-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_12733171-12890793

-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 HiQ_model.g17040.t1
Valid prediction for snap_scaffold_10-snap.2522-T1
Valid prediction for snap_scaffold_10-snap.2494-T1
Valid prediction for Augustus_model.g17026.t1
Valid prediction for snap_scaffold_10-snap.2496-T1
Valid prediction for Augustus_model.g17023.t1
Valid prediction for GlimmerHMM_glimmerT_25620-T1
Valid prediction for snap_scaffold_10-snap.2532-T1
Valid prediction for Augustus_model.g17024.t1
Valid prediction for pasa_asmbl_3546.p1
Valid prediction for snap_scaffold_10-snap.2521-T1
Valid prediction for snap_scaffold_10-snap.2504-T1
Valid prediction for snap_scaffold_10-snap.2501-T1
Valid prediction for Augustus_model.g17031.t1
Valid prediction for GlimmerHMM_glimmerT_25625-T1
Valid prediction for GlimmerHMM_glimmerT_25619-T1
Couldn't classify 59288, 59836
Sorry, prediction pasa_asmbl_3542.p1 fails validation.
(CAC)	 AC	59288-59836	AT	AAA
Valid prediction for snap_scaffold_10-snap.2492-T1
Valid prediction for Augustus_model.g17019.t1
Valid prediction for snap_scaffold_10-snap.2514-T1
Valid prediction for Augustus_model.g17021.t1
Valid prediction for snap_scaffold_10-snap.2509-T1
Valid prediction for GlimmerHMM_glimmerT_25632-T1
Valid prediction for Augustus_model.g17020.t1
Valid prediction for snap_scaffold_10-snap.2523-T1
Couldn't classify 82697, 82748
Sorry, prediction pasa_asmbl_3545.p1 fails validation.
(ATG)	 CA	81591-81779	GC	AGG
(GTG)	 AG	82466-82548	GT	AGG
(GTT)	 AG	82697-82748	GA	AGG
-recovered pasa_asmbl_3545.p1, initial, 81591, 81779
-recovered pasa_asmbl_3545.p1, internal, 82466, 82548
Valid prediction for snap_scaffold_10-snap.2510-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for Augustus_model.g17030.t1
Valid prediction for snap_scaffold_10-snap.2495-T1
Valid prediction for snap_scaffold_10-snap.2506-T1
Valid prediction for GlimmerHMM_glimmerT_25629-T1
Valid prediction for snap_scaffold_10-snap.2512-T1
Valid prediction for Augustus_model.g17028.t1
Couldn't classify 151918, 151965
Sorry, prediction pasa_asmbl_3551.p1 fails validation.
(CCA)	 CC	151918-151965	GT	CGG
(CGT)	 AG	152889-152946	GT	GGG
(GCA)	 AG	153051-153116	GT	CAG
(AGT)	 AG	153392-153481	GT	AGG
(GGC)	 AG	153710-153882	GT	AGG
(GCC)	 AG	154117-154245	GT	AGG
(GGC)	 AG	154532-154663	GC	AGG
-recovered pasa_asmbl_3551.p1, terminal, 154532, 154663
-recovered pasa_asmbl_3551.p1, internal, 152889, 152946
-recovered pasa_asmbl_3551.p1, internal, 153051, 153116
-recovered pasa_asmbl_3551.p1, internal, 153392, 153481
-recovered pasa_asmbl_3551.p1, internal, 153710, 153882
-recovered pasa_asmbl_3551.p1, internal, 154117, 154245
-recovered pasa_asmbl_3551.p1, internal, 154532, 154663
Valid prediction for snap_scaffold_10-snap.2516-T1
Valid prediction for GlimmerHMM_glimmerT_25623-T1
Valid prediction for GlimmerHMM_glimmerT_25622-T1
Valid prediction for Augustus_model.g17025.t1
Valid prediction for snap_scaffold_10-snap.2497-T1
Valid prediction for GlimmerHMM_glimmerT_25626-T1
Valid prediction for Augustus_model.g17036.t1
Valid prediction for snap_scaffold_10-snap.2526-T1
Valid prediction for snap_scaffold_10-snap.2525-T1
Valid prediction for snap_scaffold_10-snap.2518-T1
Valid prediction for GlimmerHMM_glimmerT_25630-T1
Valid prediction for GlimmerHMM_glimmerT_25621-T1
Valid prediction for snap_scaffold_10-snap.2513-T1
Valid prediction for GlimmerHMM_glimmerT_25617-T1
Valid prediction for Augustus_model.g17027.t1
Valid prediction for snap_scaffold_10-snap.2503-T1
Valid prediction for snap_scaffold_10-snap.2498-T1
Valid prediction for snap_scaffold_10-snap.2528-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.g17022.t1
Valid prediction for snap_scaffold_10-snap.2490-T1
Valid prediction for snap_scaffold_10-snap.2489-T1
Couldn't classify 151395, 152195
Couldn't classify 153765, 153824
Sorry, prediction pasa_asmbl_4823.p1 fails validation.
(CAG)	 AC	151395-152195	GT	AGG
(GAC)	 AG	153765-153824	CA	ACC
Valid prediction for GlimmerHMM_glimmerT_25628-T1
Valid prediction for snap_scaffold_10-snap.2500-T1
Couldn't classify 16886, 17023
Couldn't classify 17573, 17686
Sorry, prediction pasa_asmbl_5073.p1 fails validation.
(CGT)	 TG	16886-17023	GT	AGG
(AAT)	 AG	17115-17255	GT	AGG
(TCC)	 AG	17573-17686	AG	ACA
-recovered pasa_asmbl_5073.p1, internal, 17115, 17255
Valid prediction for snap_scaffold_10-snap.2524-T1
Valid prediction for Augustus_model.g17029.t1
Valid prediction for snap_scaffold_10-snap.2491-T1
Valid prediction for snap_scaffold_10-snap.2493-T1
Valid prediction for Augustus_model.g17039.t1
Couldn't classify 32386, 32529
Sorry, prediction pasa_asmbl_4835.p1 fails validation.
(ATG)	 GG	29175-29292	GT	CGG
(AAT)	 AG	29493-29510	GT	AGG
(GAA)	 AG	29611-29693	GT	TCG
(ACT)	 AG	29926-30030	GT	AGG
(GAA)	 AG	30183-30321	GT	AGG
(TTG)	 AG	31523-31689	GT	CTG
(GGC)	 AG	32386-32529	CA	AGC
-recovered pasa_asmbl_4835.p1, initial, 29175, 29292
-recovered pasa_asmbl_4835.p1, internal, 29493, 29510
-recovered pasa_asmbl_4835.p1, internal, 29611, 29693
-recovered pasa_asmbl_4835.p1, internal, 29926, 30030
-recovered pasa_asmbl_4835.p1, internal, 30183, 30321
-recovered pasa_asmbl_4835.p1, internal, 31523, 31689
Valid prediction for pasa_asmbl_4836.p1
Valid prediction for GlimmerHMM_glimmerT_25618-T1
Valid prediction for pasa_asmbl_4829.p1
Valid prediction for snap_scaffold_10-snap.2505-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g17038.t1
Valid prediction for CodingQuarry_transcript_5602-T1
Valid prediction for GlimmerHMM_glimmerT_25624-T1
Valid prediction for snap_scaffold_10-snap.2508-T1
Valid prediction for snap_scaffold_10-snap.2519-T1
Valid prediction for HiQ_model.g17033.t1
Valid prediction for GlimmerHMM_glimmerT_25627-T1
Valid prediction for snap_scaffold_10-snap.2511-T1
Valid prediction for pasa_asmbl_4830.p1
Valid prediction for snap_scaffold_10-snap.2502-T1
Valid prediction for CodingQuarry_transcript_5609-T1
Valid prediction for Augustus_model.g17032.t1
Valid prediction for CodingQuarry_transcript_5610-T1
Valid prediction for Augustus_model.g17037.t1
Valid prediction for snap_scaffold_10-snap.2520-T1
Valid prediction for Augustus_model.g17018.t1
Valid prediction for snap_scaffold_10-snap.2499-T1
Valid prediction for snap_scaffold_10-snap.2529-T1
Valid prediction for snap_scaffold_10-snap.2527-T1
Valid prediction for snap_scaffold_10-snap.2515-T1
Valid prediction for CodingQuarry_transcript_5608-T1
Couldn't classify 90780, 91259
Sorry, prediction pasa_asmbl_4828.p1 fails validation.
(TAT)	 CC	90780-91259	CC	GCC
Valid prediction for snap_scaffold_10-snap.2531-T1
Couldn't classify 150753, 151247
Sorry, prediction pasa_asmbl_4824.p1 fails validation.
(ACA)	 CC	150753-151247	AA	GGA
Valid prediction for GlimmerHMM_glimmerT_25631-T1
Valid prediction for CodingQuarry_transcript_5606-T1
Valid prediction for CodingQuarry_transcript_5605-T1
Valid prediction for CodingQuarry_transcript_5607-T1
Valid prediction for snap_scaffold_10-snap.2507-T1
Valid prediction for Augustus_model.g17035.t1
Couldn't classify 32905, 33016
Sorry, prediction pasa_asmbl_4834.p5 fails validation.
(GGG)	 GG	32905-33016	GT	AGG
(GCC)	 AG	33274-33440	GT	GGG
(GTA)	 AG	34182-34220	GG	GAG
-recovered pasa_asmbl_4834.p5, terminal, 34182, 34220
-recovered pasa_asmbl_4834.p5, internal, 33274, 33440
Couldn't classify 87588, 87611
Couldn't classify 90594, 90698
Sorry, prediction pasa_asmbl_5166.p1 fails validation.
(CGG)	 CC	87588-87611	GT	AGG
(GTG)	 AG	88497-88588	GT	AGG
(GTA)	 AG	88728-88854	GT	GGG
(TCT)	 AG	89111-89228	GT	GGG
(AGA)	 AG	89707-89819	GT	AGG
(ATA)	 AG	90594-90698	GG	GGG
-recovered pasa_asmbl_5166.p1, internal, 88497, 88588
-recovered pasa_asmbl_5166.p1, internal, 88728, 88854
-recovered pasa_asmbl_5166.p1, internal, 89111, 89228
-recovered pasa_asmbl_5166.p1, internal, 89707, 89819
Valid prediction for Augustus_model.g17034.t1
Valid prediction for snap_scaffold_10-snap.2530-T1
Valid prediction for snap_scaffold_10-snap.2517-T1
Couldn't classify 154321, 154432
Sorry, prediction pasa_asmbl_5162.p1 fails validation.
(CGA)	 AT	154321-154432	GT	AGG
(GAA)	 AG	154598-154881	GT	AGG
(GTG)	 AG	154971-155198	GT	AGG
(GCG)	 AG	155481-155579	GT	AGG
(AAA)	 AG	155873-155917	TG	AAT
-recovered pasa_asmbl_5162.p1, terminal, 155873, 155917
-recovered pasa_asmbl_5162.p1, internal, 154598, 154881
-recovered pasa_asmbl_5162.p1, internal, 154971, 155198
-recovered pasa_asmbl_5162.p1, internal, 155481, 155579
Couldn't classify 36467, 36498
Couldn't classify 37692, 37803
Sorry, prediction pasa_asmbl_5147.p1 fails validation.
(CTC)	 AC	36467-36498	GT	TGG
(TAT)	 AG	36712-36914	GT	CTG
(GTT)	 AG	37050-37135	GT	TGG
(TCC)	 AG	37423-37556	GT	AGG
(CCT)	 AG	37692-37803	CT	CCC
-recovered pasa_asmbl_5147.p1, internal, 36712, 36914
-recovered pasa_asmbl_5147.p1, internal, 37050, 37135
-recovered pasa_asmbl_5147.p1, internal, 37423, 37556

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14382, rend_intergenic: 12679  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 15588, rend_intergenic: 14949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17763, rend_intergenic: 15861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34930, rend_intergenic: 29501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41144, rend_intergenic: 38816  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47007, rend_intergenic: 42666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49317, rend_intergenic: 47641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54841, rend_intergenic: 51274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81024, rend_intergenic: 68978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86839, rend_intergenic: 83517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97355, rend_intergenic: 91902  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103334, rend_intergenic: 101755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114944, rend_intergenic: 107261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128598, rend_intergenic: 120748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136969, rend_intergenic: 132821  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 157623
-exon list size: 403


building trellis

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24.4    
24.7    
24.9    
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25.9    
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26.7    
26.9    
27.2    
27.4    
27.7    
27.9    
28.1    
28.4    
28.6    
28.9    
29.1    
29.4    
29.6    
29.9    
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30.4    
30.6    
30.9    
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31.4    
31.6    
31.9    
32.1    
32.3    
32.6    
32.8    
33.1    
33.3    
33.6    
33.8    
34.1    
34.3    
34.6    
34.8    
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35.3    
35.6    
35.8    
36.0    
36.3    
36.5    
36.8    
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37.3    
37.5    
37.8    
38.0    
38.3    
38.5    
38.8    
39.0    
39.3    
39.5    
39.8    
40.0    
40.2    
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40.7    
41.0    
41.2    
41.5    
41.7    
42.0    
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42.5    
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43.5    
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44.0    
44.2    
44.4    
44.7    
44.9    
45.2    
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45.9    
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48.9    
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97.5    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 14382, rend_intergenic: 12679  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 15588, rend_intergenic: 14949  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17763, rend_intergenic: 15861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34930, rend_intergenic: 29501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41144, rend_intergenic: 38816  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47007, rend_intergenic: 42666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49317, rend_intergenic: 47641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54841, rend_intergenic: 51274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81024, rend_intergenic: 68978  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86839, rend_intergenic: 83517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97355, rend_intergenic: 91902  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103334, rend_intergenic: 101755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114944, rend_intergenic: 107261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128598, rend_intergenic: 120748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136969, rend_intergenic: 132821  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support