-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_7765345-7991330

-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.g24320.t1
Valid prediction for snap_scaffold_15-snap.1677-T1
Valid prediction for CodingQuarry_transcript_18057-T1
Valid prediction for Augustus_model.g24310.t1
Valid prediction for pasa_asmbl_15304.p1
Valid prediction for snap_scaffold_15-snap.1662-T1
Valid prediction for snap_scaffold_15-snap.1680-T1
Valid prediction for snap_scaffold_15-snap.1643-T1
Valid prediction for GlimmerHMM_glimmerT_36507-T1
Valid prediction for GlimmerHMM_glimmerT_36521-T1
Valid prediction for GlimmerHMM_glimmerT_36515-T1
Valid prediction for snap_scaffold_15-snap.1656-T1
Valid prediction for CodingQuarry_transcript_18055-T1
Valid prediction for snap_scaffold_15-snap.1657-T1
Valid prediction for GlimmerHMM_glimmerT_36497-T1
Valid prediction for pasa_asmbl_15315.p1
Valid prediction for snap_scaffold_15-snap.1674-T1
Valid prediction for snap_scaffold_15-snap.1644-T1
Valid prediction for GlimmerHMM_glimmerT_36523-T1
Valid prediction for snap_scaffold_15-snap.1660-T1
Valid prediction for CodingQuarry_transcript_18052-T1
Valid prediction for snap_scaffold_15-snap.1648-T1
Valid prediction for snap_scaffold_15-snap.1649-T1
Valid prediction for snap_scaffold_15-snap.1668-T1
Valid prediction for GlimmerHMM_glimmerT_36498-T1
Valid prediction for GlimmerHMM_glimmerT_36503-T1
Couldn't classify 132654, 133001
Sorry, prediction pasa_asmbl_14319.p2 fails validation.
(ACA)	 GT	132654-133001	AT	GAA
Couldn't classify 27146, 27194
Sorry, prediction pasa_asmbl_15298.p1 fails validation.
(TTA)	 CT	27146-27194	GT	TTG
(TCA)	 AG	27321-27404	GT	AGG
(TTA)	 AG	27889-28005	GT	AGG
(CTG)	 AG	28304-28384	GT	CAG
(ATG)	 AG	28806-28972	AG	GAA
-recovered pasa_asmbl_15298.p1, terminal, 28806, 28972
-recovered pasa_asmbl_15298.p1, internal, 27321, 27404
-recovered pasa_asmbl_15298.p1, internal, 27889, 28005
-recovered pasa_asmbl_15298.p1, internal, 28304, 28384
Valid prediction for GlimmerHMM_glimmerT_36508-T1
Valid prediction for snap_scaffold_15-snap.1655-T1
Valid prediction for Augustus_model.g24308.t1
Valid prediction for pasa_asmbl_15312.p1
Valid prediction for snap_scaffold_15-snap.1651-T1
Valid prediction for GlimmerHMM_glimmerT_36519-T1
Valid prediction for snap_scaffold_15-snap.1671-T1
Valid prediction for CodingQuarry_transcript_18051-T1
Valid prediction for snap_scaffold_15-snap.1666-T1
Valid prediction for snap_scaffold_15-snap.1670-T1
Valid prediction for snap_scaffold_15-snap.1653-T1
Valid prediction for snap_scaffold_15-snap.1641-T1
Valid prediction for snap_scaffold_15-snap.1667-T1
Couldn't classify 165576, 165818
Sorry, prediction pasa_asmbl_15310.p1 fails validation.
(ATG)	 AC	162527-162688	GT	AGG
(GGT)	 AG	165576-165818	TC	CCT
-recovered pasa_asmbl_15310.p1, initial, 162527, 162688
Valid prediction for GlimmerHMM_glimmerT_36505-T1
Valid prediction for snap_scaffold_15-snap.1681-T1
Valid prediction for GlimmerHMM_glimmerT_36496-T1
Valid prediction for GlimmerHMM_glimmerT_36499-T1
Valid prediction for snap_scaffold_15-snap.1642-T1
Valid prediction for snap_scaffold_15-snap.1664-T1
Valid prediction for HiQ_model.g24312.t1
Valid prediction for snap_scaffold_15-snap.1646-T1
Valid prediction for Augustus_model.g24322.t1
Valid prediction for snap_scaffold_15-snap.1673-T1
Valid prediction for GlimmerHMM_glimmerT_36500-T1
Valid prediction for Augustus_model.g24306.t1
Valid prediction for GlimmerHMM_glimmerT_36502-T1
Valid prediction for snap_scaffold_15-snap.1659-T1
Valid prediction for snap_scaffold_15-snap.1654-T1
Valid prediction for Augustus_model.g24307.t1
Valid prediction for snap_scaffold_15-snap.1678-T1
Valid prediction for GlimmerHMM_glimmerT_36524-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_15-snap.1679-T1
Valid prediction for GlimmerHMM_glimmerT_36506-T1
Valid prediction for HiQ_model.g24309.t1
Valid prediction for HiQ_model.g24321.t1
Valid prediction for GlimmerHMM_glimmerT_36520-T1
Valid prediction for snap_scaffold_15-snap.1669-T1
Couldn't classify 64271, 64581
Sorry, prediction pasa_asmbl_14323.p1 fails validation.
(ATG)	 AG	63896-64007	GT	AGG
(GTT)	 AG	64271-64581	GT	AGG
-recovered pasa_asmbl_14323.p1, initial, 63896, 64007
-recovered pasa_asmbl_14323.p1, internal, 63896, 64007
-recovered pasa_asmbl_14323.p1, internal, 64271, 64581
Valid prediction for Augustus_model.g24311.t1
Couldn't classify 80808, 80893
Sorry, prediction pasa_asmbl_14322.p1 fails validation.
(CAG)	 TA	80808-80893	GT	CTG
(CAC)	 AG	81873-81943	GT	TGG
(TAA)	 AG	82189-82289	GT	GAG
(CCT)	 AG	82982-83122	GT	AGG
(GTG)	 AG	83455-83562	GT	GGG
(GAT)	 AG	83787-83915	AC	AGA
-recovered pasa_asmbl_14322.p1, terminal, 83787, 83915
-recovered pasa_asmbl_14322.p1, internal, 81873, 81943
-recovered pasa_asmbl_14322.p1, internal, 82189, 82289
-recovered pasa_asmbl_14322.p1, internal, 82982, 83122
-recovered pasa_asmbl_14322.p1, internal, 83455, 83562
Valid prediction for snap_scaffold_15-snap.1640-T1
Valid prediction for GlimmerHMM_glimmerT_36517-T1
Valid prediction for GlimmerHMM_glimmerT_36511-T1
Valid prediction for GlimmerHMM_glimmerT_36509-T1
Valid prediction for snap_scaffold_15-snap.1645-T1
Valid prediction for GlimmerHMM_glimmerT_36504-T1
Valid prediction for GlimmerHMM_glimmerT_36522-T1
Valid prediction for GlimmerHMM_glimmerT_36513-T1
Valid prediction for GlimmerHMM_glimmerT_36512-T1
Valid prediction for snap_scaffold_15-snap.1675-T1
Valid prediction for Augustus_model.g24318.t1
Valid prediction for GlimmerHMM_glimmerT_36514-T1
Valid prediction for GlimmerHMM_glimmerT_36501-T1
Valid prediction for snap_scaffold_15-snap.1676-T1
Valid prediction for CodingQuarry_transcript_18056-T1
Valid prediction for snap_scaffold_15-snap.1665-T1
Couldn't classify 187113, 187142
Sorry, prediction pasa_asmbl_14312.p1 fails validation.
(TGC)	 TG	187113-187142	GT	AGG
(GTT)	 AG	187903-188053	GT	AGG
(CTG)	 AG	188226-188405	GT	AGG
(AAC)	 AG	188499-188620	GT	AGG
(GCC)	 AG	188778-188894	GT	CAG
(AGG)	 AG	189056-189133	GT	AGG
(CTG)	 AG	189223-189315	GT	GAG
(AAA)	 AG	189468-189548	GT	CGG
(TCG)	 AG	189694-189953	GT	TTG
(TGA)	 AG	190058-190202	GT	CAG
(GTT)	 AG	190289-190507	AC	AGA
-recovered pasa_asmbl_14312.p1, terminal, 190289, 190507
-recovered pasa_asmbl_14312.p1, internal, 187903, 188053
-recovered pasa_asmbl_14312.p1, internal, 188226, 188405
-recovered pasa_asmbl_14312.p1, internal, 188499, 188620
-recovered pasa_asmbl_14312.p1, internal, 188778, 188894
-recovered pasa_asmbl_14312.p1, internal, 189056, 189133
-recovered pasa_asmbl_14312.p1, internal, 189223, 189315
-recovered pasa_asmbl_14312.p1, internal, 189468, 189548
-recovered pasa_asmbl_14312.p1, internal, 189694, 189953
-recovered pasa_asmbl_14312.p1, internal, 190058, 190202
Valid prediction for Augustus_model.g24316.t1
Valid prediction for snap_scaffold_15-snap.1661-T1
Valid prediction for snap_scaffold_15-snap.1647-T1
Valid prediction for snap_scaffold_15-snap.1658-T1
Valid prediction for Augustus_model.g24313.t1
Valid prediction for GlimmerHMM_glimmerT_36516-T1
Valid prediction for CodingQuarry_transcript_18053-T1
Valid prediction for CodingQuarry_transcript_18054-T1
Valid prediction for pasa_asmbl_14320.p1
Valid prediction for snap_scaffold_15-snap.1652-T1
Valid prediction for Augustus_model.g24317.t1
Valid prediction for Augustus_model.g24314.t1
Valid prediction for GlimmerHMM_glimmerT_36525-T1
Valid prediction for HiQ_model.g24319.t1
Valid prediction for GlimmerHMM_glimmerT_36518-T1
Valid prediction for pasa_asmbl_14315.p1
Valid prediction for GlimmerHMM_glimmerT_36510-T1
Valid prediction for Augustus_model.g24315.t1
Valid prediction for snap_scaffold_15-snap.1650-T1
Valid prediction for snap_scaffold_15-snap.1663-T1
Valid prediction for snap_scaffold_15-snap.1672-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19340, rend_intergenic: 14064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28917, rend_intergenic: 24400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36297, rend_intergenic: 35480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64604, rend_intergenic: 45212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91162, rend_intergenic: 80579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105305, rend_intergenic: 96671  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106499, rend_intergenic: 105370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108922, rend_intergenic: 107583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137547, rend_intergenic: 108926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148922, rend_intergenic: 142278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152010, rend_intergenic: 149076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162091, rend_intergenic: 152601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174836, rend_intergenic: 164909  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203471, rend_intergenic: 200872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208553, rend_intergenic: 207338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 225986
-exon list size: 407


building trellis

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17.6    
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19.6    
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24.2    
24.4    
24.7    
24.9    
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25.4    
25.7    
25.9    
26.2    
26.4    
26.7    
26.9    
27.1    
27.4    
27.6    
27.9    
28.1    
28.4    
28.6    
28.9    
29.1    
29.3    
29.6    
29.8    
30.1    
30.3    
30.6    
30.8    
31.1    
31.3    
31.5    
31.8    
32.0    
32.3    
32.5    
32.8    
33.0    
33.3    
33.5    
33.7    
34.0    
34.2    
34.5    
34.7    
35.0    
35.2    
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35.7    
35.9    
36.2    
36.4    
36.7    
36.9    
37.2    
37.4    
37.7    
37.9    
38.1    
38.4    
38.6    
38.9    
39.1    
39.4    
39.6    
39.9    
40.1    
40.3    
40.6    
40.8    
41.1    
41.3    
41.6    
41.8    
42.1    
42.3    
42.5    
42.8    
43.0    
43.3    
43.5    
43.8    
44.0    
44.3    
44.5    
44.7    
45.0    
45.2    
45.5    
45.7    
46.0    
46.2    
46.5    
46.7    
46.9    
47.2    
47.4    
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47.9    
48.2    
48.4    
48.7    
48.9    
49.1    
49.4    
49.6    
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51.3    
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55.3    
55.5    
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56.0    
56.2    
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79.2    
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80.2    
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97.6    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 19340, rend_intergenic: 14064  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28917, rend_intergenic: 24400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36297, rend_intergenic: 35480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64604, rend_intergenic: 45212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91162, rend_intergenic: 80579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105305, rend_intergenic: 96671  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106499, rend_intergenic: 105370  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108922, rend_intergenic: 107583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137547, rend_intergenic: 108926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148922, rend_intergenic: 142278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152010, rend_intergenic: 149076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162091, rend_intergenic: 152601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174836, rend_intergenic: 164909  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203471, rend_intergenic: 200872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208553, rend_intergenic: 207338  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