-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_1453537-1664689

-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_17-snap.343-T1
Valid prediction for snap_scaffold_17-snap.329-T1
Valid prediction for snap_scaffold_17-snap.312-T1
Valid prediction for GlimmerHMM_glimmerT_39768-T1
Valid prediction for Augustus_model.g26500.t1
Valid prediction for Augustus_model.g26480.t1
Valid prediction for snap_scaffold_17-snap.300-T1
Valid prediction for GlimmerHMM_glimmerT_39774-T1
Valid prediction for snap_scaffold_17-snap.296-T1
Valid prediction for GlimmerHMM_glimmerT_39777-T1
Valid prediction for Augustus_model.g26497.t1
Couldn't classify 148363, 148548
Couldn't classify 149828, 150451
Sorry, prediction pasa_asmbl_18617.p1 fails validation.
(ACA)	 GT	148363-148548	GT	AGG
(GTG)	 AG	148799-149268	GT	AGG
(GTC)	 AG	149413-149545	GT	AGG
(GCG)	 AG	149828-150451	CT	AGC
-recovered pasa_asmbl_18617.p1, internal, 148799, 149268
-recovered pasa_asmbl_18617.p1, internal, 149413, 149545
Valid prediction for GlimmerHMM_glimmerT_39776-T1
Couldn't classify 147780, 148166
Sorry, prediction pasa_asmbl_18616.p1 fails validation.
(TGT)	 TG	147780-148166	GA	CCG
Valid prediction for snap_scaffold_17-snap.316-T1
Valid prediction for snap_scaffold_17-snap.302-T1
Valid prediction for GlimmerHMM_glimmerT_39769-T1
Valid prediction for CodingQuarry_transcript_21860-T1
Valid prediction for snap_scaffold_17-snap.339-T1
Valid prediction for Augustus_model.g26489.t1
Valid prediction for snap_scaffold_17-snap.307-T1
Valid prediction for snap_scaffold_17-snap.304-T1
Valid prediction for snap_scaffold_17-snap.294-T1
Valid prediction for Augustus_model.g26498.t1
Valid prediction for GlimmerHMM_glimmerT_39763-T1
Valid prediction for snap_scaffold_17-snap.337-T1
Valid prediction for GlimmerHMM_glimmerT_39782-T1
Valid prediction for snap_scaffold_17-snap.326-T1
Valid prediction for snap_scaffold_17-snap.328-T1
Valid prediction for pasa_asmbl_18613.p1
Valid prediction for snap_scaffold_17-snap.313-T1
Valid prediction for snap_scaffold_17-snap.323-T1
Valid prediction for snap_scaffold_17-snap.317-T1
Valid prediction for snap_scaffold_17-snap.311-T1
Valid prediction for snap_scaffold_17-snap.333-T1
Valid prediction for Augustus_model.g26488.t1
Valid prediction for snap_scaffold_17-snap.340-T1
Valid prediction for GlimmerHMM_glimmerT_39759-T1
Valid prediction for pasa_asmbl_18611.p1
Valid prediction for snap_scaffold_17-snap.335-T1
Valid prediction for Augustus_model.g26485.t1
Valid prediction for GlimmerHMM_glimmerT_39765-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_39785-T1
Valid prediction for Augustus_model.g26494.t1
Valid prediction for snap_scaffold_17-snap.321-T1
Valid prediction for GlimmerHMM_glimmerT_39772-T1
Valid prediction for GlimmerHMM_glimmerT_39773-T1
Valid prediction for snap_scaffold_17-snap.319-T1
Valid prediction for Augustus_model.g26504.t1
Valid prediction for GlimmerHMM_glimmerT_39775-T1
Valid prediction for Augustus_model.g26501.t1
Valid prediction for snap_scaffold_17-snap.308-T1
Valid prediction for snap_scaffold_17-snap.345-T1
Valid prediction for snap_scaffold_17-snap.341-T1
Valid prediction for Augustus_model.g26499.t1
Valid prediction for CodingQuarry_transcript_21864-T1
Valid prediction for GlimmerHMM_glimmerT_39758-T1
Valid prediction for HiQ_model.g26487.t1
Valid prediction for snap_scaffold_17-snap.303-T1
Valid prediction for CodingQuarry_transcript_21861-T1
Valid prediction for GlimmerHMM_glimmerT_39771-T1
Valid prediction for snap_scaffold_17-snap.327-T1
Valid prediction for snap_scaffold_17-snap.342-T1
Valid prediction for GlimmerHMM_glimmerT_39787-T1
Valid prediction for snap_scaffold_17-snap.301-T1
Valid prediction for GlimmerHMM_glimmerT_39764-T1
Valid prediction for snap_scaffold_17-snap.305-T1
Valid prediction for Augustus_model.g26481.t1
Valid prediction for snap_scaffold_17-snap.298-T1
Valid prediction for snap_scaffold_17-snap.295-T1
Valid prediction for snap_scaffold_17-snap.310-T1
Valid prediction for snap_scaffold_17-snap.330-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_39760-T1
Valid prediction for Augustus_model.g26492.t1
Valid prediction for GlimmerHMM_glimmerT_39786-T1
Valid prediction for Augustus_model.g26503.t1
Couldn't classify 131669, 131695
Sorry, prediction pasa_asmbl_18461.p1 fails validation.
(CTT)	 AC	131669-131695	GT	AGG
(ATC)	 AG	133306-133431	GT	AGG
(CTG)	 AG	134041-134193	GT	AGG
(ATG)	 AG	134397-134492	GT	AGG
(GTA)	 AG	134974-135047	GT	GGG
(GGG)	 AG	135138-135273	GA	AGG
-recovered pasa_asmbl_18461.p1, initial, 134397, 134492
-recovered pasa_asmbl_18461.p1, terminal, 135138, 135273
-recovered pasa_asmbl_18461.p1, internal, 133306, 133431
-recovered pasa_asmbl_18461.p1, internal, 134041, 134193
-recovered pasa_asmbl_18461.p1, internal, 134397, 134492
-recovered pasa_asmbl_18461.p1, internal, 134974, 135047
Couldn't classify 151130, 151188
Sorry, prediction pasa_asmbl_17719.p1 fails validation.
(TTC)	 GA	151130-151188	GT	AGG
(TCC)	 AG	151700-151776	GT	AGG
(CGT)	 AG	151887-152019	GT	AGG
(GGT)	 AG	152160-152282	GT	GGG
(GGG)	 AG	152448-152529	GT	CTG
(GGG)	 AG	152651-152724	GT	AGG
(GTA)	 AG	152821-152878	GT	AGG
(GAG)	 AG	153414-153530	CC	GAC
-recovered pasa_asmbl_17719.p1, terminal, 153414, 153530
-recovered pasa_asmbl_17719.p1, internal, 151700, 151776
-recovered pasa_asmbl_17719.p1, internal, 151887, 152019
-recovered pasa_asmbl_17719.p1, internal, 152160, 152282
-recovered pasa_asmbl_17719.p1, internal, 152448, 152529
-recovered pasa_asmbl_17719.p1, internal, 152651, 152724
-recovered pasa_asmbl_17719.p1, internal, 152821, 152878
Valid prediction for Augustus_model.g26484.t1
Valid prediction for Augustus_model.g26490.t1
Valid prediction for GlimmerHMM_glimmerT_39770-T1
Valid prediction for Augustus_model.g26483.t1
Valid prediction for snap_scaffold_17-snap.315-T1
Valid prediction for Augustus_model.g26479.t1
Valid prediction for snap_scaffold_17-snap.306-T1
Valid prediction for snap_scaffold_17-snap.322-T1
Valid prediction for GlimmerHMM_glimmerT_39762-T1
Valid prediction for Augustus_model.g26482.t1
Valid prediction for Augustus_model.g26496.t1
Valid prediction for snap_scaffold_17-snap.331-T1
Valid prediction for Augustus_model.g26502.t1
Valid prediction for Augustus_model.g26493.t1
Valid prediction for Augustus_model.g26495.t1
Valid prediction for snap_scaffold_17-snap.336-T1
Valid prediction for snap_scaffold_17-snap.338-T1
Valid prediction for snap_scaffold_17-snap.299-T1
Valid prediction for GlimmerHMM_glimmerT_39780-T1
Valid prediction for snap_scaffold_17-snap.332-T1
Valid prediction for snap_scaffold_17-snap.318-T1
Valid prediction for GlimmerHMM_glimmerT_39767-T1
Valid prediction for snap_scaffold_17-snap.320-T1
Valid prediction for snap_scaffold_17-snap.324-T1
Valid prediction for GlimmerHMM_glimmerT_39766-T1
Couldn't classify 148288, 148398
Sorry, prediction pasa_asmbl_17724.p1 fails validation.
(ATG)	 TC	142627-142686	GT	CTG
(CTT)	 AG	144183-144272	GT	GAG
(ATC)	 AG	144374-144535	GT	AGG
(GGC)	 AG	145606-145749	GT	AGG
(CTG)	 AG	146044-146208	GT	GGG
(TCC)	 AG	146334-146482	GT	GGG
(GGG)	 AG	146666-146790	GT	AGG
(GTA)	 AG	146893-147061	GT	CGG
(GGG)	 AG	147180-147375	GT	AGG
(GTG)	 AG	147518-147692	GT	AGG
(GAG)	 AG	147956-148074	GT	AGG
(ACC)	 AG	148288-148398	GG	GAG
-recovered pasa_asmbl_17724.p1, initial, 142627, 142686
-recovered pasa_asmbl_17724.p1, internal, 144183, 144272
-recovered pasa_asmbl_17724.p1, internal, 144374, 144535
-recovered pasa_asmbl_17724.p1, internal, 145606, 145749
-recovered pasa_asmbl_17724.p1, internal, 146044, 146208
-recovered pasa_asmbl_17724.p1, internal, 146334, 146482
-recovered pasa_asmbl_17724.p1, internal, 146666, 146790
-recovered pasa_asmbl_17724.p1, internal, 146893, 147061
-recovered pasa_asmbl_17724.p1, internal, 147180, 147375
-recovered pasa_asmbl_17724.p1, internal, 147518, 147692
-recovered pasa_asmbl_17724.p1, internal, 147956, 148074
Valid prediction for snap_scaffold_17-snap.325-T1
Valid prediction for GlimmerHMM_glimmerT_39783-T1
Valid prediction for snap_scaffold_17-snap.297-T1
Valid prediction for snap_scaffold_17-snap.334-T1
Valid prediction for HiQ_model.g26486.t1
Valid prediction for GlimmerHMM_glimmerT_39781-T1
Valid prediction for GlimmerHMM_glimmerT_39784-T1
Valid prediction for GlimmerHMM_glimmerT_39778-T1
Valid prediction for GlimmerHMM_glimmerT_39761-T1
Valid prediction for Augustus_model.g26491.t1
Valid prediction for snap_scaffold_17-snap.309-T1
Valid prediction for snap_scaffold_17-snap.344-T1
Valid prediction for GlimmerHMM_glimmerT_39779-T1
Valid prediction for snap_scaffold_17-snap.314-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5141, rend_intergenic: 2405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14089, rend_intergenic: 11789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32322, rend_intergenic: 25351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40590, rend_intergenic: 33739  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44241, rend_intergenic: 41982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46081, rend_intergenic: 45075  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47971, rend_intergenic: 46913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95811, rend_intergenic: 83209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104295, rend_intergenic: 97708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119488, rend_intergenic: 114157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122232, rend_intergenic: 119553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130421, rend_intergenic: 125757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137138, rend_intergenic: 132447  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151759, rend_intergenic: 145381  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163648, rend_intergenic: 162586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165078, rend_intergenic: 164978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172681, rend_intergenic: 165881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182252, rend_intergenic: 175641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185810, rend_intergenic: 182925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189768, rend_intergenic: 187633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199155, rend_intergenic: 190346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 211153
-exon list size: 452


building trellis

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-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 5141, rend_intergenic: 2405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14089, rend_intergenic: 11789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32322, rend_intergenic: 25351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40590, rend_intergenic: 33739  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44241, rend_intergenic: 41982  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46081, rend_intergenic: 45075  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47971, rend_intergenic: 46913  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95811, rend_intergenic: 83209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104295, rend_intergenic: 97708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119488, rend_intergenic: 114157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122232, rend_intergenic: 119553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130421, rend_intergenic: 125757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137138, rend_intergenic: 132447  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151759, rend_intergenic: 145381  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163648, rend_intergenic: 162586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165078, rend_intergenic: 164978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172681, rend_intergenic: 165881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182252, rend_intergenic: 175641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 185810, rend_intergenic: 182925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189768, rend_intergenic: 187633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199155, rend_intergenic: 190346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 28 predictions persist after filtering for low support