-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_19/scaffold_19_7942059-8167300

-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.g29447.t1
Valid prediction for Augustus_model.g29465.t1
Valid prediction for snap_scaffold_19-snap.1545-T1
Valid prediction for Augustus_model.g29445.t1
Valid prediction for GlimmerHMM_glimmerT_44432-T1
Valid prediction for Augustus_model.g29453.t1
Valid prediction for Augustus_model.g29451.t1
Valid prediction for Augustus_model.g29450.t1
Valid prediction for Augustus_model.g29458.t1
Valid prediction for snap_scaffold_19-snap.1529-T1
Valid prediction for snap_scaffold_19-snap.1565-T1
Valid prediction for snap_scaffold_19-snap.1562-T1
Valid prediction for snap_scaffold_19-snap.1537-T1
Valid prediction for snap_scaffold_19-snap.1535-T1
Valid prediction for snap_scaffold_19-snap.1541-T1
Valid prediction for CodingQuarry_transcript_25718-T1
Valid prediction for snap_scaffold_19-snap.1550-T1
Valid prediction for snap_scaffold_19-snap.1556-T1
Valid prediction for snap_scaffold_19-snap.1551-T1
Valid prediction for GlimmerHMM_glimmerT_44411-T1
Valid prediction for snap_scaffold_19-snap.1530-T1
Valid prediction for GlimmerHMM_glimmerT_44414-T1
Valid prediction for Augustus_model.g29448.t1
Valid prediction for GlimmerHMM_glimmerT_44412-T1
Valid prediction for Augustus_model.g29457.t1
Valid prediction for snap_scaffold_19-snap.1553-T1
Valid prediction for snap_scaffold_19-snap.1559-T1
Valid prediction for snap_scaffold_19-snap.1543-T1
Valid prediction for GlimmerHMM_glimmerT_44419-T1
Valid prediction for GlimmerHMM_glimmerT_44423-T1
Valid prediction for Augustus_model.g29469.t1
Valid prediction for GlimmerHMM_glimmerT_44416-T1
Valid prediction for snap_scaffold_19-snap.1536-T1
Valid prediction for snap_scaffold_19-snap.1564-T1
Valid prediction for Augustus_model.g29468.t1
Valid prediction for GlimmerHMM_glimmerT_44425-T1
Valid prediction for HiQ_model.g29470.t1
Valid prediction for snap_scaffold_19-snap.1560-T1
Valid prediction for GlimmerHMM_glimmerT_44409-T1
Valid prediction for GlimmerHMM_glimmerT_44413-T1
Valid prediction for pasa_asmbl_21495.p1
Valid prediction for snap_scaffold_19-snap.1555-T1
Valid prediction for GlimmerHMM_glimmerT_44434-T1
Valid prediction for Augustus_model.g29467.t1
Valid prediction for Augustus_model.g29460.t1
Valid prediction for snap_scaffold_19-snap.1568-T1
Valid prediction for snap_scaffold_19-snap.1546-T1
Valid prediction for snap_scaffold_19-snap.1567-T1
Valid prediction for Augustus_model.g29454.t1
Valid prediction for snap_scaffold_19-snap.1554-T1
Valid prediction for snap_scaffold_19-snap.1526-T1
Valid prediction for snap_scaffold_19-snap.1566-T1
Valid prediction for GlimmerHMM_glimmerT_44408-T1
Valid prediction for snap_scaffold_19-snap.1527-T1
Valid prediction for Augustus_model.g29449.t1
Valid prediction for snap_scaffold_19-snap.1544-T1
Valid prediction for Augustus_model.g29456.t1
Valid prediction for snap_scaffold_19-snap.1532-T1
Valid prediction for GlimmerHMM_glimmerT_44427-T1
Valid prediction for Augustus_model.g29459.t1
Valid prediction for Augustus_model.g29463.t1
Valid prediction for GlimmerHMM_glimmerT_44433-T1
Valid prediction for snap_scaffold_19-snap.1533-T1
Valid prediction for GlimmerHMM_glimmerT_44426-T1
Valid prediction for GlimmerHMM_glimmerT_44420-T1
Valid prediction for GlimmerHMM_glimmerT_44430-T1
Valid prediction for snap_scaffold_19-snap.1547-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: -)Couldn't classify 86070, 86195
Sorry, prediction pasa_asmbl_22270.p1 fails validation.
(AAC)	 AC	86070-86195	GT	AGG
(GTG)	 AG	86345-86551	GT	AGG
(GGC)	 AG	86772-86888	GT	AGG
(ATG)	 AG	87110-87196	CC	AGC
-recovered pasa_asmbl_22270.p1, terminal, 87110, 87196
-recovered pasa_asmbl_22270.p1, internal, 86345, 86551
-recovered pasa_asmbl_22270.p1, internal, 86772, 86888
Valid prediction for GlimmerHMM_glimmerT_44410-T1
Valid prediction for CodingQuarry_transcript_25716-T1
Valid prediction for snap_scaffold_19-snap.1563-T1
Valid prediction for snap_scaffold_19-snap.1531-T1
Valid prediction for GlimmerHMM_glimmerT_44428-T1
Valid prediction for snap_scaffold_19-snap.1558-T1
Valid prediction for HiQ_model.g29466.t1
Valid prediction for GlimmerHMM_glimmerT_44429-T1
Valid prediction for Augustus_model.g29452.t1
Valid prediction for GlimmerHMM_glimmerT_44431-T1
Valid prediction for pasa_asmbl_22272.p1
Valid prediction for pasa_asmbl_22268.p1
Valid prediction for GlimmerHMM_glimmerT_44422-T1
Valid prediction for Augustus_model.g29446.t1
Valid prediction for GlimmerHMM_glimmerT_44415-T1
Valid prediction for GlimmerHMM_glimmerT_44421-T1
Valid prediction for GlimmerHMM_glimmerT_44424-T1
Valid prediction for snap_scaffold_19-snap.1561-T1
Valid prediction for pasa_asmbl_22276.p1
Valid prediction for GlimmerHMM_glimmerT_44435-T1
Valid prediction for snap_scaffold_19-snap.1552-T1
Valid prediction for GlimmerHMM_glimmerT_44417-T1
Valid prediction for snap_scaffold_19-snap.1538-T1
Valid prediction for snap_scaffold_19-snap.1569-T1
Valid prediction for GlimmerHMM_glimmerT_44418-T1
Valid prediction for Augustus_model.g29462.t1
Valid prediction for snap_scaffold_19-snap.1542-T1
Couldn't classify 53911, 53961
Sorry, prediction pasa_asmbl_22275.p1 fails validation.
(ATG)	 CC	52089-52101	GT	CGG
(GGG)	 AG	52586-52740	GT	AGG
(ATA)	 AG	52847-52946	GT	AGG
(GTA)	 AG	53043-53230	GT	AGG
(GGT)	 AG	53340-53462	GT	AGG
(ATC)	 AG	53564-53770	GT	AGG
(GTG)	 AG	53911-53961	AT	CGA
-recovered pasa_asmbl_22275.p1, initial, 52089, 52101
-recovered pasa_asmbl_22275.p1, internal, 52586, 52740
-recovered pasa_asmbl_22275.p1, internal, 52847, 52946
-recovered pasa_asmbl_22275.p1, internal, 53043, 53230
-recovered pasa_asmbl_22275.p1, internal, 53340, 53462
-recovered pasa_asmbl_22275.p1, internal, 53564, 53770
Valid prediction for snap_scaffold_19-snap.1528-T1
Valid prediction for HiQ_model.g29464.t1
Valid prediction for Augustus_model.g29461.t1
Valid prediction for snap_scaffold_19-snap.1570-T1
Valid prediction for snap_scaffold_19-snap.1539-T1
Valid prediction for snap_scaffold_19-snap.1534-T1
Valid prediction for snap_scaffold_19-snap.1548-T1
Valid prediction for Augustus_model.g29455.t1
Valid prediction for Augustus_model.g29471.t1
Valid prediction for snap_scaffold_19-snap.1557-T1
Couldn't classify 83557, 83633
Couldn't classify 85661, 85749
Sorry, prediction pasa_asmbl_22271.p1 fails validation.
(CCT)	 CC	83557-83633	GT	AGG
(CAT)	 AG	84769-84916	GT	GGG
(ATG)	 AG	85057-85294	GT	CGG
(GGC)	 AG	85431-85487	GT	TGG
(CAG)	 AG	85661-85749	GC	GGG
-recovered pasa_asmbl_22271.p1, initial, 85057, 85294
-recovered pasa_asmbl_22271.p1, internal, 84769, 84916
-recovered pasa_asmbl_22271.p1, internal, 85057, 85294
-recovered pasa_asmbl_22271.p1, internal, 85431, 85487
-recovered pasa_asmbl_22271.p1, internal, 85661, 85749
Valid prediction for CodingQuarry_transcript_25717-T1
Valid prediction for snap_scaffold_19-snap.1540-T1
Valid prediction for snap_scaffold_19-snap.1549-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 69110, rend_intergenic: 67807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97028, rend_intergenic: 95972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122566, rend_intergenic: 113572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130378, rend_intergenic: 127219  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155336, rend_intergenic: 141525  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158595, rend_intergenic: 157417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 225242
-exon list size: 466


building trellis

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-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 69110, rend_intergenic: 67807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97028, rend_intergenic: 95972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122566, rend_intergenic: 113572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130378, rend_intergenic: 127219  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155336, rend_intergenic: 141525  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158595, rend_intergenic: 157417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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