHMM_glimmerT_36840-T1
Valid prediction for snap_scaffold_15-snap.2155-T1
Valid prediction for GlimmerHMM_glimmerT_36843-T1
Valid prediction for GlimmerHMM_glimmerT_36842-T1
Valid prediction for snap_scaffold_15-snap.2156-T1
Couldn't classify 120119, 120265
Couldn't classify 122638, 122790
Sorry, prediction pasa_asmbl_15883.p2 fails validation.
(TGC)	 TC	120119-120265	GT	AGG
(ACG)	 AG	122399-122506	GT	AGG
(GGC)	 AG	122638-122790	GT	CGG
-recovered pasa_asmbl_15883.p2, internal, 122399, 122506
-recovered pasa_asmbl_15883.p2, internal, 122638, 122790
Valid prediction for snap_scaffold_15-snap.2164-T1
Valid prediction for Augustus_model.g24554.t1
Couldn't classify 168396, 173036
Sorry, prediction pasa_asmbl_15456.p1 fails validation.
(GTC)	 CA	168396-173036	GC	GAG
Valid prediction for GlimmerHMM_glimmerT_36848-T1
Valid prediction for snap_scaffold_15-snap.2161-T1
Valid prediction for GlimmerHMM_glimmerT_36851-T1
Valid prediction for Augustus_model.g24550.t1
Valid prediction for GlimmerHMM_glimmerT_36847-T1
Valid prediction for snap_scaffold_15-snap.2184-T1
Valid prediction for snap_scaffold_15-snap.2180-T1
Valid prediction for GlimmerHMM_glimmerT_36846-T1
Valid prediction for snap_scaffold_15-snap.2176-T1
Valid prediction for GlimmerHMM_glimmerT_36855-T1
Valid prediction for GlimmerHMM_glimmerT_36853-T1
Valid prediction for snap_scaffold_15-snap.2145-T1
Valid prediction for snap_scaffold_15-snap.2153-T1
Valid prediction for snap_scaffold_15-snap.2163-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_15-snap.2157-T1
Valid prediction for snap_scaffold_15-snap.2162-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_36849-T1
Valid prediction for GlimmerHMM_glimmerT_36856-T1
Valid prediction for snap_scaffold_15-snap.2159-T1
Couldn't classify 158083, 158089
Sorry, prediction pasa_asmbl_14430.p1 fails validation.
(GAG)	 CT	158083-158089	GT	ATG
(TGG)	 AG	158333-158538	GT	AGG
(GTG)	 AG	158996-159150	GT	AGG
(GGC)	 AG	159631-159820	GT	AGG
(AGC)	 AG	160650-160799	AT	GAA
-recovered pasa_asmbl_14430.p1, terminal, 160650, 160799
-recovered pasa_asmbl_14430.p1, internal, 158333, 158538
-recovered pasa_asmbl_14430.p1, internal, 158996, 159150
-recovered pasa_asmbl_14430.p1, internal, 159631, 159820
Valid prediction for snap_scaffold_15-snap.2147-T1
Valid prediction for snap_scaffold_15-snap.2171-T1
Valid prediction for snap_scaffold_15-snap.2149-T1
Couldn't classify 19151, 19625
Sorry, prediction pasa_asmbl_14437.p1 fails validation.
(ATG)	 GA	18747-18919	GT	AGG
(TGA)	 AG	19151-19625	AA	CCA
-recovered pasa_asmbl_14437.p1, initial, 18747, 18919
Valid prediction for snap_scaffold_15-snap.2142-T1
Couldn't classify 149181, 149351
Couldn't classify 149435, 149593
Sorry, prediction pasa_asmbl_14433.p1 fails validation.
(GTG)	 AG	149181-149351	GT	ACG
(GGC)	 AG	149435-149593	GA	AGG
-recovered pasa_asmbl_14433.p1, internal, 149181, 149351
Valid prediction for GlimmerHMM_glimmerT_36861-T1
Valid prediction for snap_scaffold_15-snap.2179-T1
Couldn't classify 19908, 20564
Sorry, prediction pasa_asmbl_14436.p1 fails validation.
(AGT)	 TG	19908-20564	TA	AGT
Valid prediction for snap_scaffold_15-snap.2182-T1
Valid prediction for snap_scaffold_15-snap.2168-T1
Valid prediction for GlimmerHMM_glimmerT_36850-T1
Valid prediction for snap_scaffold_15-snap.2185-T1
Valid prediction for snap_scaffold_15-snap.2143-T1
Valid prediction for GlimmerHMM_glimmerT_36854-T1
Valid prediction for CodingQuarry_transcript_18122-T1
Valid prediction for Augustus_model.g24545.t1
Valid prediction for GlimmerHMM_glimmerT_36859-T1
Valid prediction for snap_scaffold_15-snap.2165-T1
Couldn't classify 152586, 152626
Couldn't classify 157094, 157192
Sorry, prediction pasa_asmbl_14431.p1 fails validation.
(GAG)	 CT	152586-152626	GT	GGG
(GAG)	 AG	154269-154419	GT	CGG
(GAG)	 AG	155215-155390	GT	AGG
(GCT)	 AG	155870-156005	GT	AGG
(GCC)	 AG	156159-156308	GT	GGG
(GTG)	 AG	156542-156688	GT	AGG
(GCA)	 AG	157094-157192	AA	ACA
-recovered pasa_asmbl_14431.p1, internal, 154269, 154419
-recovered pasa_asmbl_14431.p1, internal, 155215, 155390
-recovered pasa_asmbl_14431.p1, internal, 155870, 156005
-recovered pasa_asmbl_14431.p1, internal, 156159, 156308
-recovered pasa_asmbl_14431.p1, internal, 156542, 156688
Valid prediction for snap_scaffold_15-snap.2166-T1
Valid prediction for snap_scaffold_15-snap.2170-T1
Valid prediction for GlimmerHMM_glimmerT_36852-T1
Valid prediction for snap_scaffold_15-snap.2146-T1
Valid prediction for CodingQuarry_transcript_18121-T1
Valid prediction for snap_scaffold_15-snap.2181-T1
Valid prediction for snap_scaffold_15-snap.2154-T1
Valid prediction for Augustus_model.g24547.t1
Valid prediction for CodingQuarry_transcript_18120-T1
Valid prediction for GlimmerHMM_glimmerT_36845-T1
Valid prediction for HiQ_model.g24552.t1
Valid prediction for snap_scaffold_15-snap.2151-T1
Couldn't classify 152454, 152507
Sorry, prediction pasa_asmbl_14432.p1 fails validation.
(ATG)	 AG	151535-151672	GT	GGG
(GAG)	 AG	151895-151993	GT	AGG
(GGG)	 AG	152081-152242	GT	GGG
(AGC)	 AG	152454-152507	CG	AGC
-recovered pasa_asmbl_14432.p1, initial, 151535, 151672
-recovered pasa_asmbl_14432.p1, internal, 151535, 151672
-recovered pasa_asmbl_14432.p1, internal, 151895, 151993
-recovered pasa_asmbl_14432.p1, internal, 152081, 152242
Couldn't classify 138655, 138768
Couldn't classify 141788, 141874
Sorry, prediction pasa_asmbl_14435.p1 fails validation.
(CAG)	 TG	138655-138768	GT	AGG
(TCT)	 AG	139048-139149	GT	AGG
(AGT)	 AG	139832-139939	GT	CCG
(ATC)	 AG	140589-140768	GT	AGG
(GTG)	 AG	141138-141304	GT	GTG
(GCT)	 AG	141574-141697	GT	AGG
(GCC)	 AG	141788-141874	GG	GAG
-recovered pasa_asmbl_14435.p1, internal, 139048, 139149
-recovered pasa_asmbl_14435.p1, internal, 139832, 139939
-recovered pasa_asmbl_14435.p1, internal, 140589, 140768
-recovered pasa_asmbl_14435.p1, internal, 141138, 141304
-recovered pasa_asmbl_14435.p1, internal, 141574, 141697
Valid prediction for snap_scaffold_15-snap.2178-T1
Valid prediction for snap_scaffold_15-snap.2172-T1
Valid prediction for Augustus_model.g24548.t1
Valid prediction for snap_scaffold_15-snap.2175-T1
Valid prediction for Augustus_model.g24546.t1
Valid prediction for Augustus_model.g24542.t1
Couldn't classify 143054, 143111
Couldn't classify 147926, 147934
Sorry, prediction pasa_asmbl_14434.p1 fails validation.
(GCC)	 CA	143054-143111	GT	AGG
(CCC)	 AG	144542-144690	GT	AGG
(GCT)	 AG	145577-145714	GT	AGG
(GTG)	 AG	145803-145916	GT	AGG
(GAG)	 AG	146098-146253	GT	AGG
(TTG)	 AG	146459-146629	GT	AGG
(AGA)	 AG	146981-147160	GT	AGG
(GAG)	 AG	147357-147491	GT	AGG
(TCT)	 AG	147650-147799	GT	AGG
(GCT)	 AG	147926-147934	AA	GCA
-recovered pasa_asmbl_14434.p1, internal, 144542, 144690
-recovered pasa_asmbl_14434.p1, internal, 145577, 145714
-recovered pasa_asmbl_14434.p1, internal, 145803, 145916
-recovered pasa_asmbl_14434.p1, internal, 146098, 146253
-recovered pasa_asmbl_14434.p1, internal, 146459, 146629
-recovered pasa_asmbl_14434.p1, internal, 146981, 147160
-recovered pasa_asmbl_14434.p1, internal, 147357, 147491
-recovered pasa_asmbl_14434.p1, internal, 147650, 147799

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11050, rend_intergenic: 2361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16303, rend_intergenic: 11130  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17508, rend_intergenic: 17108  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23006, rend_intergenic: 20558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24037, rend_intergenic: 23207  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26013, rend_intergenic: 24476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38709, rend_intergenic: 26613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51696, rend_intergenic: 41174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54536, rend_intergenic: 51696  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86297, rend_intergenic: 54757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111133, rend_intergenic: 102301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120549, rend_intergenic: 113494  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125916, rend_intergenic: 122040  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129929, rend_intergenic: 128116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163543, rend_intergenic: 152589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173036, rend_intergenic: 171774  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198090, rend_intergenic: 192943  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 200091
-exon list size: 398


building trellis

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-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 11050, rend_intergenic: 2361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16303, rend_intergenic: 11130  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17508, rend_intergenic: 17108  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23006, rend_intergenic: 20558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24037, rend_intergenic: 23207  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26013, rend_intergenic: 24476  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38709, rend_intergenic: 26613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51696, rend_intergenic: 41174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54536, rend_intergenic: 51696  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86297, rend_intergenic: 54757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111133, rend_intergenic: 102301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120549, rend_intergenic: 113494  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125916, rend_intergenic: 122040  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129929, rend_intergenic: 128116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163543, rend_intergenic: 152589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173036, rend_intergenic: 171774  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198090, rend_intergenic: 192943  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support