-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_8196551-8451910

-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 snap_scaffold_18-snap.1765-T1
Valid prediction for GlimmerHMM_glimmerT_42755-T1
Valid prediction for GlimmerHMM_glimmerT_42758-T1
Valid prediction for snap_scaffold_18-snap.1735-T1
Couldn't classify 233948, 234076
Couldn't classify 234480, 234580
Sorry, prediction pasa_asmbl_20842.p1 fails validation.
(AAT)	 CG	233948-234076	GT	AGG
(GTT)	 AG	234293-234374	GT	AGG
(GTA)	 AG	234480-234580	GA	CAG
-recovered pasa_asmbl_20842.p1, internal, 234293, 234374
Valid prediction for GlimmerHMM_glimmerT_42738-T1
Valid prediction for pasa_asmbl_20831.p1
Valid prediction for snap_scaffold_18-snap.1764-T1
Valid prediction for GlimmerHMM_glimmerT_42741-T1
Valid prediction for snap_scaffold_18-snap.1742-T1
Valid prediction for Augustus_model.g28517.t1
Couldn't classify 199924, 199971
Sorry, prediction pasa_asmbl_21119.p2 fails validation.
(AAA)	 GG	199924-199971	GT	AGG
(GTA)	 AG	200269-200369	GT	AAG
(CGC)	 AG	200588-201011	GC	GAG
-recovered pasa_asmbl_21119.p2, terminal, 200588, 201011
-recovered pasa_asmbl_21119.p2, internal, 200269, 200369
-recovered pasa_asmbl_21119.p2, internal, 200588, 201011
Valid prediction for HiQ_model.g28522.t1
Valid prediction for Augustus_model.g28526.t1
Valid prediction for GlimmerHMM_glimmerT_42764-T1
Valid prediction for snap_scaffold_18-snap.1763-T1
Valid prediction for Augustus_model.g28525.t1
Valid prediction for Augustus_model.g28516.t1
Valid prediction for GlimmerHMM_glimmerT_42760-T1
Valid prediction for GlimmerHMM_glimmerT_42736-T1
Valid prediction for GlimmerHMM_glimmerT_42744-T1
Valid prediction for Augustus_model.g28531.t1
Valid prediction for Augustus_model.g28528.t1
Valid prediction for Augustus_model.g28527.t1
Valid prediction for snap_scaffold_18-snap.1761-T1
Valid prediction for CodingQuarry_transcript_23847-T1
Valid prediction for CodingQuarry_transcript_23844-T1
Valid prediction for GlimmerHMM_glimmerT_42746-T1
Valid prediction for snap_scaffold_18-snap.1759-T1
Valid prediction for CodingQuarry_transcript_23843-T1
Valid prediction for Augustus_model.g28518.t1
Valid prediction for snap_scaffold_18-snap.1733-T1
Valid prediction for GlimmerHMM_glimmerT_42745-T1
Valid prediction for GlimmerHMM_glimmerT_42737-T1
Couldn't classify 232000, 232036
Couldn't classify 233381, 233445
Sorry, prediction pasa_asmbl_20841.p1 fails validation.
(CCG)	 CT	232000-232036	GT	TGG
(ATT)	 AG	232602-232829	GT	TGG
(ATT)	 AG	232992-233171	GT	GGG
(GTT)	 AG	233381-233445	AG	CCA
-recovered pasa_asmbl_20841.p1, internal, 232602, 232829
-recovered pasa_asmbl_20841.p1, internal, 232992, 233171
Valid prediction for snap_scaffold_18-snap.1745-T1
Valid prediction for Augustus_model.g28514.t1
Valid prediction for snap_scaffold_18-snap.1773-T1
Valid prediction for CodingQuarry_transcript_23845-T1
Valid prediction for GlimmerHMM_glimmerT_42747-T1
Valid prediction for snap_scaffold_18-snap.1734-T1
Valid prediction for Augustus_model.g28524.t1
Valid prediction for snap_scaffold_18-snap.1738-T1
Valid prediction for snap_scaffold_18-snap.1769-T1
Valid prediction for pasa_asmbl_20828.p1
Valid prediction for GlimmerHMM_glimmerT_42748-T1
Valid prediction for snap_scaffold_18-snap.1755-T1
Valid prediction for GlimmerHMM_glimmerT_42757-T1
Valid prediction for Augustus_model.g28515.t1
Valid prediction for snap_scaffold_18-snap.1766-T1
Valid prediction for snap_scaffold_18-snap.1728-T1
Valid prediction for snap_scaffold_18-snap.1736-T1
Valid prediction for snap_scaffold_18-snap.1767-T1
Valid prediction for snap_scaffold_18-snap.1760-T1
Valid prediction for GlimmerHMM_glimmerT_42756-T1
Valid prediction for CodingQuarry_transcript_23848-T1
Valid prediction for snap_scaffold_18-snap.1762-T1
Valid prediction for CodingQuarry_transcript_23849-T1
Valid prediction for GlimmerHMM_glimmerT_42734-T1
Valid prediction for Augustus_model.g28520.t1
Valid prediction for Augustus_model.g28523.t1
Valid prediction for CodingQuarry_transcript_23846-T1
Valid prediction for GlimmerHMM_glimmerT_42752-T1
Valid prediction for Augustus_model.g28519.t1
Valid prediction for snap_scaffold_18-snap.1731-T1
Valid prediction for pasa_asmbl_20840.p1
Valid prediction for snap_scaffold_18-snap.1740-T1
Valid prediction for snap_scaffold_18-snap.1729-T1
Valid prediction for snap_scaffold_18-snap.1752-T1
Valid prediction for snap_scaffold_18-snap.1743-T1
Valid prediction for GlimmerHMM_glimmerT_42735-T1
Valid prediction for GlimmerHMM_glimmerT_42762-T1
Valid prediction for GlimmerHMM_glimmerT_42749-T1
Couldn't classify 195041, 195158
Couldn't classify 195689, 195828
Sorry, prediction pasa_asmbl_21053.p1 fails validation.
(AAA)	 AG	195041-195158	GT	GGG
(CCT)	 AG	195444-195593	GT	GGG
(AGG)	 AG	195689-195828	GT	GAG
-recovered pasa_asmbl_21053.p1, internal, 195041, 195158
-recovered pasa_asmbl_21053.p1, internal, 195444, 195593
-recovered pasa_asmbl_21053.p1, internal, 195689, 195828
Valid prediction for GlimmerHMM_glimmerT_42742-T1
Valid prediction for snap_scaffold_18-snap.1750-T1
Couldn't classify 236789, 236902
Sorry, prediction pasa_asmbl_21100.p1 fails validation.
(TGC)	 GG	236789-236902	GT	AAG
(GAT)	 AG	237480-238106	CC	GAC
-recovered pasa_asmbl_21100.p1, terminal, 237480, 238106

-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_18-snap.1757-T1
Valid prediction for snap_scaffold_18-snap.1749-T1
Valid prediction for snap_scaffold_18-snap.1751-T1
Valid prediction for GlimmerHMM_glimmerT_42743-T1
Valid prediction for snap_scaffold_18-snap.1768-T1
Valid prediction for snap_scaffold_18-snap.1756-T1
Valid prediction for GlimmerHMM_glimmerT_42761-T1
Valid prediction for CodingQuarry_transcript_23842-T1
Valid prediction for snap_scaffold_18-snap.1739-T1
Valid prediction for CodingQuarry_transcript_23841-T1
Valid prediction for snap_scaffold_18-snap.1744-T1
Valid prediction for snap_scaffold_18-snap.1732-T1
Valid prediction for snap_scaffold_18-snap.1758-T1
Valid prediction for CodingQuarry_transcript_23853-T1
Valid prediction for GlimmerHMM_glimmerT_42753-T1
Valid prediction for HiQ_model.g28529.t1
Valid prediction for snap_scaffold_18-snap.1770-T1
Valid prediction for pasa_asmbl_20009.p1
Valid prediction for pasa_asmbl_20002.p1
Valid prediction for Augustus_model.g28521.t1
Valid prediction for CodingQuarry_transcript_23850-T1
Valid prediction for CodingQuarry_transcript_23852-T1
Valid prediction for snap_scaffold_18-snap.1753-T1
Valid prediction for Augustus_model.g28533.t1
Valid prediction for HiQ_model.g28530.t1
Valid prediction for pasa_asmbl_20011.p1
Valid prediction for snap_scaffold_18-snap.1730-T1
Valid prediction for snap_scaffold_18-snap.1748-T1
Valid prediction for GlimmerHMM_glimmerT_42759-T1
Valid prediction for GlimmerHMM_glimmerT_42733-T1
Valid prediction for GlimmerHMM_glimmerT_42766-T1
Valid prediction for GlimmerHMM_glimmerT_42750-T1
Valid prediction for snap_scaffold_18-snap.1726-T1
Valid prediction for HiQ_model.g28532.t1
Valid prediction for snap_scaffold_18-snap.1741-T1
Valid prediction for snap_scaffold_18-snap.1754-T1
Valid prediction for CodingQuarry_transcript_23851-T1
Valid prediction for snap_scaffold_18-snap.1727-T1
Valid prediction for GlimmerHMM_glimmerT_42754-T1
Valid prediction for GlimmerHMM_glimmerT_42763-T1
Valid prediction for GlimmerHMM_glimmerT_42740-T1
Valid prediction for GlimmerHMM_glimmerT_42739-T1
Valid prediction for snap_scaffold_18-snap.1747-T1
Valid prediction for snap_scaffold_18-snap.1746-T1
Valid prediction for GlimmerHMM_glimmerT_42765-T1
Valid prediction for snap_scaffold_18-snap.1737-T1
Valid prediction for GlimmerHMM_glimmerT_42751-T1
Valid prediction for snap_scaffold_18-snap.1771-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19525, rend_intergenic: 14057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21927, rend_intergenic: 19829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26194, rend_intergenic: 22294  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61234, rend_intergenic: 28867  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62474, rend_intergenic: 61448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63686, rend_intergenic: 62518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67969, rend_intergenic: 65401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79054, rend_intergenic: 68627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97185, rend_intergenic: 83833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100808, rend_intergenic: 97613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144728, rend_intergenic: 105530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154589, rend_intergenic: 149076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160446, rend_intergenic: 154880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163874, rend_intergenic: 160479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181873, rend_intergenic: 177323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 238106, rend_intergenic: 232435  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 255360
-exon list size: 486


building trellis

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99.4    
99.6    
99.8    
-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 19525, rend_intergenic: 14057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21927, rend_intergenic: 19829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26194, rend_intergenic: 22294  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61234, rend_intergenic: 28867  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62474, rend_intergenic: 61448  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63686, rend_intergenic: 62518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67969, rend_intergenic: 65401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79054, rend_intergenic: 68627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97185, rend_intergenic: 83833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100808, rend_intergenic: 97613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144728, rend_intergenic: 105530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154589, rend_intergenic: 149076  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160446, rend_intergenic: 154880  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163874, rend_intergenic: 160479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181873, rend_intergenic: 177323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 238106, rend_intergenic: 232435  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support