-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_8069040-8226745

-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_22-snap.1617-T1
Valid prediction for snap_scaffold_22-snap.1648-T1
Valid prediction for GlimmerHMM_glimmerT_49861-T1
Valid prediction for snap_scaffold_22-snap.1630-T1
Valid prediction for GlimmerHMM_glimmerT_49847-T1
Valid prediction for Augustus_model.g33259.t1
Valid prediction for snap_scaffold_22-snap.1632-T1
Valid prediction for pasa_asmbl_30259.p1
Valid prediction for snap_scaffold_22-snap.1623-T1
Valid prediction for GlimmerHMM_glimmerT_49858-T1
Valid prediction for Augustus_model.g33257.t1
Valid prediction for snap_scaffold_22-snap.1613-T1
Valid prediction for Augustus_model.g33265.t1
Valid prediction for snap_scaffold_22-snap.1616-T1
Valid prediction for snap_scaffold_22-snap.1646-T1
Valid prediction for GlimmerHMM_glimmerT_49857-T1
Valid prediction for GlimmerHMM_glimmerT_49846-T1
Valid prediction for snap_scaffold_22-snap.1618-T1
Valid prediction for snap_scaffold_22-snap.1615-T1
Valid prediction for snap_scaffold_22-snap.1626-T1
Valid prediction for GlimmerHMM_glimmerT_49851-T1
Couldn't classify 4297, 4372
Sorry, prediction pasa_asmbl_30258.p1 fails validation.
(GTC)	 TT	4297-4372	GT	AAG
(ATG)	 AG	4994-5559	CA	GAC
-recovered pasa_asmbl_30258.p1, terminal, 4994, 5559
Valid prediction for GlimmerHMM_glimmerT_49853-T1
Valid prediction for snap_scaffold_22-snap.1638-T1
Valid prediction for snap_scaffold_22-snap.1639-T1
Valid prediction for snap_scaffold_22-snap.1642-T1
Valid prediction for snap_scaffold_22-snap.1619-T1
Valid prediction for HiQ_model.g33263.t1
Valid prediction for CodingQuarry_transcript_34235-T1
Valid prediction for Augustus_model.g33262.t1
Valid prediction for snap_scaffold_22-snap.1635-T1
Couldn't classify 94251, 94389
Sorry, prediction pasa_asmbl_30264.p1 fails validation.
(TCT)	 TG	94251-94389	GT	GGG
(ATA)	 AG	94821-94976	GT	AGG
(ACA)	 AG	95582-95646	GG	GAG
-recovered pasa_asmbl_30264.p1, terminal, 95582, 95646
-recovered pasa_asmbl_30264.p1, internal, 94821, 94976
Valid prediction for snap_scaffold_22-snap.1645-T1
Valid prediction for GlimmerHMM_glimmerT_49849-T1
Valid prediction for snap_scaffold_22-snap.1650-T1
Valid prediction for GlimmerHMM_glimmerT_49864-T1
Valid prediction for HiQ_model.g33256.t1
Valid prediction for snap_scaffold_22-snap.1625-T1
Valid prediction for GlimmerHMM_glimmerT_49850-T1
Valid prediction for snap_scaffold_22-snap.1622-T1
Valid prediction for GlimmerHMM_glimmerT_49859-T1
Valid prediction for GlimmerHMM_glimmerT_49862-T1
Valid prediction for snap_scaffold_22-snap.1628-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_22-snap.1624-T1
Couldn't classify 33851, 33900
Sorry, prediction pasa_asmbl_29458.p1 fails validation.
(ATG)	 CT	29966-30031	GT	AGG
(AAA)	 AG	31151-31243	GT	AGG
(ACC)	 AG	31575-31745	GT	AGG
(AAC)	 AG	32013-32165	GT	AGG
(GTG)	 AG	32441-32587	GT	AGG
(AAG)	 AG	32991-33142	GT	AGG
(CGA)	 AG	33429-33601	GT	CGG
(GGG)	 AG	33851-33900	GA	AGG
-recovered pasa_asmbl_29458.p1, initial, 29966, 30031
-recovered pasa_asmbl_29458.p1, internal, 31151, 31243
-recovered pasa_asmbl_29458.p1, internal, 31575, 31745
-recovered pasa_asmbl_29458.p1, internal, 32013, 32165
-recovered pasa_asmbl_29458.p1, internal, 32441, 32587
-recovered pasa_asmbl_29458.p1, internal, 32991, 33142
-recovered pasa_asmbl_29458.p1, internal, 33429, 33601
Valid prediction for GlimmerHMM_glimmerT_49871-T1
Valid prediction for GlimmerHMM_glimmerT_49848-T1
Valid prediction for snap_scaffold_22-snap.1634-T1
Valid prediction for Augustus_model.g33266.t1
Valid prediction for GlimmerHMM_glimmerT_49867-T1
Valid prediction for GlimmerHMM_glimmerT_49872-T1
Valid prediction for snap_scaffold_22-snap.1621-T1
Valid prediction for snap_scaffold_22-snap.1644-T1
Valid prediction for snap_scaffold_22-snap.1637-T1
Valid prediction for GlimmerHMM_glimmerT_49854-T1
Valid prediction for Augustus_model.g33260.t1
Valid prediction for HiQ_model.g33267.t1
Valid prediction for snap_scaffold_22-snap.1640-T1
Valid prediction for Augustus_model.g33261.t1
Valid prediction for snap_scaffold_22-snap.1629-T1
Valid prediction for GlimmerHMM_glimmerT_49860-T1
Valid prediction for snap_scaffold_22-snap.1643-T1
Couldn't classify 54180, 54372
Sorry, prediction pasa_asmbl_29454.p2 fails validation.
(GTT)	 GT	54180-54372	GT	ATG
(GTC)	 AG	54500-54723	TA	AAT
-recovered pasa_asmbl_29454.p2, terminal, 54500, 54723
Valid prediction for GlimmerHMM_glimmerT_49852-T1
Valid prediction for HiQ_model.g33264.t1
Valid prediction for Augustus_model.g33269.t1
Valid prediction for GlimmerHMM_glimmerT_49865-T1
Valid prediction for GlimmerHMM_glimmerT_49855-T1
Valid prediction for snap_scaffold_22-snap.1614-T1
Valid prediction for snap_scaffold_22-snap.1636-T1
Valid prediction for Augustus_model.g33258.t1
Valid prediction for Augustus_model.g33271.t1
Valid prediction for Augustus_model.g33268.t1
Couldn't classify 121257, 121314
Sorry, prediction pasa_asmbl_29450.p1 fails validation.
(GAC)	 GG	121257-121314	GT	GGG
(GTC)	 AG	121899-121999	GT	ACG
(GTG)	 AG	122210-122321	GT	TCG
(ACT)	 AG	122429-122502	GT	AGG
(ATT)	 AG	122689-122819	GT	AGG
(GCC)	 AG	123731-123776	GT	GGG
(GAG)	 AG	124093-124147	GT	AGG
(ATG)	 AG	124411-124511	GT	TGG
(CTC)	 AG	124720-124794	GT	ACG
(GCC)	 AG	126259-126543	AT	AAA
-recovered pasa_asmbl_29450.p1, initial, 124411, 124511
-recovered pasa_asmbl_29450.p1, terminal, 126259, 126543
-recovered pasa_asmbl_29450.p1, internal, 121899, 121999
-recovered pasa_asmbl_29450.p1, internal, 122210, 122321
-recovered pasa_asmbl_29450.p1, internal, 122429, 122502
-recovered pasa_asmbl_29450.p1, internal, 122689, 122819
-recovered pasa_asmbl_29450.p1, internal, 123731, 123776
-recovered pasa_asmbl_29450.p1, internal, 124093, 124147
-recovered pasa_asmbl_29450.p1, internal, 124411, 124511
-recovered pasa_asmbl_29450.p1, internal, 124720, 124794
Valid prediction for snap_scaffold_22-snap.1631-T1
Valid prediction for snap_scaffold_22-snap.1620-T1
Valid prediction for GlimmerHMM_glimmerT_49870-T1
Valid prediction for snap_scaffold_22-snap.1649-T1
Couldn't classify 26858, 27199
Sorry, prediction pasa_asmbl_29732.p1 fails validation.
(GGG)	 AA	26858-27199	GT	GGG
(ATG)	 AG	27338-27498	GT	AGG
(GGA)	 AG	27822-27879	GG	AAG
-recovered pasa_asmbl_29732.p1, initial, 27338, 27498
-recovered pasa_asmbl_29732.p1, terminal, 27822, 27879
-recovered pasa_asmbl_29732.p1, internal, 27338, 27498
Valid prediction for GlimmerHMM_glimmerT_49863-T1
Valid prediction for snap_scaffold_22-snap.1633-T1
Valid prediction for GlimmerHMM_glimmerT_49868-T1
Valid prediction for Augustus_model.g33270.t1
Valid prediction for GlimmerHMM_glimmerT_49869-T1
Valid prediction for snap_scaffold_22-snap.1651-T1
Valid prediction for snap_scaffold_22-snap.1647-T1
Valid prediction for snap_scaffold_22-snap.1641-T1
Valid prediction for GlimmerHMM_glimmerT_49866-T1
Couldn't classify 131058, 131322
Sorry, prediction pasa_asmbl_29449.p1 fails validation.
(TTA)	 AG	131058-131322	GT	AGG
(AGA)	 AG	131443-131571	GT	AGG
(GCA)	 AG	131791-132071	GG	AGG
-recovered pasa_asmbl_29449.p1, terminal, 131791, 132071
-recovered pasa_asmbl_29449.p1, internal, 131058, 131322
-recovered pasa_asmbl_29449.p1, internal, 131443, 131571
Couldn't classify 33937, 33971
Sorry, prediction pasa_asmbl_29455.p1 fails validation.
(AGA)	 CC	33937-33971	GT	GGG
(GTT)	 AG	34120-34193	GT	GGG
(GCA)	 AG	34510-34622	GT	AGG
(GAT)	 AG	34819-34884	GT	AGG
(AAC)	 AG	34989-35087	GT	GGG
(AAC)	 AG	36731-36846	GT	AAG
(GGC)	 AG	37011-37164	GT	AGG
(AAC)	 AG	37359-37486	GT	ATG
(CAC)	 AG	37718-37980	GT	TGG
(GTT)	 AG	38526-38644	GT	AGG
(AAC)	 AG	38884-39122	GT	GGG
(GTT)	 AG	39439-39514	GT	GGG
(CCT)	 AG	39624-39793	GT	AAG
(CTC)	 AG	39895-40024	GT	AGG
(GGG)	 AG	40313-40439	GT	AAG
(ACT)	 AG	40534-40608	GT	AGG
(CTG)	 AG	41039-41145	GC	AAG
-recovered pasa_asmbl_29455.p1, terminal, 41039, 41145
-recovered pasa_asmbl_29455.p1, internal, 34120, 34193
-recovered pasa_asmbl_29455.p1, internal, 34510, 34622
-recovered pasa_asmbl_29455.p1, internal, 34819, 34884
-recovered pasa_asmbl_29455.p1, internal, 34989, 35087
-recovered pasa_asmbl_29455.p1, internal, 36731, 36846
-recovered pasa_asmbl_29455.p1, internal, 37011, 37164
-recovered pasa_asmbl_29455.p1, internal, 37359, 37486
-recovered pasa_asmbl_29455.p1, internal, 37718, 37980
-recovered pasa_asmbl_29455.p1, internal, 38526, 38644
-recovered pasa_asmbl_29455.p1, internal, 38884, 39122
-recovered pasa_asmbl_29455.p1, internal, 39439, 39514
-recovered pasa_asmbl_29455.p1, internal, 39624, 39793
-recovered pasa_asmbl_29455.p1, internal, 39895, 40024
-recovered pasa_asmbl_29455.p1, internal, 40313, 40439
-recovered pasa_asmbl_29455.p1, internal, 40534, 40608
-recovered pasa_asmbl_29455.p1, internal, 41039, 41145
Valid prediction for GlimmerHMM_glimmerT_49856-T1
Valid prediction for snap_scaffold_22-snap.1627-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 25639, rend_intergenic: 25636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5559, rend_intergenic: 3846  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24407, rend_intergenic: 20908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33620, rend_intergenic: 31164  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46375, rend_intergenic: 36900  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57081, rend_intergenic: 50277  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60847, rend_intergenic: 57832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66687, rend_intergenic: 63607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85102, rend_intergenic: 67372  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95890, rend_intergenic: 88533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121202, rend_intergenic: 115387  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126118, rend_intergenic: 121210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134286, rend_intergenic: 131175  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139492, rend_intergenic: 137644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141618, rend_intergenic: 140123  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148195, rend_intergenic: 141654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149134, rend_intergenic: 148953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154870, rend_intergenic: 149885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 157706
-exon list size: 418


building trellis

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35.5    
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99.0    
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-found 23 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 25639, rend_intergenic: 25636  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5559, rend_intergenic: 3846  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24407, rend_intergenic: 20908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33620, rend_intergenic: 31164  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46375, rend_intergenic: 36900  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57081, rend_intergenic: 50277  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60847, rend_intergenic: 57832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66687, rend_intergenic: 63607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85102, rend_intergenic: 67372  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95890, rend_intergenic: 88533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121202, rend_intergenic: 115387  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126118, rend_intergenic: 121210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134286, rend_intergenic: 131175  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139492, rend_intergenic: 137644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141618, rend_intergenic: 140123  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148195, rend_intergenic: 141654  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149134, rend_intergenic: 148953  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154870, rend_intergenic: 149885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support