-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_23/scaffold_23_8166793-8321426

-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 GlimmerHMM_glimmerT_51430-T1
Valid prediction for snap_scaffold_23-snap.1568-T1
Valid prediction for Augustus_model.g34411.t1
Valid prediction for Augustus_model.g34403.t1
Valid prediction for snap_scaffold_23-snap.1557-T1
Valid prediction for GlimmerHMM_glimmerT_51443-T1
Valid prediction for GlimmerHMM_glimmerT_51428-T1
Valid prediction for snap_scaffold_23-snap.1536-T1
Valid prediction for GlimmerHMM_glimmerT_51435-T1
Valid prediction for snap_scaffold_23-snap.1567-T1
Valid prediction for GlimmerHMM_glimmerT_51434-T1
Valid prediction for snap_scaffold_23-snap.1543-T1
Valid prediction for CodingQuarry_transcript_35761-T1
Valid prediction for snap_scaffold_23-snap.1560-T1
Valid prediction for snap_scaffold_23-snap.1559-T1
Valid prediction for snap_scaffold_23-snap.1552-T1
Valid prediction for GlimmerHMM_glimmerT_51425-T1
Valid prediction for Augustus_model.g34407.t1
Valid prediction for Augustus_model.g34409.t1
Valid prediction for snap_scaffold_23-snap.1542-T1
Valid prediction for Augustus_model.g34406.t1
Valid prediction for snap_scaffold_23-snap.1537-T1
Valid prediction for Augustus_model.g34404.t1
Valid prediction for pasa_asmbl_31762.p1
Valid prediction for GlimmerHMM_glimmerT_51437-T1
Valid prediction for GlimmerHMM_glimmerT_51426-T1
Valid prediction for GlimmerHMM_glimmerT_51427-T1
Valid prediction for snap_scaffold_23-snap.1566-T1
Valid prediction for snap_scaffold_23-snap.1548-T1
Valid prediction for snap_scaffold_23-snap.1534-T1
Valid prediction for CodingQuarry_transcript_35762-T1
Valid prediction for snap_scaffold_23-snap.1562-T1
Couldn't classify 32180, 32228
Sorry, prediction pasa_asmbl_31766.p1 fails validation.
(ACT)	 CG	32180-32228	GT	CGG
(GTC)	 AG	33190-33310	GT	AAG
(GTA)	 AG	33526-33693	GT	AGG
(TCT)	 AG	33958-34195	GT	GGG
(AAG)	 AG	34540-34673	GT	AAG
(GAC)	 AG	34807-34906	GT	AGG
(GAC)	 AG	35879-35941	GT	AGG
(TTA)	 AG	37099-37163	GT	AGG
(CGG)	 AG	37272-37352	GT	GCG
(GAC)	 AG	37690-37822	GT	AGG
(AAG)	 AG	38191-38290	GT	CGG
(GCC)	 AG	39092-39334	GT	AGG
(CCG)	 AG	41543-41712	GT	TGG
(GTC)	 AG	42089-42260	GT	GGG
(GTT)	 AG	42397-42457	GT	AGG
(GTT)	 AG	42918-43000	GT	AGG
(GCA)	 AG	43237-43535	GA	GAG
-recovered pasa_asmbl_31766.p1, terminal, 33190, 33310
-recovered pasa_asmbl_31766.p1, terminal, 39092, 39334
-recovered pasa_asmbl_31766.p1, terminal, 43237, 43535
-recovered pasa_asmbl_31766.p1, internal, 33190, 33310
-recovered pasa_asmbl_31766.p1, internal, 33526, 33693
-recovered pasa_asmbl_31766.p1, internal, 33958, 34195
-recovered pasa_asmbl_31766.p1, internal, 34540, 34673
-recovered pasa_asmbl_31766.p1, internal, 34807, 34906
-recovered pasa_asmbl_31766.p1, internal, 35879, 35941
-recovered pasa_asmbl_31766.p1, internal, 37099, 37163
-recovered pasa_asmbl_31766.p1, internal, 37272, 37352
-recovered pasa_asmbl_31766.p1, internal, 37690, 37822
-recovered pasa_asmbl_31766.p1, internal, 38191, 38290
-recovered pasa_asmbl_31766.p1, internal, 39092, 39334
-recovered pasa_asmbl_31766.p1, internal, 41543, 41712
-recovered pasa_asmbl_31766.p1, internal, 42089, 42260
-recovered pasa_asmbl_31766.p1, internal, 42397, 42457
-recovered pasa_asmbl_31766.p1, internal, 42918, 43000
Valid prediction for GlimmerHMM_glimmerT_51447-T1
Valid prediction for snap_scaffold_23-snap.1561-T1
Valid prediction for snap_scaffold_23-snap.1556-T1
Valid prediction for snap_scaffold_23-snap.1538-T1
Valid prediction for snap_scaffold_23-snap.1553-T1
Valid prediction for CodingQuarry_transcript_35759-T1
Valid prediction for GlimmerHMM_glimmerT_51433-T1
Valid prediction for GlimmerHMM_glimmerT_51429-T1
Valid prediction for snap_scaffold_23-snap.1535-T1
Valid prediction for snap_scaffold_23-snap.1550-T1
Valid prediction for snap_scaffold_23-snap.1532-T1
Valid prediction for GlimmerHMM_glimmerT_51424-T1
Valid prediction for snap_scaffold_23-snap.1547-T1
Valid prediction for HiQ_model.g34405.t1
Valid prediction for snap_scaffold_23-snap.1551-T1
Valid prediction for snap_scaffold_23-snap.1545-T1
Valid prediction for CodingQuarry_transcript_35760-T1
Valid prediction for snap_scaffold_23-snap.1544-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 Augustus_model.g34413.t1
Valid prediction for snap_scaffold_23-snap.1554-T1
Valid prediction for GlimmerHMM_glimmerT_51442-T1
Valid prediction for GlimmerHMM_glimmerT_51439-T1
Valid prediction for snap_scaffold_23-snap.1539-T1
Valid prediction for snap_scaffold_23-snap.1541-T1
Valid prediction for snap_scaffold_23-snap.1531-T1
Valid prediction for Augustus_model.g34415.t1
Valid prediction for GlimmerHMM_glimmerT_51432-T1
Valid prediction for Augustus_model.g34412.t1
Valid prediction for GlimmerHMM_glimmerT_51448-T1
Valid prediction for snap_scaffold_23-snap.1533-T1
Valid prediction for Augustus_model.g34414.t1
Valid prediction for Augustus_model.g34408.t1
Valid prediction for snap_scaffold_23-snap.1570-T1
Valid prediction for Augustus_model.g34410.t1
Valid prediction for snap_scaffold_23-snap.1549-T1
Valid prediction for GlimmerHMM_glimmerT_51445-T1
Valid prediction for GlimmerHMM_glimmerT_51446-T1
Valid prediction for Augustus_model.g34402.t1
Valid prediction for Augustus_model.g34416.t1
Valid prediction for snap_scaffold_23-snap.1563-T1
Valid prediction for GlimmerHMM_glimmerT_51440-T1
Valid prediction for Augustus_model.g34417.t1
Valid prediction for GlimmerHMM_glimmerT_51441-T1
Valid prediction for snap_scaffold_23-snap.1565-T1
Valid prediction for GlimmerHMM_glimmerT_51423-T1
Valid prediction for snap_scaffold_23-snap.1546-T1
Valid prediction for snap_scaffold_23-snap.1564-T1
Valid prediction for snap_scaffold_23-snap.1540-T1
Valid prediction for snap_scaffold_23-snap.1555-T1
Valid prediction for GlimmerHMM_glimmerT_51438-T1
Couldn't classify 34927, 35087
Couldn't classify 35293, 35467
Sorry, prediction pasa_asmbl_31219.p2 fails validation.
(GTG)	 CA	34927-35087	GT	TTG
(TAT)	 AG	35293-35467	GA	ACG
Valid prediction for snap_scaffold_23-snap.1569-T1
Valid prediction for GlimmerHMM_glimmerT_51436-T1
Valid prediction for GlimmerHMM_glimmerT_51444-T1
Valid prediction for snap_scaffold_23-snap.1558-T1
Valid prediction for GlimmerHMM_glimmerT_51431-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5163, rend_intergenic: 3696  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 8363, rend_intergenic: 6455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38310, rend_intergenic: 26825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38416, rend_intergenic: 38310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58899, rend_intergenic: 57020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67723, rend_intergenic: 64991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95494, rend_intergenic: 90681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113143, rend_intergenic: 101017  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142956, rend_intergenic: 124945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148337, rend_intergenic: 143149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 154634
-exon list size: 447


building trellis

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-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 5163, rend_intergenic: 3696  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 8363, rend_intergenic: 6455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38310, rend_intergenic: 26825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38416, rend_intergenic: 38310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58899, rend_intergenic: 57020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67723, rend_intergenic: 64991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95494, rend_intergenic: 90681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113143, rend_intergenic: 101017  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142956, rend_intergenic: 124945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148337, rend_intergenic: 143149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support