-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_25/scaffold_25_6298556-6481271

-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: +)Couldn't classify 172175, 172294
Couldn't classify 173719, 173861
Sorry, prediction pasa_asmbl_33632.p2 fails validation.
(CGG)	 CG	172175-172294	GT	AGG
(CGC)	 AG	172540-172660	GT	GGG
(ACT)	 AG	173719-173861	GT	GGG
-recovered pasa_asmbl_33632.p2, internal, 172540, 172660
-recovered pasa_asmbl_33632.p2, internal, 173719, 173861
Valid prediction for GlimmerHMM_glimmerT_54302-T1
Valid prediction for GlimmerHMM_glimmerT_54292-T1
Valid prediction for snap_scaffold_25-snap.1319-T1
Valid prediction for snap_scaffold_25-snap.1311-T1
Valid prediction for snap_scaffold_25-snap.1320-T1
Valid prediction for snap_scaffold_25-snap.1310-T1
Valid prediction for snap_scaffold_25-snap.1302-T1
Valid prediction for Augustus_model.g36038.t1
Valid prediction for GlimmerHMM_glimmerT_54294-T1
Valid prediction for snap_scaffold_25-snap.1323-T1
Valid prediction for Augustus_model.g36050.t1
Valid prediction for snap_scaffold_25-snap.1300-T1
Valid prediction for GlimmerHMM_glimmerT_54283-T1
Valid prediction for GlimmerHMM_glimmerT_54278-T1
Valid prediction for snap_scaffold_25-snap.1321-T1
Couldn't classify 167450, 167519
Couldn't classify 167896, 168176
Sorry, prediction pasa_asmbl_33874.p1 fails validation.
(TCT)	 AC	167450-167519	GT	TGG
(AGA)	 AG	167896-168176	CT	CCC
Valid prediction for snap_scaffold_25-snap.1326-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_25-snap.1299-T1
Valid prediction for Augustus_model.g36051.t1
Valid prediction for Augustus_model.g36046.t1
Valid prediction for snap_scaffold_25-snap.1312-T1
Valid prediction for snap_scaffold_25-snap.1295-T1
Couldn't classify 174220, 174274
Couldn't classify 181357, 181391
Sorry, prediction pasa_asmbl_33633.p1 fails validation.
(GGA)	 CA	174220-174274	GT	AGG
(ACT)	 AG	174819-174940	GT	CGG
(GCG)	 AG	175249-175336	GT	CGG
(GTC)	 AG	176605-176723	GT	AGG
(TTC)	 AG	176914-177078	GT	AGG
(CAC)	 AG	179402-179486	GT	AGG
(GTA)	 AG	181357-181391	CC	CGC
-recovered pasa_asmbl_33633.p1, internal, 174819, 174940
-recovered pasa_asmbl_33633.p1, internal, 175249, 175336
-recovered pasa_asmbl_33633.p1, internal, 176605, 176723
-recovered pasa_asmbl_33633.p1, internal, 176914, 177078
-recovered pasa_asmbl_33633.p1, internal, 179402, 179486
Valid prediction for snap_scaffold_25-snap.1307-T1
Valid prediction for GlimmerHMM_glimmerT_54296-T1
Valid prediction for GlimmerHMM_glimmerT_54287-T1
Valid prediction for snap_scaffold_25-snap.1294-T1
Valid prediction for snap_scaffold_25-snap.1301-T1
Valid prediction for pasa_asmbl_33629.p1
Valid prediction for snap_scaffold_25-snap.1309-T1
Valid prediction for snap_scaffold_25-snap.1331-T1
Valid prediction for GlimmerHMM_glimmerT_54301-T1
Valid prediction for GlimmerHMM_glimmerT_54288-T1
Valid prediction for GlimmerHMM_glimmerT_54286-T1
Valid prediction for snap_scaffold_25-snap.1315-T1
Valid prediction for CodingQuarry_transcript_38761-T1
Valid prediction for Augustus_model.g36043.t1
Valid prediction for GlimmerHMM_glimmerT_54300-T1
Valid prediction for snap_scaffold_25-snap.1298-T1
Valid prediction for GlimmerHMM_glimmerT_54275-T1
Valid prediction for GlimmerHMM_glimmerT_54279-T1
Valid prediction for GlimmerHMM_glimmerT_54282-T1
Couldn't classify 33489, 33508
Couldn't classify 34655, 34706
Sorry, prediction pasa_asmbl_33625.p1 fails validation.
(CTG)	 AC	33489-33508	GT	AAG
(GTT)	 AG	33702-33835	GT	AGG
(AGG)	 AG	34134-34211	GT	AGG
(GCC)	 AG	34339-34411	GT	ATG
(CTC)	 AG	34516-34539	GT	AGG
(TAC)	 AG	34655-34706	GT	TCG
-recovered pasa_asmbl_33625.p1, internal, 33702, 33835
-recovered pasa_asmbl_33625.p1, internal, 34134, 34211
-recovered pasa_asmbl_33625.p1, internal, 34339, 34411
-recovered pasa_asmbl_33625.p1, internal, 34516, 34539
-recovered pasa_asmbl_33625.p1, internal, 34655, 34706
Valid prediction for GlimmerHMM_glimmerT_54285-T1
Valid prediction for GlimmerHMM_glimmerT_54298-T1
Valid prediction for snap_scaffold_25-snap.1333-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for Augustus_model.g36042.t1
Valid prediction for Augustus_model.g36045.t1
Valid prediction for snap_scaffold_25-snap.1313-T1
Valid prediction for Augustus_model.g36040.t1
Valid prediction for Augustus_model.g36047.t1
Valid prediction for snap_scaffold_25-snap.1332-T1
Valid prediction for snap_scaffold_25-snap.1306-T1
Valid prediction for snap_scaffold_25-snap.1316-T1
Valid prediction for snap_scaffold_25-snap.1293-T1
Valid prediction for snap_scaffold_25-snap.1337-T1
Valid prediction for snap_scaffold_25-snap.1325-T1
Valid prediction for snap_scaffold_25-snap.1328-T1
Valid prediction for GlimmerHMM_glimmerT_54291-T1
Valid prediction for pasa_asmbl_33617.p1

-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 snap_scaffold_25-snap.1303-T1
Valid prediction for snap_scaffold_25-snap.1318-T1
Valid prediction for GlimmerHMM_glimmerT_54293-T1
Valid prediction for Augustus_model.g36044.t1
Valid prediction for GlimmerHMM_glimmerT_54299-T1
Valid prediction for snap_scaffold_25-snap.1296-T1
Valid prediction for GlimmerHMM_glimmerT_54290-T1
Valid prediction for GlimmerHMM_glimmerT_54289-T1
Valid prediction for GlimmerHMM_glimmerT_54297-T1
Valid prediction for GlimmerHMM_glimmerT_54277-T1
Valid prediction for snap_scaffold_25-snap.1297-T1
Valid prediction for CodingQuarry_transcript_38765-T1
Valid prediction for CodingQuarry_transcript_38764-T1
Valid prediction for HiQ_model.g36049.t1
Valid prediction for Augustus_model.g36039.t1
Valid prediction for snap_scaffold_25-snap.1335-T1
Valid prediction for GlimmerHMM_glimmerT_54295-T1
Valid prediction for GlimmerHMM_glimmerT_54276-T1
Valid prediction for snap_scaffold_25-snap.1324-T1
Valid prediction for snap_scaffold_25-snap.1329-T1
Valid prediction for GlimmerHMM_glimmerT_54284-T1
Valid prediction for snap_scaffold_25-snap.1334-T1
Valid prediction for Augustus_model.g36041.t1
Valid prediction for GlimmerHMM_glimmerT_54280-T1
Valid prediction for HiQ_model.g36037.t1
Valid prediction for Augustus_model.g36036.t1
Valid prediction for snap_scaffold_25-snap.1304-T1
Valid prediction for Augustus_model.g36048.t1
Valid prediction for snap_scaffold_25-snap.1336-T1
Valid prediction for snap_scaffold_25-snap.1327-T1
Valid prediction for snap_scaffold_25-snap.1317-T1
Valid prediction for pasa_asmbl_34356.p1
Valid prediction for snap_scaffold_25-snap.1308-T1
Valid prediction for pasa_asmbl_34363.p1
Couldn't classify 158891, 159193
Sorry, prediction pasa_asmbl_33623.p3 fails validation.
(TGC)	 CA	158891-159193	CG	AAC
Valid prediction for snap_scaffold_25-snap.1322-T1
Valid prediction for GlimmerHMM_glimmerT_54281-T1
Valid prediction for snap_scaffold_25-snap.1305-T1
Valid prediction for snap_scaffold_25-snap.1330-T1
Valid prediction for snap_scaffold_25-snap.1314-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 112437, rend_intergenic: 106913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130171, rend_intergenic: 127915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137949, rend_intergenic: 134638  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180209, rend_intergenic: 163275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 182716
-exon list size: 361


building trellis

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-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 112437, rend_intergenic: 106913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130171, rend_intergenic: 127915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137949, rend_intergenic: 134638  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180209, rend_intergenic: 163275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 29 predictions persist after filtering for low support