-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_5606760-5895319

-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_14-snap.1153-T1
Valid prediction for snap_scaffold_14-snap.1158-T1
Valid prediction for GlimmerHMM_glimmerT_33887-T1
Valid prediction for GlimmerHMM_glimmerT_33895-T1
Valid prediction for Augustus_model.g22649.t1
Valid prediction for snap_scaffold_14-snap.1168-T1
Valid prediction for snap_scaffold_14-snap.1164-T1
Valid prediction for snap_scaffold_14-snap.1167-T1
Valid prediction for snap_scaffold_14-snap.1126-T1
Valid prediction for snap_scaffold_14-snap.1170-T1
Valid prediction for GlimmerHMM_glimmerT_33909-T1
Valid prediction for GlimmerHMM_glimmerT_33884-T1
Valid prediction for GlimmerHMM_glimmerT_33889-T1
Valid prediction for HiQ_model.g22644.t1
Valid prediction for GlimmerHMM_glimmerT_33902-T1
Valid prediction for snap_scaffold_14-snap.1156-T1
Valid prediction for GlimmerHMM_glimmerT_33886-T1
Valid prediction for snap_scaffold_14-snap.1176-T1
Valid prediction for pasa_asmbl_12034.p1
Valid prediction for GlimmerHMM_glimmerT_33907-T1
Valid prediction for snap_scaffold_14-snap.1120-T1
Valid prediction for snap_scaffold_14-snap.1139-T1
Valid prediction for GlimmerHMM_glimmerT_33879-T1
Valid prediction for snap_scaffold_14-snap.1152-T1
Valid prediction for Augustus_model.g22647.t1
Valid prediction for snap_scaffold_14-snap.1151-T1
Valid prediction for snap_scaffold_14-snap.1160-T1
Valid prediction for Augustus_model.g22659.t1
Valid prediction for snap_scaffold_14-snap.1127-T1
Valid prediction for snap_scaffold_14-snap.1143-T1
Valid prediction for snap_scaffold_14-snap.1173-T1
Valid prediction for snap_scaffold_14-snap.1132-T1
Valid prediction for GlimmerHMM_glimmerT_33893-T1
Valid prediction for GlimmerHMM_glimmerT_33876-T1
Valid prediction for GlimmerHMM_glimmerT_33888-T1
Valid prediction for GlimmerHMM_glimmerT_33892-T1
Valid prediction for CodingQuarry_transcript_15647-T1
Valid prediction for Augustus_model.g22646.t1
Valid prediction for snap_scaffold_14-snap.1122-T1
Valid prediction for GlimmerHMM_glimmerT_33878-T1
Valid prediction for Augustus_model.g22648.t1
Valid prediction for Augustus_model.g22650.t1
Valid prediction for GlimmerHMM_glimmerT_33891-T1
Valid prediction for snap_scaffold_14-snap.1121-T1
Valid prediction for GlimmerHMM_glimmerT_33880-T1
Valid prediction for snap_scaffold_14-snap.1128-T1
Valid prediction for Augustus_model.g22651.t1
Valid prediction for snap_scaffold_14-snap.1137-T1
Valid prediction for snap_scaffold_14-snap.1165-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_33913-T1
Valid prediction for snap_scaffold_14-snap.1161-T1
Valid prediction for snap_scaffold_14-snap.1172-T1
Valid prediction for GlimmerHMM_glimmerT_33912-T1
Valid prediction for snap_scaffold_14-snap.1177-T1
Valid prediction for pasa_asmbl_13097.p1
Valid prediction for snap_scaffold_14-snap.1169-T1
Valid prediction for snap_scaffold_14-snap.1163-T1
Valid prediction for Augustus_model.g22658.t1
Valid prediction for pasa_asmbl_13089.p1
Valid prediction for snap_scaffold_14-snap.1157-T1
Valid prediction for GlimmerHMM_glimmerT_33908-T1
Valid prediction for snap_scaffold_14-snap.1118-T1
Valid prediction for snap_scaffold_14-snap.1124-T1
Valid prediction for snap_scaffold_14-snap.1123-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33899-T1
Valid prediction for GlimmerHMM_glimmerT_33885-T1
Valid prediction for HiQ_model.g22645.t1
Valid prediction for GlimmerHMM_glimmerT_33905-T1
Valid prediction for Augustus_model.g22643.t1
Valid prediction for snap_scaffold_14-snap.1141-T1
Valid prediction for snap_scaffold_14-snap.1149-T1
Valid prediction for GlimmerHMM_glimmerT_33901-T1
Valid prediction for Augustus_model.g22655.t1
Valid prediction for HiQ_model.g22653.t1
Valid prediction for Augustus_model.g22657.t1
Valid prediction for snap_scaffold_14-snap.1145-T1
Valid prediction for snap_scaffold_14-snap.1125-T1
Valid prediction for snap_scaffold_14-snap.1162-T1
Valid prediction for snap_scaffold_14-snap.1129-T1
Valid prediction for snap_scaffold_14-snap.1154-T1
Valid prediction for GlimmerHMM_glimmerT_33903-T1
Valid prediction for GlimmerHMM_glimmerT_33877-T1
Valid prediction for Augustus_model.g22660.t1
Valid prediction for snap_scaffold_14-snap.1136-T1
Valid prediction for GlimmerHMM_glimmerT_33898-T1
Valid prediction for snap_scaffold_14-snap.1130-T1
Valid prediction for snap_scaffold_14-snap.1138-T1
Couldn't classify 6745, 6911
Sorry, prediction pasa_asmbl_13095.p2 fails validation.
(ATC)	 TG	6745-6911	GT	AGG
(GTC)	 AG	7551-7668	GT	AGG
(CTG)	 AG	8738-8891	GT	GTG
(ACT)	 AG	9192-9358	GT	AGG
(GTT)	 AG	9652-9831	TG	GAT
-recovered pasa_asmbl_13095.p2, terminal, 9652, 9831
-recovered pasa_asmbl_13095.p2, internal, 7551, 7668
-recovered pasa_asmbl_13095.p2, internal, 8738, 8891
-recovered pasa_asmbl_13095.p2, internal, 9192, 9358
Valid prediction for snap_scaffold_14-snap.1134-T1
Couldn't classify 278126, 278161
Couldn't classify 279040, 279141
Sorry, prediction pasa_asmbl_13808.p1 fails validation.
(GCA)	 AG	278126-278161	GT	TTG
(GAG)	 AG	278401-278472	GT	AGG
(CCA)	 AG	278717-278824	GT	AGG
(GGT)	 AG	279040-279141	AC	GCA
-recovered pasa_asmbl_13808.p1, internal, 278126, 278161
-recovered pasa_asmbl_13808.p1, internal, 278401, 278472
-recovered pasa_asmbl_13808.p1, internal, 278717, 278824
Valid prediction for GlimmerHMM_glimmerT_33875-T1
Valid prediction for GlimmerHMM_glimmerT_33894-T1
Valid prediction for GlimmerHMM_glimmerT_33883-T1
Valid prediction for GlimmerHMM_glimmerT_33873-T1
Valid prediction for snap_scaffold_14-snap.1166-T1
Valid prediction for snap_scaffold_14-snap.1142-T1
Valid prediction for snap_scaffold_14-snap.1135-T1
Valid prediction for pasa_asmbl_13092.p1
Valid prediction for snap_scaffold_14-snap.1119-T1
Valid prediction for HiQ_model.g22661.t1
Valid prediction for GlimmerHMM_glimmerT_33897-T1
Valid prediction for snap_scaffold_14-snap.1148-T1
Valid prediction for snap_scaffold_14-snap.1175-T1
Valid prediction for snap_scaffold_14-snap.1150-T1
Valid prediction for GlimmerHMM_glimmerT_33906-T1
Valid prediction for snap_scaffold_14-snap.1159-T1
Valid prediction for GlimmerHMM_glimmerT_33874-T1
Valid prediction for GlimmerHMM_glimmerT_33910-T1
Valid prediction for GlimmerHMM_glimmerT_33881-T1
Valid prediction for GlimmerHMM_glimmerT_33890-T1
Valid prediction for Augustus_model.g22656.t1
Valid prediction for snap_scaffold_14-snap.1133-T1
Valid prediction for snap_scaffold_14-snap.1147-T1
Valid prediction for snap_scaffold_14-snap.1140-T1
Valid prediction for Augustus_model.g22652.t1
Valid prediction for snap_scaffold_14-snap.1144-T1
Valid prediction for snap_scaffold_14-snap.1155-T1
Valid prediction for GlimmerHMM_glimmerT_33904-T1
Valid prediction for GlimmerHMM_glimmerT_33914-T1
Valid prediction for snap_scaffold_14-snap.1146-T1
Valid prediction for GlimmerHMM_glimmerT_33900-T1
Valid prediction for GlimmerHMM_glimmerT_33911-T1
Valid prediction for snap_scaffold_14-snap.1171-T1
Valid prediction for GlimmerHMM_glimmerT_33882-T1
Valid prediction for Augustus_model.g22654.t1
Valid prediction for snap_scaffold_14-snap.1131-T1
Valid prediction for CodingQuarry_transcript_15648-T1
Valid prediction for snap_scaffold_14-snap.1174-T1
Valid prediction for GlimmerHMM_glimmerT_33896-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14097, rend_intergenic: 6987  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23303, rend_intergenic: 19677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42012, rend_intergenic: 30273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55331, rend_intergenic: 47370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61569, rend_intergenic: 55401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89673, rend_intergenic: 83982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89783, rend_intergenic: 89676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118582, rend_intergenic: 90532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121680, rend_intergenic: 118659  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160735, rend_intergenic: 121845  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172858, rend_intergenic: 160887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186781, rend_intergenic: 186405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193224, rend_intergenic: 188426  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193908, rend_intergenic: 193296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195803, rend_intergenic: 193921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203286, rend_intergenic: 199045  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 228624, rend_intergenic: 203486  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231490, rend_intergenic: 228914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245288, rend_intergenic: 240597  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 261200, rend_intergenic: 249055  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 272050, rend_intergenic: 268498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 274573, rend_intergenic: 272406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 282308, rend_intergenic: 278821  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 288560
-exon list size: 551


building trellis

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-found 44 predictions from path traversal
Error with prediction: snap lend_intergenic: 14097, rend_intergenic: 6987  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23303, rend_intergenic: 19677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42012, rend_intergenic: 30273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55331, rend_intergenic: 47370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61569, rend_intergenic: 55401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89673, rend_intergenic: 83982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89783, rend_intergenic: 89676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118582, rend_intergenic: 90532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121680, rend_intergenic: 118659  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160735, rend_intergenic: 121845  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172858, rend_intergenic: 160887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186781, rend_intergenic: 186405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193224, rend_intergenic: 188426  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193908, rend_intergenic: 193296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195803, rend_intergenic: 193921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203286, rend_intergenic: 199045  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 228624, rend_intergenic: 203486  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231490, rend_intergenic: 228914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245288, rend_intergenic: 240597  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 261200, rend_intergenic: 249055  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 272050, rend_intergenic: 268498  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 274573, rend_intergenic: 272406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 282308, rend_intergenic: 278821  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support