-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_15/scaffold_15_6215437-6407068

-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 GeneMark_model.63820_t
Valid prediction for snap_scaffold_15-snap.1360-T1
Valid prediction for Augustus_model.g24880.t1
Valid prediction for GeneMark_model.63826_t
Valid prediction for GeneMark_model.63818_t
Valid prediction for snap_scaffold_15-snap.1356-T1
Valid prediction for GeneMark_model.63841_t
Valid prediction for GlimmerHMM_glimmerT_37094-T1
Valid prediction for GlimmerHMM_glimmerT_37076-T1
Valid prediction for snap_scaffold_15-snap.1344-T1
Valid prediction for GeneMark_model.63828_t
Valid prediction for GlimmerHMM_glimmerT_37081-T1
Valid prediction for snap_scaffold_15-snap.1350-T1
Valid prediction for GeneMark_model.63836_t
Valid prediction for GeneMark_model.63805_t
Valid prediction for GeneMark_model.63847_t
Valid prediction for GeneMark_model.63807_t
Valid prediction for GeneMark_model.63803_t
Valid prediction for snap_scaffold_15-snap.1363-T1
Valid prediction for GeneMark_model.63849_t
Valid prediction for snap_scaffold_15-snap.1340-T1
Valid prediction for snap_scaffold_15-snap.1362-T1
Valid prediction for GeneMark_model.63811_t
Valid prediction for GlimmerHMM_glimmerT_37092-T1
Valid prediction for snap_scaffold_15-snap.1353-T1
Valid prediction for GlimmerHMM_glimmerT_37083-T1
Valid prediction for GeneMark_model.63806_t
Valid prediction for snap_scaffold_15-snap.1359-T1
Valid prediction for GlimmerHMM_glimmerT_37079-T1
Valid prediction for GeneMark_model.63834_t
Valid prediction for Augustus_model.g24872.t1
Valid prediction for GlimmerHMM_glimmerT_37078-T1
Valid prediction for GeneMark_model.63794_t
Valid prediction for GlimmerHMM_glimmerT_37095-T1
Valid prediction for GeneMark_model.63782_t
Valid prediction for snap_scaffold_15-snap.1367-T1
Valid prediction for snap_scaffold_15-snap.1371-T1
Valid prediction for GeneMark_model.63791_t
Valid prediction for GeneMark_model.63795_t
Valid prediction for snap_scaffold_15-snap.1366-T1
Valid prediction for GeneMark_model.63802_t
Valid prediction for GeneMark_model.63822_t
Valid prediction for GeneMark_model.63797_t
Valid prediction for GeneMark_model.63830_t
Valid prediction for GeneMark_model.63809_t
Couldn't classify 19699, 20070
Sorry, prediction pasa_asmbl_14193.p1 fails validation.
(TTT)	 GT	19699-20070	CT	GAC
Valid prediction for snap_scaffold_15-snap.1351-T1
Valid prediction for GeneMark_model.63784_t
Valid prediction for GeneMark_model.63793_t
Valid prediction for GlimmerHMM_glimmerT_37087-T1
Valid prediction for GlimmerHMM_glimmerT_37088-T1
Valid prediction for snap_scaffold_15-snap.1374-T1
Valid prediction for GeneMark_model.63787_t
Valid prediction for snap_scaffold_15-snap.1369-T1
Valid prediction for snap_scaffold_15-snap.1347-T1
Valid prediction for GeneMark_model.63837_t
Valid prediction for GeneMark_model.63813_t
Valid prediction for snap_scaffold_15-snap.1378-T1
Valid prediction for GeneMark_model.63814_t
Valid prediction for GeneMark_model.63816_t
Valid prediction for GlimmerHMM_glimmerT_37097-T1
Valid prediction for GlimmerHMM_glimmerT_37099-T1
Valid prediction for GeneMark_model.63824_t
Valid prediction for GlimmerHMM_glimmerT_37086-T1
Valid prediction for snap_scaffold_15-snap.1361-T1
Valid prediction for GeneMark_model.63843_t
Valid prediction for GeneMark_model.63839_t
Valid prediction for GeneMark_model.63845_t
Valid prediction for GeneMark_model.63832_t
Valid prediction for snap_scaffold_15-snap.1373-T1
Valid prediction for GeneMark_model.63785_t

-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 GeneMark_model.63815_t
Valid prediction for GeneMark_model.63838_t
Valid prediction for GeneMark_model.63804_t
Valid prediction for GeneMark_model.63783_t
Valid prediction for GlimmerHMM_glimmerT_37093-T1
Valid prediction for GeneMark_model.63812_t
Valid prediction for GeneMark_model.63790_t
Valid prediction for GeneMark_model.63840_t
Valid prediction for GeneMark_model.63798_t
Valid prediction for GeneMark_model.63781_t
Valid prediction for snap_scaffold_15-snap.1345-T1
Valid prediction for GeneMark_model.63823_t
Valid prediction for GeneMark_model.63827_t
Valid prediction for GlimmerHMM_glimmerT_37085-T1
Valid prediction for snap_scaffold_15-snap.1364-T1
Valid prediction for snap_scaffold_15-snap.1343-T1
Valid prediction for snap_scaffold_15-snap.1352-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GeneMark_model.63819_t
Valid prediction for Augustus_model.g24878.t1
Valid prediction for GlimmerHMM_glimmerT_37080-T1
Valid prediction for snap_scaffold_15-snap.1368-T1
Valid prediction for Augustus_model.g24877.t1
Valid prediction for Augustus_model.g24879.t1
Valid prediction for snap_scaffold_15-snap.1365-T1
Valid prediction for snap_scaffold_15-snap.1355-T1
Valid prediction for snap_scaffold_15-snap.1372-T1
Valid prediction for GeneMark_model.63788_t
Valid prediction for snap_scaffold_15-snap.1375-T1
Valid prediction for GeneMark_model.63810_t
Valid prediction for GeneMark_model.63825_t
Valid prediction for GlimmerHMM_glimmerT_37084-T1
Valid prediction for GeneMark_model.63821_t
Valid prediction for GeneMark_model.63835_t
Valid prediction for GeneMark_model.63808_t
Valid prediction for snap_scaffold_15-snap.1358-T1
Valid prediction for snap_scaffold_15-snap.1349-T1
Valid prediction for Augustus_model.g24882.t1
Valid prediction for GeneMark_model.63801_t
Valid prediction for Augustus_model.g24874.t1
Valid prediction for GeneMark_model.63792_t
Valid prediction for snap_scaffold_15-snap.1370-T1
Valid prediction for snap_scaffold_15-snap.1346-T1
Valid prediction for Augustus_model.g24875.t1
Valid prediction for GeneMark_model.63833_t
Valid prediction for snap_scaffold_15-snap.1341-T1
Valid prediction for Augustus_model.g24873.t1
Valid prediction for Augustus_model.g24876.t1
Valid prediction for GlimmerHMM_glimmerT_37100-T1
Valid prediction for GeneMark_model.63799_t
Valid prediction for GeneMark_model.63796_t
Valid prediction for GeneMark_model.63831_t
Valid prediction for GlimmerHMM_glimmerT_37090-T1
Valid prediction for Augustus_model.g24881.t1
Valid prediction for snap_scaffold_15-snap.1357-T1
Valid prediction for GlimmerHMM_glimmerT_37098-T1
Valid prediction for GlimmerHMM_glimmerT_37089-T1
Valid prediction for snap_scaffold_15-snap.1342-T1
Valid prediction for snap_scaffold_15-snap.1354-T1
Valid prediction for GeneMark_model.63829_t
Valid prediction for GlimmerHMM_glimmerT_37077-T1
Valid prediction for snap_scaffold_15-snap.1376-T1
Valid prediction for GeneMark_model.63846_t
Valid prediction for GeneMark_model.63789_t
Valid prediction for GlimmerHMM_glimmerT_37091-T1
Valid prediction for GlimmerHMM_glimmerT_37096-T1
Valid prediction for GeneMark_model.63786_t
Valid prediction for GeneMark_model.63848_t
Valid prediction for GeneMark_model.63817_t
Valid prediction for GlimmerHMM_glimmerT_37082-T1
Valid prediction for GeneMark_model.63800_t
Valid prediction for snap_scaffold_15-snap.1348-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 20179, rend_intergenic: 6940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38396, rend_intergenic: 36441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45519, rend_intergenic: 38526  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53768, rend_intergenic: 45969  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65504, rend_intergenic: 59603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83553, rend_intergenic: 81036  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126335, rend_intergenic: 101569  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130093, rend_intergenic: 128142  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133677, rend_intergenic: 130882  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140401, rend_intergenic: 135154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142665, rend_intergenic: 140748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152577, rend_intergenic: 145633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155646, rend_intergenic: 152726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157037, rend_intergenic: 155752  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168569, rend_intergenic: 157923  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176662, rend_intergenic: 170638  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 191632
-exon list size: 785


building trellis

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98.2    
98.3    
98.5    
98.6    
98.7    
98.9    
99.0    
99.1    
99.2    
99.4    
99.5    
99.6    
99.7    
99.9    
-found 40 predictions from path traversal
Error with prediction: snap lend_intergenic: 20179, rend_intergenic: 6940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38396, rend_intergenic: 36441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45519, rend_intergenic: 38526  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53768, rend_intergenic: 45969  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65504, rend_intergenic: 59603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83553, rend_intergenic: 81036  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126335, rend_intergenic: 101569  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130093, rend_intergenic: 128142  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133677, rend_intergenic: 130882  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140401, rend_intergenic: 135154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142665, rend_intergenic: 140748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152577, rend_intergenic: 145633  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155646, rend_intergenic: 152726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157037, rend_intergenic: 155752  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168569, rend_intergenic: 157923  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176662, rend_intergenic: 170638  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support