-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_3856830-4020437

-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.825-T1
Valid prediction for snap_scaffold_26-snap.815-T1
Valid prediction for Augustus_model.g36712.t1
Valid prediction for snap_scaffold_26-snap.813-T1
Valid prediction for snap_scaffold_26-snap.818-T1
Valid prediction for GlimmerHMM_glimmerT_55427-T1
Valid prediction for snap_scaffold_26-snap.841-T1
Valid prediction for GlimmerHMM_glimmerT_55439-T1
Valid prediction for snap_scaffold_26-snap.844-T1
Valid prediction for snap_scaffold_26-snap.822-T1
Valid prediction for snap_scaffold_26-snap.811-T1
Valid prediction for snap_scaffold_26-snap.829-T1
Valid prediction for snap_scaffold_26-snap.821-T1
Valid prediction for GlimmerHMM_glimmerT_55443-T1
Valid prediction for snap_scaffold_26-snap.812-T1
Valid prediction for snap_scaffold_26-snap.840-T1
Valid prediction for snap_scaffold_26-snap.833-T1
Valid prediction for snap_scaffold_26-snap.805-T1
Valid prediction for snap_scaffold_26-snap.848-T1
Valid prediction for snap_scaffold_26-snap.839-T1
Valid prediction for GlimmerHMM_glimmerT_55436-T1
Valid prediction for snap_scaffold_26-snap.852-T1
Valid prediction for Augustus_model.g36724.t1
Couldn't classify 16055, 16087
Sorry, prediction pasa_asmbl_34844.p2 fails validation.
(CGC)	 GA	16055-16087	GT	AGG
(AGG)	 AG	17532-17677	GT	AGG
(ACT)	 AG	18096-18312	CC	GAC
-recovered pasa_asmbl_34844.p2, terminal, 18096, 18312
-recovered pasa_asmbl_34844.p2, internal, 17532, 17677
Valid prediction for snap_scaffold_26-snap.835-T1
Couldn't classify 12573, 12641
Couldn't classify 15721, 15846
Sorry, prediction pasa_asmbl_34843.p1 fails validation.
(CCT)	 CC	12573-12641	GT	AGG
(GAG)	 AG	13365-13457	GT	AGG
(ACG)	 AG	13547-13708	GT	AGG
(CTC)	 AG	15721-15846	TC	TGT
-recovered pasa_asmbl_34843.p1, internal, 13365, 13457
-recovered pasa_asmbl_34843.p1, internal, 13547, 13708
Valid prediction for Augustus_model.g36716.t1
Valid prediction for snap_scaffold_26-snap.845-T1
Valid prediction for GlimmerHMM_glimmerT_55422-T1
Valid prediction for snap_scaffold_26-snap.824-T1
Valid prediction for snap_scaffold_26-snap.843-T1
Valid prediction for snap_scaffold_26-snap.806-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_55423-T1
Valid prediction for GlimmerHMM_glimmerT_55438-T1
Valid prediction for GlimmerHMM_glimmerT_55426-T1
Valid prediction for snap_scaffold_26-snap.826-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.819-T1
Couldn't classify 34864, 34966
Couldn't classify 36663, 36764
Sorry, prediction pasa_asmbl_35524.p1 fails validation.
(AGA)	 AG	34864-34966	GT	AGG
(CTC)	 AG	35450-35552	GT	AGG
(GCT)	 AG	35770-35998	GT	AGG
(GTG)	 AG	36663-36764	AC	CCA
-recovered pasa_asmbl_35524.p1, internal, 34864, 34966
-recovered pasa_asmbl_35524.p1, internal, 35450, 35552
-recovered pasa_asmbl_35524.p1, internal, 35770, 35998
Valid prediction for snap_scaffold_26-snap.827-T1
Valid prediction for GlimmerHMM_glimmerT_55425-T1
Valid prediction for GlimmerHMM_glimmerT_55431-T1
Valid prediction for Augustus_model.g36715.t1
Valid prediction for snap_scaffold_26-snap.834-T1
Valid prediction for GlimmerHMM_glimmerT_55428-T1
Valid prediction for Augustus_model.g36721.t1
Valid prediction for GlimmerHMM_glimmerT_55424-T1
Valid prediction for Augustus_model.g36722.t1
Valid prediction for Augustus_model.g36718.t1
Valid prediction for snap_scaffold_26-snap.816-T1
Valid prediction for HiQ_model.g36717.t1
Valid prediction for GlimmerHMM_glimmerT_55442-T1
Valid prediction for CodingQuarry_transcript_40299-T1
Valid prediction for pasa_asmbl_35518.p1
Valid prediction for pasa_asmbl_35517.p1
Valid prediction for snap_scaffold_26-snap.810-T1
Valid prediction for snap_scaffold_26-snap.853-T1
Couldn't classify 2937, 2978
Couldn't classify 4154, 4218
Sorry, prediction pasa_asmbl_35871.p1 fails validation.
(TGC)	 CC	2937-2978	GT	AGG
(GCT)	 AG	3453-3527	GT	AGG
(GTG)	 AG	3788-3932	GT	CGG
(ATG)	 AG	4154-4218	GA	GGG
-recovered pasa_asmbl_35871.p1, internal, 3453, 3527
-recovered pasa_asmbl_35871.p1, internal, 3788, 3932
Valid prediction for snap_scaffold_26-snap.847-T1
Valid prediction for CodingQuarry_transcript_40302-T1
Valid prediction for CodingQuarry_transcript_40300-T1
Valid prediction for GlimmerHMM_glimmerT_55440-T1
Valid prediction for GlimmerHMM_glimmerT_55445-T1
Valid prediction for Augustus_model.g36725.t1
Valid prediction for snap_scaffold_26-snap.828-T1
Valid prediction for Augustus_model.g36726.t1
Valid prediction for snap_scaffold_26-snap.808-T1
Valid prediction for snap_scaffold_26-snap.842-T1
Valid prediction for GlimmerHMM_glimmerT_55435-T1
Valid prediction for snap_scaffold_26-snap.851-T1
Couldn't classify 71938, 72051
Sorry, prediction pasa_asmbl_35828.p1 fails validation.
(ATG)	 AG	64510-64617	GT	AGG
(TCG)	 AG	67602-67752	GT	AGG
(GAG)	 AG	67994-68148	GT	AGG
(ATT)	 AG	68398-68461	GT	TGG
(GCG)	 AG	69144-69187	GT	AGG
(ACC)	 AG	69410-69551	GT	GGG
(GAA)	 AG	69725-69803	GT	AGG
(GTA)	 AG	71097-71172	GT	AGG
(CTG)	 AG	71938-72051	GT	CGG
-recovered pasa_asmbl_35828.p1, initial, 64510, 64617
-recovered pasa_asmbl_35828.p1, internal, 64510, 64617
-recovered pasa_asmbl_35828.p1, internal, 67602, 67752
-recovered pasa_asmbl_35828.p1, internal, 67994, 68148
-recovered pasa_asmbl_35828.p1, internal, 68398, 68461
-recovered pasa_asmbl_35828.p1, internal, 69144, 69187
-recovered pasa_asmbl_35828.p1, internal, 69410, 69551
-recovered pasa_asmbl_35828.p1, internal, 69725, 69803
-recovered pasa_asmbl_35828.p1, internal, 71097, 71172
-recovered pasa_asmbl_35828.p1, internal, 71938, 72051
Valid prediction for GlimmerHMM_glimmerT_55434-T1
Valid prediction for snap_scaffold_26-snap.837-T1
Valid prediction for snap_scaffold_26-snap.830-T1
Valid prediction for GlimmerHMM_glimmerT_55429-T1
Valid prediction for snap_scaffold_26-snap.809-T1
Valid prediction for snap_scaffold_26-snap.820-T1
Valid prediction for Augustus_model.g36727.t1
Valid prediction for snap_scaffold_26-snap.849-T1
Valid prediction for snap_scaffold_26-snap.807-T1
Valid prediction for Augustus_model.g36723.t1
Valid prediction for snap_scaffold_26-snap.814-T1
Valid prediction for snap_scaffold_26-snap.817-T1
Valid prediction for snap_scaffold_26-snap.850-T1
Couldn't classify 75915, 76121
Sorry, prediction pasa_asmbl_35512.p2 fails validation.
(GAG)	 CA	75915-76121	GT	AGG
(GGT)	 AG	76348-76491	GT	AGG
(TTG)	 AG	78453-78533	GT	AGG
(AGA)	 AG	78646-78717	GT	AGG
(TTG)	 AG	79101-79151	TA	GAT
-recovered pasa_asmbl_35512.p2, terminal, 79101, 79151
-recovered pasa_asmbl_35512.p2, internal, 76348, 76491
-recovered pasa_asmbl_35512.p2, internal, 78453, 78533
-recovered pasa_asmbl_35512.p2, internal, 78646, 78717
Valid prediction for GlimmerHMM_glimmerT_55433-T1
Valid prediction for GlimmerHMM_glimmerT_55430-T1
Valid prediction for Augustus_model.g36714.t1
Valid prediction for GlimmerHMM_glimmerT_55432-T1
Valid prediction for snap_scaffold_26-snap.832-T1
Valid prediction for snap_scaffold_26-snap.823-T1
Valid prediction for GlimmerHMM_glimmerT_55441-T1
Valid prediction for snap_scaffold_26-snap.831-T1
Couldn't classify 22123, 22797
Sorry, prediction pasa_asmbl_35525.p1 fails validation.
(CGA)	 GC	22123-22797	AG	GAA
Valid prediction for snap_scaffold_26-snap.836-T1
Couldn't classify 37549, 37619
Couldn't classify 41647, 41881
Sorry, prediction pasa_asmbl_35523.p1 fails validation.
(CTG)	 AG	37549-37619	GT	AGG
(GAG)	 AG	37818-38004	GT	AGG
(GTC)	 AG	38104-38350	GT	AGG
(CAG)	 AG	38451-38543	GT	TGG
(AGA)	 AG	38789-38931	GT	AGG
(GCG)	 AG	39039-39246	GT	GGG
(GGT)	 AG	40144-40388	GT	AGG
(GTG)	 AG	40590-40717	GT	AGG
(GAA)	 AG	40989-41186	GT	AGG
(CCT)	 AG	41647-41881	GT	TGG
-recovered pasa_asmbl_35523.p1, internal, 37549, 37619
-recovered pasa_asmbl_35523.p1, internal, 37818, 38004
-recovered pasa_asmbl_35523.p1, internal, 38104, 38350
-recovered pasa_asmbl_35523.p1, internal, 38451, 38543
-recovered pasa_asmbl_35523.p1, internal, 38789, 38931
-recovered pasa_asmbl_35523.p1, internal, 39039, 39246
-recovered pasa_asmbl_35523.p1, internal, 40144, 40388
-recovered pasa_asmbl_35523.p1, internal, 40590, 40717
-recovered pasa_asmbl_35523.p1, internal, 40989, 41186
-recovered pasa_asmbl_35523.p1, internal, 41647, 41881
Valid prediction for Augustus_model.g36713.t1
Valid prediction for snap_scaffold_26-snap.838-T1
Couldn't classify 55621, 55847
Sorry, prediction pasa_asmbl_35519.p2 fails validation.
(ATG)	 AG	55041-55097	GT	CGG
(TAT)	 AG	55337-55409	GT	AGG
(CTC)	 AG	55621-55847	CA	AAC
-recovered pasa_asmbl_35519.p2, initial, 55041, 55097
-recovered pasa_asmbl_35519.p2, internal, 55041, 55097
-recovered pasa_asmbl_35519.p2, internal, 55337, 55409
Valid prediction for snap_scaffold_26-snap.846-T1
Valid prediction for Augustus_model.g36720.t1
Valid prediction for GlimmerHMM_glimmerT_55437-T1
Valid prediction for Augustus_model.g36719.t1
Valid prediction for GlimmerHMM_glimmerT_55444-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16916, rend_intergenic: 9090  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19127, rend_intergenic: 16985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31832, rend_intergenic: 26129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33905, rend_intergenic: 32681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47644, rend_intergenic: 36590  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62302, rend_intergenic: 58355  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66995, rend_intergenic: 62750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73421, rend_intergenic: 67345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92125, rend_intergenic: 86517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129471, rend_intergenic: 121203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132008, rend_intergenic: 129635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134410, rend_intergenic: 132593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146918, rend_intergenic: 142124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152812, rend_intergenic: 147049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159955, rend_intergenic: 156893  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 163608
-exon list size: 392


building trellis

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26.4    
26.6    
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27.9    
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28.4    
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29.9    
30.2    
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32.2    
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33.2    
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34.8    
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40.4    
40.6    
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42.9    
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45.4    
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98.0    
98.2    
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98.7    
99.0    
99.2    
99.5    
99.7    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 16916, rend_intergenic: 9090  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19127, rend_intergenic: 16985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31832, rend_intergenic: 26129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33905, rend_intergenic: 32681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47644, rend_intergenic: 36590  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62302, rend_intergenic: 58355  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66995, rend_intergenic: 62750  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73421, rend_intergenic: 67345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92125, rend_intergenic: 86517  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129471, rend_intergenic: 121203  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132008, rend_intergenic: 129635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134410, rend_intergenic: 132593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146918, rend_intergenic: 142124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152812, rend_intergenic: 147049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159955, rend_intergenic: 156893  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support