-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_5975217-6145123

-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 Augustus_model.g37004.t1
Valid prediction for GlimmerHMM_glimmerT_55817-T1
Valid prediction for GlimmerHMM_glimmerT_55822-T1
Valid prediction for pasa_asmbl_35070.p1
Valid prediction for GlimmerHMM_glimmerT_55816-T1
Valid prediction for HiQ_model.g36992.t1
Valid prediction for GlimmerHMM_glimmerT_55819-T1
Valid prediction for snap_scaffold_26-snap.1388-T1
Valid prediction for CodingQuarry_transcript_40381-T1
Valid prediction for snap_scaffold_26-snap.1349-T1
Valid prediction for snap_scaffold_26-snap.1352-T1
Valid prediction for snap_scaffold_26-snap.1360-T1
Valid prediction for snap_scaffold_26-snap.1383-T1
Valid prediction for snap_scaffold_26-snap.1368-T1
Valid prediction for HiQ_model.g36985.t1
Valid prediction for snap_scaffold_26-snap.1354-T1
Valid prediction for snap_scaffold_26-snap.1351-T1
Valid prediction for snap_scaffold_26-snap.1364-T1
Valid prediction for GlimmerHMM_glimmerT_55828-T1
Valid prediction for snap_scaffold_26-snap.1376-T1
Valid prediction for snap_scaffold_26-snap.1387-T1
Valid prediction for snap_scaffold_26-snap.1370-T1
Valid prediction for GlimmerHMM_glimmerT_55827-T1
Valid prediction for GlimmerHMM_glimmerT_55808-T1
Valid prediction for CodingQuarry_transcript_40379-T1
Valid prediction for snap_scaffold_26-snap.1361-T1
Valid prediction for Augustus_model.g36999.t1
Valid prediction for GlimmerHMM_glimmerT_55824-T1
Valid prediction for Augustus_model.g37005.t1
Valid prediction for snap_scaffold_26-snap.1345-T1
Valid prediction for GlimmerHMM_glimmerT_55802-T1
Valid prediction for snap_scaffold_26-snap.1379-T1
Valid prediction for GlimmerHMM_glimmerT_55809-T1
Valid prediction for Augustus_model.g37003.t1
Valid prediction for pasa_asmbl_35067.p1
Valid prediction for snap_scaffold_26-snap.1348-T1
Valid prediction for snap_scaffold_26-snap.1381-T1
Couldn't classify 8110, 8186
Sorry, prediction pasa_asmbl_35066.p1 fails validation.
(CTC)	 CT	8110-8186	GT	GTG
(GTT)	 AG	8297-8510	GT	AGG
(CTC)	 AG	8766-8873	AA	AGA
-recovered pasa_asmbl_35066.p1, terminal, 8766, 8873
-recovered pasa_asmbl_35066.p1, internal, 8297, 8510
Valid prediction for Augustus_model.g37002.t1
Valid prediction for snap_scaffold_26-snap.1384-T1
Valid prediction for snap_scaffold_26-snap.1372-T1
Valid prediction for pasa_asmbl_35071.p1
Valid prediction for snap_scaffold_26-snap.1365-T1
Valid prediction for GlimmerHMM_glimmerT_55820-T1
Valid prediction for snap_scaffold_26-snap.1378-T1
Valid prediction for Augustus_model.g36997.t1
Valid prediction for GlimmerHMM_glimmerT_55806-T1
Valid prediction for HiQ_model.g36991.t1
Valid prediction for GlimmerHMM_glimmerT_55801-T1
Valid prediction for GlimmerHMM_glimmerT_55815-T1
Valid prediction for pasa_asmbl_35061.p1
Valid prediction for CodingQuarry_transcript_40382-T1
Valid prediction for GlimmerHMM_glimmerT_55825-T1
Valid prediction for snap_scaffold_26-snap.1374-T1
Valid prediction for Augustus_model.g36998.t1
Valid prediction for Augustus_model.g36990.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.g36995.t1
Valid prediction for snap_scaffold_26-snap.1382-T1
Valid prediction for snap_scaffold_26-snap.1363-T1
Valid prediction for GlimmerHMM_glimmerT_55812-T1
Valid prediction for snap_scaffold_26-snap.1359-T1
Valid prediction for snap_scaffold_26-snap.1373-T1
Valid prediction for snap_scaffold_26-snap.1355-T1
Valid prediction for snap_scaffold_26-snap.1346-T1
Couldn't classify 97640, 97816
Sorry, prediction pasa_asmbl_35663.p1 fails validation.
(ACC)	 AG	97640-97816	GT	AGG
(GAC)	 AG	97915-98170	GT	AGG
(ACC)	 AG	100283-100591	GT	AGG
(GGC)	 AG	100819-101004	GT	GGG
(GTC)	 AG	102112-102716	GC	GAG
-recovered pasa_asmbl_35663.p1, terminal, 102112, 102716
-recovered pasa_asmbl_35663.p1, internal, 97640, 97816
-recovered pasa_asmbl_35663.p1, internal, 97915, 98170
-recovered pasa_asmbl_35663.p1, internal, 100283, 100591
-recovered pasa_asmbl_35663.p1, internal, 100819, 101004
-recovered pasa_asmbl_35663.p1, internal, 102112, 102716
Valid prediction for Augustus_model.g36989.t1
Valid prediction for GlimmerHMM_glimmerT_55814-T1
Valid prediction for snap_scaffold_26-snap.1357-T1
Valid prediction for GlimmerHMM_glimmerT_55829-T1
Valid prediction for GlimmerHMM_glimmerT_55804-T1
Valid prediction for snap_scaffold_26-snap.1347-T1
Valid prediction for snap_scaffold_26-snap.1371-T1
Valid prediction for snap_scaffold_26-snap.1386-T1
Valid prediction for snap_scaffold_26-snap.1356-T1
Valid prediction for snap_scaffold_26-snap.1366-T1
Valid prediction for snap_scaffold_26-snap.1353-T1
Valid prediction for GlimmerHMM_glimmerT_55821-T1
Valid prediction for snap_scaffold_26-snap.1367-T1
Valid prediction for Augustus_model.g36986.t1
Valid prediction for snap_scaffold_26-snap.1380-T1
Valid prediction for snap_scaffold_26-snap.1389-T1
Valid prediction for GlimmerHMM_glimmerT_55805-T1
Valid prediction for Augustus_model.g36987.t1
Valid prediction for snap_scaffold_26-snap.1350-T1
Valid prediction for Augustus_model.g36996.t1
Valid prediction for snap_scaffold_26-snap.1369-T1
Valid prediction for Augustus_model.g36994.t1
Valid prediction for GlimmerHMM_glimmerT_55823-T1
Valid prediction for GlimmerHMM_glimmerT_55807-T1
Valid prediction for GlimmerHMM_glimmerT_55811-T1
Valid prediction for snap_scaffold_26-snap.1375-T1
Valid prediction for pasa_asmbl_35665.p1
Valid prediction for GlimmerHMM_glimmerT_55818-T1
Valid prediction for snap_scaffold_26-snap.1358-T1
Valid prediction for GlimmerHMM_glimmerT_55813-T1
Valid prediction for snap_scaffold_26-snap.1362-T1
Couldn't classify 149679, 149805
Couldn't classify 152428, 152462
Sorry, prediction pasa_asmbl_35661.p1 fails validation.
(AAC)	 AT	149679-149805	GT	TGG
(ATG)	 AG	152028-152297	GT	AGG
(CAA)	 AG	152428-152462	AC	CCA
add_exon() Sorry, pasa_asmbl_35661.p1 152028-152297-initial-1 is invalid.
-recovered pasa_asmbl_35661.p1, initial, 152028, 152297
-recovered pasa_asmbl_35661.p1, internal, 152028, 152297
Valid prediction for GlimmerHMM_glimmerT_55810-T1
Valid prediction for Augustus_model.g36993.t1
Valid prediction for Augustus_model.g36988.t1
Valid prediction for Augustus_model.g37001.t1
Valid prediction for GlimmerHMM_glimmerT_55826-T1
Valid prediction for snap_scaffold_26-snap.1377-T1
Valid prediction for GlimmerHMM_glimmerT_55803-T1
Valid prediction for snap_scaffold_26-snap.1385-T1
Valid prediction for Augustus_model.g37000.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19789, rend_intergenic: 18406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44374, rend_intergenic: 39621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70805, rend_intergenic: 67192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92109, rend_intergenic: 90214  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100088, rend_intergenic: 95688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106825, rend_intergenic: 101042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110460, rend_intergenic: 107523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130672, rend_intergenic: 125345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150307, rend_intergenic: 147781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153071, rend_intergenic: 151157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165636, rend_intergenic: 154972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 169907
-exon list size: 399


building trellis

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26.4    
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28.4    
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28.9    
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29.9    
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31.2    
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31.9    
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32.4    
32.7    
32.9    
33.2    
33.4    
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34.9    
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35.4    
35.7    
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36.9    
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37.9    
38.2    
38.4    
38.7    
38.9    
39.2    
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39.9    
40.1    
40.4    
40.6    
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41.6    
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80.3    
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81.0    
81.3    
81.5    
81.8    
82.0    
82.3    
82.5    
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83.0    
83.3    
83.5    
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84.0    
84.3    
84.5    
84.8    
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86.3    
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88.0    
88.3    
88.5    
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89.3    
89.5    
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90.3    
90.5    
90.8    
91.0    
91.3    
91.5    
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92.0    
92.3    
92.5    
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93.0    
93.3    
93.5    
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95.3    
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96.3    
96.5    
96.8    
97.0    
97.3    
97.5    
97.8    
98.0    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 19789, rend_intergenic: 18406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44374, rend_intergenic: 39621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70805, rend_intergenic: 67192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92109, rend_intergenic: 90214  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100088, rend_intergenic: 95688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106825, rend_intergenic: 101042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110460, rend_intergenic: 107523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130672, rend_intergenic: 125345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150307, rend_intergenic: 147781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153071, rend_intergenic: 151157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165636, rend_intergenic: 154972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 31 predictions persist after filtering for low support