-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_7922022-8075990

-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_14-snap.1634-T1
Couldn't classify 121331, 121380
Sorry, prediction pasa_asmbl_12200.p1 fails validation.
(ATG)	 GT	120017-120130	GT	AGG
(GCA)	 AG	120220-120312	GT	AGG
(CTG)	 AG	120399-120563	GT	AGG
(GAC)	 AG	120661-120832	GT	AGG
(GAG)	 AG	120953-121168	GT	AGG
(AGT)	 AG	121331-121380	AG	GCA
-recovered pasa_asmbl_12200.p1, initial, 120017, 120130
-recovered pasa_asmbl_12200.p1, internal, 120220, 120312
-recovered pasa_asmbl_12200.p1, internal, 120399, 120563
-recovered pasa_asmbl_12200.p1, internal, 120661, 120832
-recovered pasa_asmbl_12200.p1, internal, 120953, 121168
Valid prediction for GlimmerHMM_glimmerT_34267-T1
Valid prediction for pasa_asmbl_12185.p1
Valid prediction for GlimmerHMM_glimmerT_34268-T1
Valid prediction for CodingQuarry_transcript_15728-T1
Valid prediction for Augustus_model.g22875.t1
Valid prediction for pasa_asmbl_12191.p1
Valid prediction for GlimmerHMM_glimmerT_34254-T1
Valid prediction for snap_scaffold_14-snap.1652-T1
Valid prediction for snap_scaffold_14-snap.1630-T1
Valid prediction for GlimmerHMM_glimmerT_34273-T1
Valid prediction for GlimmerHMM_glimmerT_34261-T1
Valid prediction for GlimmerHMM_glimmerT_34256-T1
Valid prediction for GlimmerHMM_glimmerT_34264-T1
Valid prediction for pasa_asmbl_12198.p1
Valid prediction for snap_scaffold_14-snap.1646-T1
Valid prediction for Augustus_model.g22872.t1
Valid prediction for CodingQuarry_transcript_15724-T1
Valid prediction for snap_scaffold_14-snap.1631-T1
Valid prediction for GlimmerHMM_glimmerT_34262-T1
Valid prediction for snap_scaffold_14-snap.1653-T1
Valid prediction for snap_scaffold_14-snap.1643-T1
Valid prediction for Augustus_model.g22867.t1
Valid prediction for snap_scaffold_14-snap.1658-T1
Valid prediction for GlimmerHMM_glimmerT_34271-T1
Valid prediction for Augustus_model.g22877.t1
Valid prediction for Augustus_model.g22873.t1
Valid prediction for GlimmerHMM_glimmerT_34269-T1
Valid prediction for Augustus_model.g22866.t1
Valid prediction for Augustus_model.g22881.t1
Valid prediction for CodingQuarry_transcript_15725-T1
Couldn't classify 111786, 111932
Couldn't classify 115344, 115781
Sorry, prediction pasa_asmbl_12715.p1 fails validation.
(AAG)	 GG	111786-111932	GT	AGG
(CTG)	 AG	114058-114141	GT	AGG
(GAT)	 AG	115344-115781	CA	GGC
-recovered pasa_asmbl_12715.p1, internal, 114058, 114141
Valid prediction for snap_scaffold_14-snap.1632-T1
Valid prediction for Augustus_model.g22876.t1
Valid prediction for snap_scaffold_14-snap.1654-T1
Valid prediction for snap_scaffold_14-snap.1641-T1
Valid prediction for GlimmerHMM_glimmerT_34263-T1
Valid prediction for snap_scaffold_14-snap.1636-T1
Valid prediction for GlimmerHMM_glimmerT_34259-T1
Valid prediction for snap_scaffold_14-snap.1657-T1
Valid prediction for CodingQuarry_transcript_15726-T1
Couldn't classify 122229, 122308
Sorry, prediction pasa_asmbl_12201.p1 fails validation.
(GTG)	 GT	122229-122308	GT	GTG
(GCA)	 AG	123496-123563	GT	TGG
(ACG)	 AG	123658-123806	GT	AGG
(AAA)	 AG	124043-124214	GT	GGG
(GTA)	 AG	124299-124412	GT	GAG
(CAG)	 AG	124511-124690	GT	AGG
(GTC)	 AG	125006-125131	GT	GGG
(GTG)	 AG	125498-125616	GG	GAG
-recovered pasa_asmbl_12201.p1, terminal, 125498, 125616
-recovered pasa_asmbl_12201.p1, internal, 123496, 123563
-recovered pasa_asmbl_12201.p1, internal, 123658, 123806
-recovered pasa_asmbl_12201.p1, internal, 124043, 124214
-recovered pasa_asmbl_12201.p1, internal, 124299, 124412
-recovered pasa_asmbl_12201.p1, internal, 124511, 124690
-recovered pasa_asmbl_12201.p1, internal, 125006, 125131
Valid prediction for snap_scaffold_14-snap.1642-T1
Valid prediction for Augustus_model.g22880.t1
Valid prediction for snap_scaffold_14-snap.1647-T1
Valid prediction for pasa_asmbl_12180.p1
Valid prediction for snap_scaffold_14-snap.1648-T1
Valid prediction for HiQ_model.g22874.t1
Valid prediction for snap_scaffold_14-snap.1645-T1
Valid prediction for snap_scaffold_14-snap.1637-T1
Couldn't classify 101789, 102085
Sorry, prediction pasa_asmbl_12195.p1 fails validation.
(ATG)	 AA	101789-102085	GA	AAG
Valid prediction for Augustus_model.g22878.t1
Valid prediction for Augustus_model.g22871.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.g22870.t1
Valid prediction for GlimmerHMM_glimmerT_34257-T1
Valid prediction for snap_scaffold_14-snap.1655-T1
Valid prediction for snap_scaffold_14-snap.1639-T1
Valid prediction for GlimmerHMM_glimmerT_34255-T1
Valid prediction for GlimmerHMM_glimmerT_34272-T1
Valid prediction for snap_scaffold_14-snap.1659-T1
Valid prediction for pasa_asmbl_13236.p1
Valid prediction for snap_scaffold_14-snap.1649-T1
Valid prediction for Augustus_model.g22879.t1
Couldn't classify 4597, 4947
Sorry, prediction pasa_asmbl_13239.p2 fails validation.
(CTG)	 CC	4597-4947	GC	CCG
Valid prediction for snap_scaffold_14-snap.1635-T1
Valid prediction for GlimmerHMM_glimmerT_34265-T1
Valid prediction for GlimmerHMM_glimmerT_34275-T1
Valid prediction for CodingQuarry_transcript_15723-T1
Valid prediction for snap_scaffold_14-snap.1633-T1
Valid prediction for Augustus_model.g22864.t1
Valid prediction for snap_scaffold_14-snap.1640-T1
Valid prediction for GlimmerHMM_glimmerT_34270-T1
Valid prediction for snap_scaffold_14-snap.1644-T1
Valid prediction for GlimmerHMM_glimmerT_34253-T1
Valid prediction for CodingQuarry_transcript_15722-T1
Valid prediction for CodingQuarry_transcript_15721-T1
Valid prediction for Augustus_model.g22882.t1
Valid prediction for GlimmerHMM_glimmerT_34258-T1
Couldn't classify 4249, 4363
Sorry, prediction pasa_asmbl_13240.p1 fails validation.
(ATG)	 AG	3390-3787	GT	AGG
(GGT)	 AG	4064-4156	GT	AGG
(AGA)	 AG	4249-4363	AT	GCA
-recovered pasa_asmbl_13240.p1, initial, 3390, 3787
-recovered pasa_asmbl_13240.p1, internal, 3390, 3787
-recovered pasa_asmbl_13240.p1, internal, 4064, 4156
Valid prediction for GlimmerHMM_glimmerT_34260-T1
Valid prediction for Augustus_model.g22869.t1
Valid prediction for snap_scaffold_14-snap.1629-T1
Valid prediction for snap_scaffold_14-snap.1650-T1
Valid prediction for snap_scaffold_14-snap.1638-T1
Valid prediction for snap_scaffold_14-snap.1656-T1
Valid prediction for pasa_asmbl_13234.p1
Valid prediction for Augustus_model.g22868.t1
Valid prediction for GlimmerHMM_glimmerT_34266-T1
Valid prediction for snap_scaffold_14-snap.1651-T1
Valid prediction for GlimmerHMM_glimmerT_34274-T1
Valid prediction for Augustus_model.g22865.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 21169, rend_intergenic: 2179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23593, rend_intergenic: 21361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48392, rend_intergenic: 43769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76421, rend_intergenic: 59136  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87630, rend_intergenic: 80567  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117263, rend_intergenic: 103175  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125730, rend_intergenic: 117287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137028, rend_intergenic: 134524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146816, rend_intergenic: 140195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 153969
-exon list size: 366


building trellis

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28.3    
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28.8    
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29.3    
29.6    
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30.2    
30.4    
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31.0    
31.2    
31.5    
31.8    
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32.3    
32.6    
32.9    
33.2    
33.4    
33.7    
34.0    
34.2    
34.5    
34.8    
35.1    
35.3    
35.6    
35.9    
36.1    
36.4    
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37.2    
37.5    
37.8    
38.0    
38.3    
38.6    
38.9    
39.1    
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40.5    
40.8    
41.0    
41.3    
41.6    
41.8    
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42.4    
42.7    
42.9    
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43.8    
44.0    
44.3    
44.6    
44.8    
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45.4    
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48.1    
48.4    
48.6    
48.9    
49.2    
49.5    
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50.3    
50.5    
50.8    
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51.4    
51.6    
51.9    
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52.4    
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53.3    
53.5    
53.8    
54.1    
54.3    
54.6    
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55.4    
55.7    
56.0    
56.2    
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56.8    
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57.6    
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58.2    
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60.6    
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64.4    
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67.1    
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77.4    
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78.0    
78.3    
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81.0    
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82.9    
83.2    
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84.5    
84.8    
85.1    
85.3    
85.6    
85.9    
86.1    
86.4    
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87.0    
87.2    
87.5    
87.8    
88.0    
88.3    
88.6    
88.9    
89.1    
89.4    
89.7    
89.9    
90.2    
90.5    
90.8    
91.0    
91.3    
91.6    
91.8    
92.1    
92.4    
92.7    
92.9    
93.2    
93.5    
93.8    
94.0    
94.3    
94.6    
94.8    
95.1    
95.4    
95.7    
95.9    
96.2    
96.5    
96.7    
97.0    
97.3    
97.6    
97.8    
98.1    
98.4    
98.6    
98.9    
99.2    
99.5    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 21169, rend_intergenic: 2179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23593, rend_intergenic: 21361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48392, rend_intergenic: 43769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76421, rend_intergenic: 59136  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87630, rend_intergenic: 80567  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117263, rend_intergenic: 103175  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125730, rend_intergenic: 117287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137028, rend_intergenic: 134524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146816, rend_intergenic: 140195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support