-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_3016939-3276641

-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_41987-T1
Valid prediction for Augustus_model.g27954.t1
Valid prediction for snap_scaffold_18-snap.616-T1
Valid prediction for snap_scaffold_18-snap.615-T1
Valid prediction for snap_scaffold_18-snap.646-T1
Valid prediction for snap_scaffold_18-snap.644-T1
Valid prediction for snap_scaffold_18-snap.642-T1
Valid prediction for Augustus_model.g27961.t1
Valid prediction for GlimmerHMM_glimmerT_41982-T1
Valid prediction for Augustus_model.g27963.t1
Valid prediction for GlimmerHMM_glimmerT_41991-T1
Valid prediction for GlimmerHMM_glimmerT_41979-T1
Valid prediction for HiQ_model.g27968.t1
Couldn't classify 185389, 185718
Sorry, prediction pasa_asmbl_20442.p1 fails validation.
(CAT)	 AG	185389-185718	AC	ACA
Valid prediction for GlimmerHMM_glimmerT_41989-T1
Valid prediction for GlimmerHMM_glimmerT_41993-T1
Valid prediction for GlimmerHMM_glimmerT_41994-T1
Valid prediction for snap_scaffold_18-snap.627-T1
Valid prediction for Augustus_model.g27965.t1
Valid prediction for snap_scaffold_18-snap.631-T1
Valid prediction for GlimmerHMM_glimmerT_41988-T1
Valid prediction for GlimmerHMM_glimmerT_41984-T1
Valid prediction for pasa_asmbl_20434.p1
Valid prediction for CodingQuarry_transcript_23703-T1
Valid prediction for CodingQuarry_transcript_23704-T1
Valid prediction for snap_scaffold_18-snap.633-T1
Valid prediction for GlimmerHMM_glimmerT_41992-T1
Valid prediction for CodingQuarry_transcript_23712-T1
Couldn't classify 190151, 190846
Sorry, prediction pasa_asmbl_20445.p1 fails validation.
(GGT)	 AT	190151-190846	AA	GGA
Valid prediction for Augustus_model.g27962.t1
Valid prediction for snap_scaffold_18-snap.622-T1
Valid prediction for snap_scaffold_18-snap.618-T1
Valid prediction for snap_scaffold_18-snap.621-T1
Valid prediction for GlimmerHMM_glimmerT_41996-T1
Valid prediction for pasa_asmbl_20446.p1
Valid prediction for snap_scaffold_18-snap.640-T1
Couldn't classify 201348, 201369
Sorry, prediction pasa_asmbl_20451.p1 fails validation.
(GAC)	 CT	201348-201369	GT	AGG
(TCG)	 AG	201754-201873	GC	AGG
(GCT)	 AG	201975-202094	GT	AGG
(GTC)	 AG	202173-202348	GT	AGG
(GTC)	 AG	202485-202580	GT	AGG
(ATA)	 AG	202683-202732	GT	AAG
(AGG)	 AG	202861-202939	GT	AGG
(GAG)	 AG	203156-203221	GT	AGG
(GAG)	 AG	203321-203411	GT	ATG
(GTA)	 AG	203735-203810	GT	CGG
(ATT)	 AG	203886-203984	GT	AGG
(ATA)	 AG	204084-204123	CA	GAC
-recovered pasa_asmbl_20451.p1, terminal, 204084, 204123
-recovered pasa_asmbl_20451.p1, internal, 201754, 201873
-recovered pasa_asmbl_20451.p1, internal, 201975, 202094
-recovered pasa_asmbl_20451.p1, internal, 202173, 202348
-recovered pasa_asmbl_20451.p1, internal, 202485, 202580
-recovered pasa_asmbl_20451.p1, internal, 202683, 202732
-recovered pasa_asmbl_20451.p1, internal, 202861, 202939
-recovered pasa_asmbl_20451.p1, internal, 203156, 203221
-recovered pasa_asmbl_20451.p1, internal, 203321, 203411
-recovered pasa_asmbl_20451.p1, internal, 203735, 203810
-recovered pasa_asmbl_20451.p1, internal, 203886, 203984
Couldn't classify 196057, 196545
Sorry, prediction pasa_asmbl_20448.p1 fails validation.
(GGT)	 CT	196057-196545	GA	AGG
Valid prediction for snap_scaffold_18-snap.625-T1
Valid prediction for snap_scaffold_18-snap.647-T1
Couldn't classify 60500, 60654
Sorry, prediction pasa_asmbl_20435.p1 fails validation.
(TCG)	 TT	60500-60654	GT	CGG
(GGT)	 AG	61230-61359	GT	AGG
(TGG)	 AG	62005-62076	AA	GAA
-recovered pasa_asmbl_20435.p1, terminal, 62005, 62076
-recovered pasa_asmbl_20435.p1, internal, 61230, 61359
Valid prediction for HiQ_model.g27957.t1
Valid prediction for snap_scaffold_18-snap.620-T1
Valid prediction for snap_scaffold_18-snap.648-T1
Valid prediction for snap_scaffold_18-snap.645-T1
Couldn't classify 195688, 195981
Sorry, prediction pasa_asmbl_20447.p1 fails validation.
(ATG)	 TG	195688-195981	GG	AGG
Couldn't classify 179812, 179863
Couldn't classify 180048, 180757
Sorry, prediction pasa_asmbl_20440.p1 fails validation.
(CTG)	 AA	179812-179863	GT	TGG
(AAT)	 AG	180048-180757	AG	ACA
Valid prediction for snap_scaffold_18-snap.658-T1
Valid prediction for snap_scaffold_18-snap.643-T1
Valid prediction for snap_scaffold_18-snap.636-T1
Valid prediction for Augustus_model.g27951.t1
Valid prediction for HiQ_model.g27952.t1
Valid prediction for Augustus_model.g27966.t1
Valid prediction for Augustus_model.g27955.t1
Valid prediction for snap_scaffold_18-snap.634-T1
Valid prediction for snap_scaffold_18-snap.639-T1
Couldn't classify 76891, 77545
Couldn't classify 77700, 77710
Sorry, prediction CodingQuarry_transcript_23706-T1 fails validation.
(ATG)	 CA	76891-77545	GG	CTG
(GGA)	 CA	77700-77710	GG	GAG
Couldn't classify 196720, 196760
Sorry, prediction pasa_asmbl_20449.p1 fails validation.
(GTG)	 GG	196720-196760	GT	AGG
(CGA)	 AG	196865-196917	GT	AGG
(GGA)	 AG	196997-198267	CC	GAC
-recovered pasa_asmbl_20449.p1, terminal, 196997, 198267
-recovered pasa_asmbl_20449.p1, internal, 196865, 196917
Couldn't classify 181082, 182827
Sorry, prediction pasa_asmbl_20441.p1 fails validation.
(CAT)	 CA	181082-182827	GT	AGG
Valid prediction for Augustus_model.g27959.t1
Valid prediction for GlimmerHMM_glimmerT_41980-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.g27971.t1
Valid prediction for HiQ_model.g27953.t1
Valid prediction for snap_scaffold_18-snap.649-T1
Valid prediction for HiQ_model.g27969.t1
Valid prediction for CodingQuarry_transcript_23711-T1
Valid prediction for snap_scaffold_18-snap.619-T1
Valid prediction for GlimmerHMM_glimmerT_41998-T1
Valid prediction for Augustus_model.g27964.t1
Valid prediction for CodingQuarry_transcript_23707-T1
Valid prediction for snap_scaffold_18-snap.655-T1
Valid prediction for snap_scaffold_18-snap.651-T1
Valid prediction for snap_scaffold_18-snap.654-T1
Valid prediction for snap_scaffold_18-snap.617-T1
Valid prediction for GlimmerHMM_glimmerT_41985-T1
Valid prediction for GlimmerHMM_glimmerT_41978-T1
Valid prediction for snap_scaffold_18-snap.624-T1
Valid prediction for snap_scaffold_18-snap.650-T1
Valid prediction for Augustus_model.g27970.t1
Valid prediction for snap_scaffold_18-snap.637-T1
Valid prediction for HiQ_model.g27958.t1
Valid prediction for snap_scaffold_18-snap.626-T1
Valid prediction for GlimmerHMM_glimmerT_41999-T1
Valid prediction for snap_scaffold_18-snap.652-T1
Valid prediction for snap_scaffold_18-snap.656-T1
Couldn't classify 43067, 43100
Couldn't classify 44075, 44170
Sorry, prediction pasa_asmbl_19757.p1 fails validation.
(ACA)	 AA	43067-43100	GT	AGG
(CAG)	 AG	43445-43650	GT	GGG
(ATG)	 AG	43811-43903	GT	GAG
(AGT)	 AG	44075-44170	GT	AGG
-recovered pasa_asmbl_19757.p1, initial, 43811, 43903
-recovered pasa_asmbl_19757.p1, internal, 43445, 43650
-recovered pasa_asmbl_19757.p1, internal, 43811, 43903
-recovered pasa_asmbl_19757.p1, internal, 44075, 44170
Valid prediction for snap_scaffold_18-snap.630-T1
Valid prediction for snap_scaffold_18-snap.638-T1
Valid prediction for CodingQuarry_transcript_23708-T1
Valid prediction for pasa_asmbl_19742.p1
Valid prediction for Augustus_model.g27960.t1
Valid prediction for Augustus_model.g27972.t1
Valid prediction for snap_scaffold_18-snap.623-T1
Couldn't classify 58595, 58697
Couldn't classify 59633, 59677
Sorry, prediction pasa_asmbl_19753.p1 fails validation.
(GTA)	 CA	58595-58697	GT	AAG
(CGG)	 AG	59089-59220	GT	AGG
(CCC)	 AG	59352-59518	GT	ATG
(TGG)	 AG	59633-59677	AA	CCA
-recovered pasa_asmbl_19753.p1, internal, 59089, 59220
-recovered pasa_asmbl_19753.p1, internal, 59352, 59518
Valid prediction for GlimmerHMM_glimmerT_41990-T1
Valid prediction for CodingQuarry_transcript_23713-T1
Couldn't classify 33808, 33873
Sorry, prediction pasa_asmbl_19760.p1 fails validation.
(CTG)	 AT	33808-33873	GT	AGG
(GGT)	 AG	34019-34114	GT	AGG
(GAG)	 AG	34314-34482	GT	AGG
(GTG)	 AG	35320-35555	GT	AGG
(GAC)	 AG	35656-35810	GT	TGG
(CCC)	 AG	36317-36388	GT	AGG
(GTG)	 AG	37019-37215	GT	TGG
(GTC)	 AG	37428-37546	GT	AGG
(CTG)	 AG	37729-37932	GT	TGG
(ATG)	 AG	38717-38836	AC	AGA
-recovered pasa_asmbl_19760.p1, terminal, 38717, 38836
-recovered pasa_asmbl_19760.p1, internal, 34019, 34114
-recovered pasa_asmbl_19760.p1, internal, 34314, 34482
-recovered pasa_asmbl_19760.p1, internal, 35320, 35555
-recovered pasa_asmbl_19760.p1, internal, 35656, 35810
-recovered pasa_asmbl_19760.p1, internal, 36317, 36388
-recovered pasa_asmbl_19760.p1, internal, 37019, 37215
-recovered pasa_asmbl_19760.p1, internal, 37428, 37546
-recovered pasa_asmbl_19760.p1, internal, 37729, 37932
Valid prediction for GlimmerHMM_glimmerT_41995-T1
Valid prediction for GlimmerHMM_glimmerT_41977-T1
Valid prediction for snap_scaffold_18-snap.635-T1
Valid prediction for snap_scaffold_18-snap.641-T1
Valid prediction for pasa_asmbl_19745.p1
Valid prediction for HiQ_model.g27967.t1
Valid prediction for Augustus_model.g27973.t1
Valid prediction for snap_scaffold_18-snap.629-T1
Sorry, intron length (8) is less than minimum required (10)
Couldn't classify 60029, 60496
Sorry, prediction pasa_asmbl_19751.p1 fails validation.
(CCA)	 TC	60029-60496	AG	AGA
Valid prediction for snap_scaffold_18-snap.632-T1
Valid prediction for GlimmerHMM_glimmerT_41981-T1
Valid prediction for pasa_asmbl_19754.p1
Valid prediction for Augustus_model.g27956.t1
Couldn't classify 45127, 46314
Sorry, prediction pasa_asmbl_19756.p1 fails validation.
(CAG)	 AC	45127-46314	CC	GAC
Valid prediction for GlimmerHMM_glimmerT_41983-T1
Valid prediction for snap_scaffold_18-snap.653-T1
Valid prediction for GlimmerHMM_glimmerT_41997-T1
Valid prediction for GlimmerHMM_glimmerT_41986-T1
Couldn't classify 29918, 30055
Sorry, prediction pasa_asmbl_19761.p1 fails validation.
(ATG)	 CC	26521-26538	GT	AGG
(GAG)	 AG	27635-27746	GT	AGG
(ACC)	 AG	27961-28082	GT	GGG
(CTG)	 AG	29918-30055	AT	GCA
-recovered pasa_asmbl_19761.p1, initial, 26521, 26538
-recovered pasa_asmbl_19761.p1, internal, 27635, 27746
-recovered pasa_asmbl_19761.p1, internal, 27961, 28082
Valid prediction for snap_scaffold_18-snap.628-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 105851, rend_intergenic: 93325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144843, rend_intergenic: 139098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155517, rend_intergenic: 152887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 259703
-exon list size: 385


building trellis

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26.4    
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28.7    
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31.0    
31.3    
31.5    
31.8    
32.0    
32.3    
32.6    
32.8    
33.1    
33.3    
33.6    
33.9    
34.1    
34.4    
34.6    
34.9    
35.1    
35.4    
35.7    
35.9    
36.2    
36.4    
36.7    
37.0    
37.2    
37.5    
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38.0    
38.2    
38.5    
38.8    
39.0    
39.3    
39.5    
39.8    
40.1    
40.3    
40.6    
40.8    
41.1    
41.3    
41.6    
41.9    
42.1    
42.4    
42.6    
42.9    
43.2    
43.4    
43.7    
43.9    
44.2    
44.4    
44.7    
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46.0    
46.3    
46.5    
46.8    
47.0    
47.3    
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48.1    
48.3    
48.6    
48.8    
49.1    
49.4    
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50.9    
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51.7    
51.9    
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55.6    
55.8    
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56.8    
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57.6    
57.9    
58.1    
58.4    
58.7    
58.9    
59.2    
59.4    
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63.6    
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64.6    
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65.1    
65.4    
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66.1    
66.4    
66.7    
66.9    
67.2    
67.4    
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69.3    
69.5    
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74.4    
74.7    
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75.7    
76.0    
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77.0    
77.3    
77.5    
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78.8    
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81.1    
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81.7    
81.9    
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87.6    
87.9    
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88.9    
89.1    
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92.8    
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97.2    
97.4    
97.7    
97.9    
98.2    
98.4    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 105851, rend_intergenic: 93325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144843, rend_intergenic: 139098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155517, rend_intergenic: 152887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 30 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 249099 - 259703
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support