-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_8929757-9165330

-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: +)Couldn't classify 138293, 138375
Sorry, prediction pasa_asmbl_12271.p1 fails validation.
(ACC)	 CG	138293-138375	GT	AAG
(AGG)	 AG	139096-139204	GT	AGG
(CTG)	 AG	139347-139421	GT	AGG
(AGT)	 AG	139654-139876	GT	TGG
(GTT)	 AG	140153-140325	GT	AGG
(GAA)	 AG	140568-140629	GT	AGG
(GTT)	 AG	140902-140959	GT	AGG
(GCT)	 AG	141853-141905	GT	GGG
(GGT)	 AG	141986-142025	GT	AGG
(GTT)	 AG	142216-142308	GT	AGG
(GAG)	 AG	142955-143005	AA	AGA
-recovered pasa_asmbl_12271.p1, terminal, 142955, 143005
-recovered pasa_asmbl_12271.p1, internal, 139096, 139204
-recovered pasa_asmbl_12271.p1, internal, 139347, 139421
-recovered pasa_asmbl_12271.p1, internal, 139654, 139876
-recovered pasa_asmbl_12271.p1, internal, 140153, 140325
-recovered pasa_asmbl_12271.p1, internal, 140568, 140629
-recovered pasa_asmbl_12271.p1, internal, 140902, 140959
-recovered pasa_asmbl_12271.p1, internal, 141853, 141905
-recovered pasa_asmbl_12271.p1, internal, 141986, 142025
-recovered pasa_asmbl_12271.p1, internal, 142216, 142308
Valid prediction for snap_scaffold_14-snap.1874-T1
Valid prediction for GlimmerHMM_glimmerT_34400-T1
Valid prediction for snap_scaffold_14-snap.1870-T1
Valid prediction for HiQ_model.g22987.t1
Valid prediction for snap_scaffold_14-snap.1856-T1
Valid prediction for snap_scaffold_14-snap.1864-T1
Valid prediction for snap_scaffold_14-snap.1865-T1
Valid prediction for Augustus_model.g22979.t1
Valid prediction for snap_scaffold_14-snap.1888-T1
Valid prediction for snap_scaffold_14-snap.1854-T1
Valid prediction for snap_scaffold_14-snap.1862-T1
Valid prediction for snap_scaffold_14-snap.1861-T1
Valid prediction for snap_scaffold_14-snap.1893-T1
Valid prediction for GlimmerHMM_glimmerT_34419-T1
Valid prediction for snap_scaffold_14-snap.1850-T1
Valid prediction for snap_scaffold_14-snap.1855-T1
Valid prediction for snap_scaffold_14-snap.1894-T1
Valid prediction for GlimmerHMM_glimmerT_34416-T1
Valid prediction for GlimmerHMM_glimmerT_34401-T1
Valid prediction for GlimmerHMM_glimmerT_34412-T1
Valid prediction for snap_scaffold_14-snap.1878-T1
Valid prediction for Augustus_model.g22978.t1
Valid prediction for snap_scaffold_14-snap.1867-T1
Valid prediction for snap_scaffold_14-snap.1851-T1
Valid prediction for Augustus_model.g22977.t1
Valid prediction for snap_scaffold_14-snap.1887-T1
Valid prediction for Augustus_model.g22988.t1
Valid prediction for Augustus_model.g22980.t1
Valid prediction for snap_scaffold_14-snap.1877-T1
Valid prediction for GlimmerHMM_glimmerT_34409-T1
Valid prediction for snap_scaffold_14-snap.1891-T1
Valid prediction for GlimmerHMM_glimmerT_34404-T1
Valid prediction for snap_scaffold_14-snap.1885-T1
Valid prediction for snap_scaffold_14-snap.1880-T1
Valid prediction for GlimmerHMM_glimmerT_34418-T1
Valid prediction for snap_scaffold_14-snap.1859-T1
Valid prediction for snap_scaffold_14-snap.1883-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 GlimmerHMM_glimmerT_34420-T1
Valid prediction for snap_scaffold_14-snap.1863-T1
Valid prediction for Augustus_model.g22984.t1
Valid prediction for snap_scaffold_14-snap.1876-T1
Valid prediction for snap_scaffold_14-snap.1860-T1
Valid prediction for Augustus_model.g22990.t1
Valid prediction for GlimmerHMM_glimmerT_34403-T1
Valid prediction for Augustus_model.g22981.t1
Valid prediction for snap_scaffold_14-snap.1895-T1
Valid prediction for snap_scaffold_14-snap.1857-T1
Valid prediction for snap_scaffold_14-snap.1875-T1
Valid prediction for snap_scaffold_14-snap.1858-T1
Valid prediction for snap_scaffold_14-snap.1886-T1
Valid prediction for snap_scaffold_14-snap.1868-T1
Valid prediction for Augustus_model.g22989.t1
Valid prediction for GlimmerHMM_glimmerT_34405-T1
Valid prediction for GlimmerHMM_glimmerT_34414-T1
Valid prediction for GlimmerHMM_glimmerT_34407-T1
Valid prediction for GlimmerHMM_glimmerT_34415-T1
Valid prediction for snap_scaffold_14-snap.1879-T1
Valid prediction for GlimmerHMM_glimmerT_34413-T1
Valid prediction for snap_scaffold_14-snap.1852-T1
Valid prediction for Augustus_model.g22982.t1
Valid prediction for snap_scaffold_14-snap.1872-T1
Valid prediction for GlimmerHMM_glimmerT_34410-T1
Valid prediction for Augustus_model.g22991.t1
Valid prediction for snap_scaffold_14-snap.1890-T1
Valid prediction for HiQ_model.g22986.t1
Valid prediction for Augustus_model.g22983.t1
Valid prediction for Augustus_model.g22985.t1
Valid prediction for snap_scaffold_14-snap.1869-T1
Valid prediction for snap_scaffold_14-snap.1892-T1
Valid prediction for GlimmerHMM_glimmerT_34408-T1
Valid prediction for snap_scaffold_14-snap.1866-T1
Valid prediction for snap_scaffold_14-snap.1849-T1
Valid prediction for snap_scaffold_14-snap.1881-T1
Valid prediction for snap_scaffold_14-snap.1853-T1
Valid prediction for snap_scaffold_14-snap.1884-T1
Valid prediction for snap_scaffold_14-snap.1882-T1
Valid prediction for snap_scaffold_14-snap.1889-T1
Valid prediction for CodingQuarry_transcript_15785-T1
Valid prediction for GlimmerHMM_glimmerT_34406-T1
Valid prediction for snap_scaffold_14-snap.1873-T1
Valid prediction for GlimmerHMM_glimmerT_34411-T1
Valid prediction for GlimmerHMM_glimmerT_34402-T1
Valid prediction for GlimmerHMM_glimmerT_34417-T1
Valid prediction for snap_scaffold_14-snap.1871-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9959, rend_intergenic: 6589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13756, rend_intergenic: 10665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17691, rend_intergenic: 15282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37070, rend_intergenic: 32015  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48017, rend_intergenic: 38621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58617, rend_intergenic: 51414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66457, rend_intergenic: 59569  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83116, rend_intergenic: 67664  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86566, rend_intergenic: 83181  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91955, rend_intergenic: 86895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100883, rend_intergenic: 92140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120288, rend_intergenic: 107197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143005, rend_intergenic: 138950  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144687, rend_intergenic: 143261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150239, rend_intergenic: 149751  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159154, rend_intergenic: 158095  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162129, rend_intergenic: 159193  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177112, rend_intergenic: 172633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199024, rend_intergenic: 185198  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207893, rend_intergenic: 200542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215521, rend_intergenic: 214623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219311, rend_intergenic: 216307  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 225996, rend_intergenic: 220715  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231059, rend_intergenic: 226726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 235574
-exon list size: 328


building trellis

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90.0    
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93.6    
93.9    
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95.5    
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96.1    
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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 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 9959, rend_intergenic: 6589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13756, rend_intergenic: 10665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17691, rend_intergenic: 15282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37070, rend_intergenic: 32015  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48017, rend_intergenic: 38621  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58617, rend_intergenic: 51414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66457, rend_intergenic: 59569  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83116, rend_intergenic: 67664  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86566, rend_intergenic: 83181  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91955, rend_intergenic: 86895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100883, rend_intergenic: 92140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120288, rend_intergenic: 107197  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143005, rend_intergenic: 138950  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144687, rend_intergenic: 143261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150239, rend_intergenic: 149751  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159154, rend_intergenic: 158095  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162129, rend_intergenic: 159193  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177112, rend_intergenic: 172633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199024, rend_intergenic: 185198  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207893, rend_intergenic: 200542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215521, rend_intergenic: 214623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219311, rend_intergenic: 216307  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 225996, rend_intergenic: 220715  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231059, rend_intergenic: 226726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support