-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_10613456-10749984

-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.2181-T1
Valid prediction for GlimmerHMM_glimmerT_50159-T1
Valid prediction for snap_scaffold_22-snap.2167-T1
Valid prediction for Augustus_model.g33467.t1
Valid prediction for Augustus_model.g33471.t1
Valid prediction for snap_scaffold_22-snap.2163-T1
Valid prediction for snap_scaffold_22-snap.2186-T1
Valid prediction for snap_scaffold_22-snap.2158-T1
Valid prediction for snap_scaffold_22-snap.2176-T1
Valid prediction for GlimmerHMM_glimmerT_50168-T1
Valid prediction for GlimmerHMM_glimmerT_50164-T1
Couldn't classify 88189, 88380
Couldn't classify 91377, 91562
Sorry, prediction pasa_asmbl_30364.p1 fails validation.
(AAA)	 AC	88189-88380	GT	ATG
(GTT)	 AG	89418-89567	GT	AGG
(TTG)	 AG	90686-90808	GT	TGG
(AAG)	 AG	91377-91562	GG	TAG
-recovered pasa_asmbl_30364.p1, internal, 89418, 89567
-recovered pasa_asmbl_30364.p1, internal, 90686, 90808
Valid prediction for GlimmerHMM_glimmerT_50170-T1
Valid prediction for Augustus_model.g33470.t1
Valid prediction for snap_scaffold_22-snap.2174-T1
Valid prediction for snap_scaffold_22-snap.2170-T1
Valid prediction for snap_scaffold_22-snap.2172-T1
Valid prediction for snap_scaffold_22-snap.2182-T1
Valid prediction for Augustus_model.g33463.t1
Valid prediction for GlimmerHMM_glimmerT_50166-T1
Valid prediction for snap_scaffold_22-snap.2165-T1
Couldn't classify 35023, 35886
Sorry, prediction pasa_asmbl_30361.p1 fails validation.
(GGC)	 NN	35023-35886	TT	AAT
Valid prediction for GlimmerHMM_glimmerT_50171-T1
Valid prediction for snap_scaffold_22-snap.2183-T1
Valid prediction for GlimmerHMM_glimmerT_50157-T1
Valid prediction for snap_scaffold_22-snap.2177-T1
Valid prediction for Augustus_model.g33468.t1
Valid prediction for GlimmerHMM_glimmerT_50158-T1
Valid prediction for Augustus_model.g33462.t1
Valid prediction for GlimmerHMM_glimmerT_50155-T1
Valid prediction for snap_scaffold_22-snap.2169-T1
Valid prediction for Augustus_model.g33472.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.g33461.t1
Valid prediction for snap_scaffold_22-snap.2173-T1
Valid prediction for Augustus_model.g33464.t1
Valid prediction for CodingQuarry_transcript_34274-T1
Valid prediction for snap_scaffold_22-snap.2178-T1
Valid prediction for Augustus_model.g33465.t1
Valid prediction for snap_scaffold_22-snap.2180-T1
Valid prediction for HiQ_model.g33459.t1
Couldn't classify 132593, 132826
Sorry, prediction pasa_asmbl_29607.p1 fails validation.
(TCT)	 TA	132593-132826	GT	AGG
(TTC)	 AG	134754-134906	AC	GAA
-recovered pasa_asmbl_29607.p1, terminal, 134754, 134906
Valid prediction for snap_scaffold_22-snap.2160-T1
Valid prediction for GlimmerHMM_glimmerT_50163-T1
Valid prediction for GlimmerHMM_glimmerT_50167-T1
Valid prediction for Augustus_model.g33469.t1
Valid prediction for GlimmerHMM_glimmerT_50154-T1
Valid prediction for snap_scaffold_22-snap.2159-T1
Valid prediction for snap_scaffold_22-snap.2166-T1
Valid prediction for snap_scaffold_22-snap.2161-T1
Valid prediction for CodingQuarry_transcript_34278-T1
Valid prediction for GlimmerHMM_glimmerT_50161-T1
Valid prediction for GlimmerHMM_glimmerT_50156-T1
Valid prediction for GlimmerHMM_glimmerT_50169-T1
Valid prediction for snap_scaffold_22-snap.2157-T1
Valid prediction for CodingQuarry_transcript_34277-T1
Valid prediction for snap_scaffold_22-snap.2171-T1
Valid prediction for snap_scaffold_22-snap.2168-T1
Valid prediction for snap_scaffold_22-snap.2185-T1
Valid prediction for GlimmerHMM_glimmerT_50162-T1
Valid prediction for GlimmerHMM_glimmerT_50153-T1
Valid prediction for snap_scaffold_22-snap.2179-T1
Valid prediction for CodingQuarry_transcript_34280-T1
Valid prediction for snap_scaffold_22-snap.2164-T1
Valid prediction for CodingQuarry_transcript_34279-T1
Valid prediction for Augustus_model.g33460.t1
Couldn't classify 115054, 115161
Sorry, prediction pasa_asmbl_29610.p1 fails validation.
(ATG)	 TA	105091-105331	GT	CGG
(TGC)	 AG	106027-106127	GT	CCG
(AAC)	 AG	106775-106844	GT	AGG
(GTA)	 AG	107268-107398	GT	ATG
(AAA)	 AG	107966-108054	GT	GGG
(GGC)	 AG	108259-108358	GT	CGG
(TTT)	 AG	108648-108691	GT	AGG
(TCT)	 AG	111320-111397	GT	TGG
(GGA)	 AG	112230-112426	GT	TGG
(GTG)	 AG	114891-114955	GT	AGG
(GTG)	 AG	115054-115161	TT	GGT
-recovered pasa_asmbl_29610.p1, initial, 105091, 105331
-recovered pasa_asmbl_29610.p1, internal, 106027, 106127
-recovered pasa_asmbl_29610.p1, internal, 106775, 106844
-recovered pasa_asmbl_29610.p1, internal, 107268, 107398
-recovered pasa_asmbl_29610.p1, internal, 107966, 108054
-recovered pasa_asmbl_29610.p1, internal, 108259, 108358
-recovered pasa_asmbl_29610.p1, internal, 108648, 108691
-recovered pasa_asmbl_29610.p1, internal, 111320, 111397
-recovered pasa_asmbl_29610.p1, internal, 112230, 112426
-recovered pasa_asmbl_29610.p1, internal, 114891, 114955
Valid prediction for GlimmerHMM_glimmerT_50165-T1
Valid prediction for snap_scaffold_22-snap.2175-T1
Couldn't classify 78612, 78696
Sorry, prediction pasa_asmbl_29614.p1 fails validation.
(GCT)	 CA	78612-78696	GT	AGG
(GAC)	 AG	80184-80387	GT	AGG
(TTC)	 AG	80707-80910	GT	AGG
(TTG)	 AG	81521-81726	AC	AGA
-recovered pasa_asmbl_29614.p1, terminal, 81521, 81726
-recovered pasa_asmbl_29614.p1, internal, 80184, 80387
-recovered pasa_asmbl_29614.p1, internal, 80707, 80910
Valid prediction for snap_scaffold_22-snap.2184-T1
Valid prediction for snap_scaffold_22-snap.2162-T1
Valid prediction for Augustus_model.g33466.t1
Valid prediction for pasa_asmbl_29615.p1
Valid prediction for GlimmerHMM_glimmerT_50160-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5548, rend_intergenic: 3879  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28829, rend_intergenic: 5769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30809, rend_intergenic: 29139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35702, rend_intergenic: 32184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37378, rend_intergenic: 36937  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42377, rend_intergenic: 38346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53192, rend_intergenic: 44643  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58142, rend_intergenic: 54804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69725, rend_intergenic: 64985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74578, rend_intergenic: 70963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85186, rend_intergenic: 78447  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102984, rend_intergenic: 91347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116989, rend_intergenic: 102990  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120681, rend_intergenic: 117709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133465, rend_intergenic: 122309  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 136529
-exon list size: 328


building trellis

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11.8    
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27.6    
27.9    
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30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
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34.5    
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36.1    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
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38.5    
38.8    
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40.0    
40.3    
40.6    
40.9    
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41.8    
42.1    
42.4    
42.7    
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44.5    
44.8    
45.2    
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45.8    
46.1    
46.4    
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47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
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55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
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59.4    
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60.0    
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60.6    
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87.0    
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87.6    
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88.2    
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90.0    
90.3    
90.6    
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91.5    
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92.4    
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93.6    
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96.4    
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97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 17 predictions from path traversal
Error with prediction: snap lend_intergenic: 5548, rend_intergenic: 3879  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28829, rend_intergenic: 5769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30809, rend_intergenic: 29139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35702, rend_intergenic: 32184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37378, rend_intergenic: 36937  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42377, rend_intergenic: 38346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53192, rend_intergenic: 44643  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58142, rend_intergenic: 54804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69725, rend_intergenic: 64985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74578, rend_intergenic: 70963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85186, rend_intergenic: 78447  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102984, rend_intergenic: 91347  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116989, rend_intergenic: 102990  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120681, rend_intergenic: 117709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133465, rend_intergenic: 122309  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support