-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_26/scaffold_26_6638019-6770590

-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_26-snap.1518-T1
Valid prediction for snap_scaffold_26-snap.1537-T1
Couldn't classify 54107, 54261
Couldn't classify 60041, 60164
Sorry, prediction pasa_asmbl_35105.p1 fails validation.
(CAC)	 TG	54107-54261	GT	ACG
(GAT)	 AG	54643-54726	GT	AGG
(GTT)	 AG	55596-55644	GT	GCG
(GAC)	 AG	55811-55895	GT	GAG
(CCA)	 AG	56914-57069	GT	AGG
(TGT)	 AG	58034-58157	GT	AGG
(GGA)	 AG	60041-60164	GT	TGG
-recovered pasa_asmbl_35105.p1, internal, 54643, 54726
-recovered pasa_asmbl_35105.p1, internal, 55596, 55644
-recovered pasa_asmbl_35105.p1, internal, 55811, 55895
-recovered pasa_asmbl_35105.p1, internal, 56914, 57069
-recovered pasa_asmbl_35105.p1, internal, 58034, 58157
-recovered pasa_asmbl_35105.p1, internal, 60041, 60164
Valid prediction for GlimmerHMM_glimmerT_55929-T1
Valid prediction for Augustus_model.g37086.t1
Valid prediction for GlimmerHMM_glimmerT_55927-T1
Valid prediction for Augustus_model.g37084.t1
Valid prediction for pasa_asmbl_35108.p1
Valid prediction for snap_scaffold_26-snap.1547-T1
Valid prediction for snap_scaffold_26-snap.1535-T1
Valid prediction for CodingQuarry_transcript_40399-T1
Valid prediction for Augustus_model.g37083.t1
Valid prediction for snap_scaffold_26-snap.1538-T1
Couldn't classify 26233, 26264
Sorry, prediction pasa_asmbl_35101.p1 fails validation.
(ATG)	 AT	24933-24979	GT	AGG
(TGC)	 AG	25234-25616	GT	ATG
(TGC)	 AG	25703-25753	GT	TGG
(TGG)	 AG	25855-26151	GT	AGG
(ACT)	 AG	26233-26264	AC	CAA
-recovered pasa_asmbl_35101.p1, initial, 24933, 24979
-recovered pasa_asmbl_35101.p1, internal, 25234, 25616
-recovered pasa_asmbl_35101.p1, internal, 25703, 25753
-recovered pasa_asmbl_35101.p1, internal, 25855, 26151
Valid prediction for snap_scaffold_26-snap.1542-T1
Couldn't classify 15292, 15336
Sorry, prediction pasa_asmbl_35095.p1 fails validation.
(ATG)	 TA	14174-14289	GT	AGG
(GAT)	 AG	14416-14471	GT	AGG
(GAA)	 AG	14566-14602	GT	CTG
(GCC)	 AG	14697-14765	GT	AGG
(GAT)	 AG	14876-14932	GT	GAG
(AGC)	 AG	15128-15191	GT	AGG
(GAA)	 AG	15292-15336	AG	AGA
-recovered pasa_asmbl_35095.p1, initial, 14174, 14289
-recovered pasa_asmbl_35095.p1, internal, 14416, 14471
-recovered pasa_asmbl_35095.p1, internal, 14566, 14602
-recovered pasa_asmbl_35095.p1, internal, 14697, 14765
-recovered pasa_asmbl_35095.p1, internal, 14876, 14932
-recovered pasa_asmbl_35095.p1, internal, 15128, 15191
Valid prediction for Augustus_model.g37081.t1
Valid prediction for GlimmerHMM_glimmerT_55931-T1
Valid prediction for GlimmerHMM_glimmerT_55933-T1
Valid prediction for Augustus_model.g37071.t1
Valid prediction for GlimmerHMM_glimmerT_55924-T1
Valid prediction for Augustus_model.g37070.t1
Valid prediction for snap_scaffold_26-snap.1526-T1
Valid prediction for GlimmerHMM_glimmerT_55928-T1
Valid prediction for GlimmerHMM_glimmerT_55937-T1
Valid prediction for snap_scaffold_26-snap.1549-T1
Valid prediction for snap_scaffold_26-snap.1524-T1
Valid prediction for GlimmerHMM_glimmerT_55939-T1
Valid prediction for GlimmerHMM_glimmerT_55932-T1
Valid prediction for Augustus_model.g37078.t1
Valid prediction for snap_scaffold_26-snap.1519-T1
Valid prediction for CodingQuarry_transcript_40400-T1
Valid prediction for snap_scaffold_26-snap.1544-T1
Valid prediction for HiQ_model.g37074.t1
Valid prediction for Augustus_model.g37073.t1
Valid prediction for pasa_asmbl_35097.p1
Valid prediction for GlimmerHMM_glimmerT_55925-T1
Valid prediction for Augustus_model.g37077.t1
Valid prediction for GlimmerHMM_glimmerT_55941-T1
Valid prediction for GlimmerHMM_glimmerT_55934-T1
Valid prediction for Augustus_model.g37085.t1
Valid prediction for snap_scaffold_26-snap.1540-T1
Valid prediction for CodingQuarry_transcript_40398-T1
Valid prediction for CodingQuarry_transcript_40397-T1
Valid prediction for snap_scaffold_26-snap.1527-T1
Valid prediction for snap_scaffold_26-snap.1521-T1
Couldn't classify 79248, 79444
Sorry, prediction pasa_asmbl_35357.p1 fails validation.
(ATG)	 GG	77022-77153	GT	AGG
(GGT)	 AG	77466-77585	GT	AGG
(CTG)	 AG	78069-78221	GT	TGG
(TCT)	 AG	78478-78609	GT	AGG
(GTT)	 AG	78721-78874	GT	AGG
(ATG)	 AG	79248-79444	GG	CAG
-recovered pasa_asmbl_35357.p1, initial, 77022, 77153
-recovered pasa_asmbl_35357.p1, internal, 77466, 77585
-recovered pasa_asmbl_35357.p1, internal, 78069, 78221
-recovered pasa_asmbl_35357.p1, internal, 78478, 78609
-recovered pasa_asmbl_35357.p1, internal, 78721, 78874
Valid prediction for snap_scaffold_26-snap.1525-T1
Valid prediction for snap_scaffold_26-snap.1531-T1
Valid prediction for Augustus_model.g37075.t1
Valid prediction for snap_scaffold_26-snap.1522-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 snap_scaffold_26-snap.1534-T1
Valid prediction for snap_scaffold_26-snap.1529-T1
Valid prediction for Augustus_model.g37080.t1
Valid prediction for snap_scaffold_26-snap.1541-T1
Valid prediction for HiQ_model.g37079.t1
Valid prediction for pasa_asmbl_35698.p1
Valid prediction for Augustus_model.g37082.t1
Valid prediction for GlimmerHMM_glimmerT_55938-T1
Valid prediction for snap_scaffold_26-snap.1543-T1
Valid prediction for snap_scaffold_26-snap.1546-T1
Valid prediction for snap_scaffold_26-snap.1536-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for CodingQuarry_transcript_40396-T1
Valid prediction for GlimmerHMM_glimmerT_55930-T1
Valid prediction for GlimmerHMM_glimmerT_55940-T1
Valid prediction for GlimmerHMM_glimmerT_55936-T1
Valid prediction for snap_scaffold_26-snap.1530-T1
Valid prediction for snap_scaffold_26-snap.1548-T1
Valid prediction for Augustus_model.g37072.t1
Valid prediction for GlimmerHMM_glimmerT_55935-T1
Valid prediction for snap_scaffold_26-snap.1539-T1
Valid prediction for Augustus_model.g37076.t1
Valid prediction for GlimmerHMM_glimmerT_55926-T1
Valid prediction for snap_scaffold_26-snap.1520-T1
Valid prediction for snap_scaffold_26-snap.1550-T1
Valid prediction for snap_scaffold_26-snap.1532-T1
Valid prediction for snap_scaffold_26-snap.1528-T1
Valid prediction for snap_scaffold_26-snap.1523-T1
Couldn't classify 118942, 118979
Sorry, prediction pasa_asmbl_35691.p1 fails validation.
(TCT)	 CC	118942-118979	GT	AGG
(GAA)	 AG	119573-119663	GT	AGG
(GCT)	 AG	120178-120241	GT	TGG
(TCT)	 AG	120484-120695	GT	AGG
(CGT)	 AG	120885-120902	CA	GAC
-recovered pasa_asmbl_35691.p1, terminal, 120885, 120902
-recovered pasa_asmbl_35691.p1, internal, 119573, 119663
-recovered pasa_asmbl_35691.p1, internal, 120178, 120241
-recovered pasa_asmbl_35691.p1, internal, 120484, 120695
Valid prediction for snap_scaffold_26-snap.1545-T1
Valid prediction for snap_scaffold_26-snap.1533-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 23526, rend_intergenic: 17803  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50895, rend_intergenic: 35326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54711, rend_intergenic: 51082  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60527, rend_intergenic: 56756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75787, rend_intergenic: 68442  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80401, rend_intergenic: 77022  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89324, rend_intergenic: 85098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109117, rend_intergenic: 104985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109595, rend_intergenic: 109402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113052, rend_intergenic: 109725  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116323, rend_intergenic: 114492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119868, rend_intergenic: 117616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122524, rend_intergenic: 120344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126144, rend_intergenic: 124741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 132572
-exon list size: 399


building trellis

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99.3    
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-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 23526, rend_intergenic: 17803  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50895, rend_intergenic: 35326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54711, rend_intergenic: 51082  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60527, rend_intergenic: 56756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75787, rend_intergenic: 68442  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80401, rend_intergenic: 77022  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89324, rend_intergenic: 85098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109117, rend_intergenic: 104985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109595, rend_intergenic: 109402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113052, rend_intergenic: 109725  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116323, rend_intergenic: 114492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119868, rend_intergenic: 117616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122524, rend_intergenic: 120344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126144, rend_intergenic: 124741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support