-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1143

-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 2147, 2185
Couldn't classify 2871, 2957
Sorry, prediction pasa_asmbl_7411.p1 fails validation.
(AGC)	 CC	2147-2185	GT	CGG
(GTG)	 AG	2316-2431	GT	AGG
(AGG)	 AG	2580-2754	GT	AGG
(GCG)	 AG	2871-2957	AG	ACA
-recovered pasa_asmbl_7411.p1, internal, 2316, 2431
-recovered pasa_asmbl_7411.p1, internal, 2580, 2754
Couldn't classify 158, 189
Couldn't classify 2871, 2959
Sorry, prediction snap_scaffold_1143-snap.1-T1 fails validation.
(GTT)	 AG	158-189	GT	TGG
(CCC)	 AG	293-434	GT	AGG
(TAC)	 AG	693-789	GT	TGG
(GAA)	 AG	1089-1221	GT	AGG
(AGT)	 AG	1323-1475	GT	TGG
(AGC)	 AG	1571-1646	GT	AGG
(AGT)	 AG	1749-1850	GT	AGG
(ATG)	 AG	2074-2185	GT	CGG
(GTG)	 AG	2316-2431	GT	AGG
(AGG)	 AG	2580-2754	GT	AGG
(GCG)	 AG	2871-2959	GT	AGG
add_exon() Sorry, snap_scaffold_1143-snap.1-T1 2074-2185-initial-1 is invalid.
-recovered snap_scaffold_1143-snap.1-T1, initial, 2074, 2185
-recovered snap_scaffold_1143-snap.1-T1, internal, 158, 189
-recovered snap_scaffold_1143-snap.1-T1, internal, 293, 434
-recovered snap_scaffold_1143-snap.1-T1, internal, 693, 789
-recovered snap_scaffold_1143-snap.1-T1, internal, 1089, 1221
-recovered snap_scaffold_1143-snap.1-T1, internal, 1323, 1475
-recovered snap_scaffold_1143-snap.1-T1, internal, 1571, 1646
-recovered snap_scaffold_1143-snap.1-T1, internal, 1749, 1850
-recovered snap_scaffold_1143-snap.1-T1, internal, 2074, 2185
-recovered snap_scaffold_1143-snap.1-T1, internal, 2316, 2431
-recovered snap_scaffold_1143-snap.1-T1, internal, 2580, 2754
-recovered snap_scaffold_1143-snap.1-T1, internal, 2871, 2959
Couldn't classify 1749, 1761
Sorry, prediction pasa_asmbl_7410.p1 fails validation.
(ATG)	 AC	337-434	GT	AGG
(TAC)	 AG	693-789	GT	TGG
(GAA)	 AG	1089-1221	GT	AGG
(AGT)	 AG	1323-1475	GT	TGG
(AGC)	 AG	1571-1646	GT	AGG
(AGT)	 AG	1749-1761	GC	ATG
-recovered pasa_asmbl_7410.p1, initial, 337, 434
-recovered pasa_asmbl_7410.p1, internal, 693, 789
-recovered pasa_asmbl_7410.p1, internal, 1089, 1221
-recovered pasa_asmbl_7410.p1, internal, 1323, 1475
-recovered pasa_asmbl_7410.p1, internal, 1571, 1646
-recovered pasa_asmbl_7410.p1, internal, 1749, 1761
Couldn't classify 158, 189
Couldn't classify 2871, 2959
Sorry, prediction Augustus_model.g40375.t1 fails validation.
(GTT)	 AG	158-189	GT	TGG
(CCC)	 AG	293-434	GT	AGG
(TAC)	 AG	693-789	GT	TGG
(GAA)	 AG	1089-1221	GT	AGG
(AGT)	 AG	1323-1475	GT	TGG
(AGC)	 AG	1571-1646	GT	AGG
(AGT)	 AG	1749-1850	GT	AGG
(ATG)	 AG	2074-2185	GT	CGG
(GTG)	 AG	2316-2431	GT	AGG
(AGG)	 AG	2580-2754	GT	AGG
(GCG)	 AG	2871-2959	GT	AGG
add_exon() Sorry, Augustus_model.g40375.t1 2074-2185-initial-1 is invalid.
-recovered Augustus_model.g40375.t1, initial, 2074, 2185
-recovered Augustus_model.g40375.t1, internal, 158, 189
-recovered Augustus_model.g40375.t1, internal, 293, 434
-recovered Augustus_model.g40375.t1, internal, 693, 789
-recovered Augustus_model.g40375.t1, internal, 1089, 1221
-recovered Augustus_model.g40375.t1, internal, 1323, 1475
-recovered Augustus_model.g40375.t1, internal, 1571, 1646
-recovered Augustus_model.g40375.t1, internal, 1749, 1850
-recovered Augustus_model.g40375.t1, internal, 2074, 2185
-recovered Augustus_model.g40375.t1, internal, 2316, 2431
-recovered Augustus_model.g40375.t1, internal, 2580, 2754
-recovered Augustus_model.g40375.t1, internal, 2871, 2959
Couldn't classify 2871, 2959
Sorry, prediction GlimmerHMM_glimmerT_60995-T1 fails validation.
(ATG)	 AC	337-434	GT	AGG
(TAC)	 AG	693-789	GT	TGG
(GAA)	 AG	1089-1221	GT	AGG
(AGT)	 AG	1323-1475	GT	TGG
(AGC)	 AG	1571-1646	GT	AGG
(AGT)	 AG	1749-1850	GT	AGG
(ATG)	 AG	2074-2185	GT	CGG
(GTG)	 AG	2316-2431	GT	AGG
(AGG)	 AG	2580-2754	GT	AGG
(GCG)	 AG	2871-2959	GT	AGG
-recovered GlimmerHMM_glimmerT_60995-T1, initial, 337, 434
add_exon() Sorry, GlimmerHMM_glimmerT_60995-T1 2074-2185-initial-1 is invalid.
-recovered GlimmerHMM_glimmerT_60995-T1, initial, 2074, 2185
-recovered GlimmerHMM_glimmerT_60995-T1, internal, 693, 789
-recovered GlimmerHMM_glimmerT_60995-T1, internal, 1089, 1221
-recovered GlimmerHMM_glimmerT_60995-T1, internal, 1323, 1475
-recovered GlimmerHMM_glimmerT_60995-T1, internal, 1571, 1646
-recovered GlimmerHMM_glimmerT_60995-T1, internal, 1749, 1850
-recovered GlimmerHMM_glimmerT_60995-T1, internal, 2074, 2185
-recovered GlimmerHMM_glimmerT_60995-T1, internal, 2316, 2431
-recovered GlimmerHMM_glimmerT_60995-T1, internal, 2580, 2754
-recovered GlimmerHMM_glimmerT_60995-T1, internal, 2871, 2959

-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_1143-snap.2-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2959, rend_intergenic: 289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 3153
-exon list size: 22


building trellis

4.2    
8.3    
12.5    
16.7    
20.8    
25.0    
29.2    
33.3    
37.5    
41.7    
45.8    
50.0    
54.2    
58.3    
62.5    
66.7    
70.8    
75.0    
79.2    
83.3    
87.5    
91.7    
95.8    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 2959, rend_intergenic: 289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support