-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_5369529-5610967

-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 HiQ_model.g22637.t1
Valid prediction for pasa_asmbl_12026.p1
Valid prediction for GlimmerHMM_glimmerT_33866-T1
Valid prediction for snap_scaffold_14-snap.1110-T1
Valid prediction for Augustus_model.g22634.t1
Valid prediction for pasa_asmbl_12023.p1
Valid prediction for snap_scaffold_14-snap.1093-T1
Valid prediction for Augustus_model.g22622.t1
Valid prediction for GlimmerHMM_glimmerT_33862-T1
Couldn't classify 62535, 64364
Sorry, prediction pasa_asmbl_12011.p1 fails validation.
(CCT)	 CT	62535-64364	GT	AGG
Valid prediction for GlimmerHMM_glimmerT_33871-T1
Valid prediction for pasa_asmbl_12025.p1
Valid prediction for GlimmerHMM_glimmerT_33860-T1
Valid prediction for snap_scaffold_14-snap.1108-T1
Valid prediction for snap_scaffold_14-snap.1107-T1
Valid prediction for snap_scaffold_14-snap.1074-T1
Valid prediction for snap_scaffold_14-snap.1088-T1
Valid prediction for CodingQuarry_transcript_15646-T1
Couldn't classify 196292, 196560
Couldn't classify 197179, 197211
Sorry, prediction pasa_asmbl_12022.p1 fails validation.
(ATA)	 CC	196292-196560	GT	CGG
(CTA)	 AG	196703-196886	GT	AGG
(GTG)	 AG	197179-197211	GG	TTG
-recovered pasa_asmbl_12022.p1, internal, 196703, 196886
Valid prediction for Augustus_model.g22615.t1
Valid prediction for HiQ_model.g22638.t1
Valid prediction for CodingQuarry_transcript_15644-T1
Valid prediction for GlimmerHMM_glimmerT_33851-T1
Valid prediction for snap_scaffold_14-snap.1104-T1
Valid prediction for snap_scaffold_14-snap.1082-T1
Valid prediction for Augustus_model.g22616.t1
Valid prediction for GlimmerHMM_glimmerT_33855-T1
Valid prediction for snap_scaffold_14-snap.1092-T1
Valid prediction for snap_scaffold_14-snap.1102-T1
Valid prediction for snap_scaffold_14-snap.1117-T1
Valid prediction for snap_scaffold_14-snap.1115-T1
Valid prediction for pasa_asmbl_12020.p1
Valid prediction for snap_scaffold_14-snap.1097-T1
Valid prediction for snap_scaffold_14-snap.1111-T1
Valid prediction for GlimmerHMM_glimmerT_33870-T1
Valid prediction for pasa_asmbl_12012.p1
Valid prediction for GlimmerHMM_glimmerT_33861-T1
Valid prediction for GlimmerHMM_glimmerT_33853-T1
Valid prediction for GlimmerHMM_glimmerT_33867-T1
Couldn't classify 180580, 180756
Couldn't classify 181547, 181786
Sorry, prediction pasa_asmbl_12019.p1 fails validation.
(AAC)	 AG	180580-180756	GT	TGG
(GTT)	 AG	181547-181786	CC	CCC
-recovered pasa_asmbl_12019.p1, internal, 180580, 180756
Valid prediction for snap_scaffold_14-snap.1084-T1
Valid prediction for HiQ_model.g22633.t1
Valid prediction for Augustus_model.g22619.t1
Valid prediction for snap_scaffold_14-snap.1086-T1
Valid prediction for HiQ_model.g22641.t1
Valid prediction for snap_scaffold_14-snap.1089-T1
Valid prediction for GlimmerHMM_glimmerT_33856-T1
Valid prediction for snap_scaffold_14-snap.1099-T1
Valid prediction for GlimmerHMM_glimmerT_33858-T1
Valid prediction for pasa_asmbl_12030.p1
Valid prediction for CodingQuarry_transcript_15645-T1
Valid prediction for GlimmerHMM_glimmerT_33843-T1
Valid prediction for snap_scaffold_14-snap.1113-T1
Valid prediction for HiQ_model.g22630.t1
Valid prediction for snap_scaffold_14-snap.1103-T1
Valid prediction for Augustus_model.g22632.t1
Valid prediction for Augustus_model.g22640.t1
Couldn't classify 163660, 163730
Sorry, prediction pasa_asmbl_12017.p1 fails validation.
(CCG)	 AA	163660-163730	GT	ACG
(GTT)	 AG	163977-164122	GT	AAG
(GAA)	 AG	164364-164417	GT	AGG
(GCA)	 AG	164545-164633	GT	GGG
(GTC)	 AG	165081-165156	GT	AGG
(AGT)	 AG	165297-165409	GA	GAG
-recovered pasa_asmbl_12017.p1, terminal, 165297, 165409
-recovered pasa_asmbl_12017.p1, internal, 163977, 164122
-recovered pasa_asmbl_12017.p1, internal, 164364, 164417
-recovered pasa_asmbl_12017.p1, internal, 164545, 164633
-recovered pasa_asmbl_12017.p1, internal, 165081, 165156
Valid prediction for GlimmerHMM_glimmerT_33840-T1
Valid prediction for Augustus_model.g22620.t1
Valid prediction for snap_scaffold_14-snap.1105-T1
Valid prediction for pasa_asmbl_12015.p1
Valid prediction for CodingQuarry_transcript_15642-T1
Valid prediction for snap_scaffold_14-snap.1072-T1
Valid prediction for GlimmerHMM_glimmerT_33869-T1
Valid prediction for Augustus_model.g22635.t1
Valid prediction for GlimmerHMM_glimmerT_33836-T1
Valid prediction for pasa_asmbl_12024.p1
Valid prediction for snap_scaffold_14-snap.1106-T1
Valid prediction for GlimmerHMM_glimmerT_33838-T1
Valid prediction for snap_scaffold_14-snap.1100-T1
Valid prediction for snap_scaffold_14-snap.1101-T1
Valid prediction for GlimmerHMM_glimmerT_33863-T1
Valid prediction for HiQ_model.g22624.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_33854-T1
Valid prediction for Augustus_model.g22629.t1
Valid prediction for Augustus_model.g22621.t1
Valid prediction for Augustus_model.g22625.t1
Valid prediction for HiQ_model.g22631.t1
Valid prediction for GlimmerHMM_glimmerT_33872-T1
Valid prediction for snap_scaffold_14-snap.1096-T1
Valid prediction for pasa_asmbl_13079.p1
Valid prediction for HiQ_model.g22639.t1
Valid prediction for GlimmerHMM_glimmerT_33842-T1
Valid prediction for snap_scaffold_14-snap.1095-T1
Valid prediction for CodingQuarry_transcript_15643-T1
Valid prediction for snap_scaffold_14-snap.1091-T1
Valid prediction for CodingQuarry_transcript_15640-T1
Valid prediction for GlimmerHMM_glimmerT_33847-T1
Valid prediction for GlimmerHMM_glimmerT_33848-T1
Valid prediction for snap_scaffold_14-snap.1081-T1
Valid prediction for GlimmerHMM_glimmerT_33845-T1
Valid prediction for snap_scaffold_14-snap.1087-T1
Valid prediction for CodingQuarry_transcript_15639-T1
Valid prediction for GlimmerHMM_glimmerT_33857-T1
Valid prediction for GlimmerHMM_glimmerT_33859-T1
Valid prediction for Augustus_model.g22623.t1
Valid prediction for GlimmerHMM_glimmerT_33846-T1
Valid prediction for GlimmerHMM_glimmerT_33839-T1
Valid prediction for snap_scaffold_14-snap.1078-T1
Valid prediction for Augustus_model.g22636.t1
Couldn't classify 22677, 22928
Sorry, prediction pasa_asmbl_13083.p1 fails validation.
(TTT)	 CC	22677-22928	GT	AGG
(CTG)	 AG	23654-24274	AA	GAA
-recovered pasa_asmbl_13083.p1, terminal, 23654, 24274
Valid prediction for CodingQuarry_transcript_15641-T1
Valid prediction for Augustus_model.g22642.t1
Valid prediction for snap_scaffold_14-snap.1114-T1
Valid prediction for snap_scaffold_14-snap.1094-T1
Valid prediction for HiQ_model.g22626.t1
Valid prediction for GlimmerHMM_glimmerT_33852-T1
Valid prediction for snap_scaffold_14-snap.1112-T1
Valid prediction for snap_scaffold_14-snap.1090-T1
Valid prediction for snap_scaffold_14-snap.1118-T1
Valid prediction for snap_scaffold_14-snap.1116-T1
Valid prediction for GlimmerHMM_glimmerT_33850-T1
Valid prediction for Augustus_model.g22618.t1
Valid prediction for GlimmerHMM_glimmerT_33837-T1
Valid prediction for snap_scaffold_14-snap.1077-T1
Valid prediction for Augustus_model.g22628.t1
Valid prediction for snap_scaffold_14-snap.1073-T1
Valid prediction for GlimmerHMM_glimmerT_33868-T1
Valid prediction for GlimmerHMM_glimmerT_33844-T1
Valid prediction for Augustus_model.g22627.t1
Valid prediction for CodingQuarry_transcript_15637-T1
Valid prediction for snap_scaffold_14-snap.1083-T1
Valid prediction for snap_scaffold_14-snap.1098-T1
Valid prediction for GlimmerHMM_glimmerT_33864-T1
Valid prediction for GlimmerHMM_glimmerT_33865-T1
Valid prediction for snap_scaffold_14-snap.1080-T1
Valid prediction for snap_scaffold_14-snap.1085-T1
Valid prediction for snap_scaffold_14-snap.1079-T1
Valid prediction for pasa_asmbl_13080.p1
Valid prediction for snap_scaffold_14-snap.1076-T1
Valid prediction for CodingQuarry_transcript_15638-T1
Valid prediction for Augustus_model.g22617.t1
Valid prediction for GlimmerHMM_glimmerT_33849-T1
Valid prediction for snap_scaffold_14-snap.1075-T1
Valid prediction for snap_scaffold_14-snap.1109-T1
Valid prediction for GlimmerHMM_glimmerT_33841-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6245, rend_intergenic: 3858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11367, rend_intergenic: 7609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55122, rend_intergenic: 53080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78489, rend_intergenic: 70837  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111904, rend_intergenic: 109582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237081, rend_intergenic: 233186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 241439
-exon list size: 498


building trellis

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-found 42 predictions from path traversal
Error with prediction: snap lend_intergenic: 6245, rend_intergenic: 3858  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11367, rend_intergenic: 7609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55122, rend_intergenic: 53080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78489, rend_intergenic: 70837  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111904, rend_intergenic: 109582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 237081, rend_intergenic: 233186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 32 predictions persist after filtering for low support