-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_9304899-9615245

-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 pasa_asmbl_15388.p1
Valid prediction for GlimmerHMM_glimmerT_36698-T1
Valid prediction for GlimmerHMM_glimmerT_36716-T1
Valid prediction for snap_scaffold_15-snap.1977-T1
Valid prediction for snap_scaffold_15-snap.1963-T1
Valid prediction for snap_scaffold_15-snap.1978-T1
Valid prediction for GlimmerHMM_glimmerT_36715-T1
Valid prediction for Augustus_model.g24451.t1
Valid prediction for snap_scaffold_15-snap.1950-T1
Valid prediction for GlimmerHMM_glimmerT_36696-T1
Valid prediction for GlimmerHMM_glimmerT_36710-T1
Valid prediction for snap_scaffold_15-snap.1948-T1
Valid prediction for snap_scaffold_15-snap.1951-T1
Valid prediction for snap_scaffold_15-snap.1949-T1
Valid prediction for Augustus_model.g24437.t1
Valid prediction for GlimmerHMM_glimmerT_36725-T1
Valid prediction for CodingQuarry_transcript_18098-T1
Valid prediction for snap_scaffold_15-snap.1960-T1
Valid prediction for snap_scaffold_15-snap.1955-T1
Valid prediction for Augustus_model.g24457.t1
Valid prediction for snap_scaffold_15-snap.1928-T1
Valid prediction for snap_scaffold_15-snap.1933-T1
Valid prediction for CodingQuarry_transcript_18099-T1
Valid prediction for Augustus_model.g24449.t1
Valid prediction for CodingQuarry_transcript_18094-T1
Valid prediction for snap_scaffold_15-snap.1930-T1
Valid prediction for snap_scaffold_15-snap.1953-T1
Valid prediction for snap_scaffold_15-snap.1976-T1
Valid prediction for Augustus_model.g24448.t1
Valid prediction for GlimmerHMM_glimmerT_36722-T1
Valid prediction for pasa_asmbl_15386.p1
Valid prediction for GlimmerHMM_glimmerT_36726-T1
Valid prediction for GlimmerHMM_glimmerT_36729-T1
Valid prediction for GlimmerHMM_glimmerT_36733-T1
Valid prediction for HiQ_model.g24435.t1
Valid prediction for snap_scaffold_15-snap.1943-T1
Valid prediction for snap_scaffold_15-snap.1926-T1
Valid prediction for GlimmerHMM_glimmerT_36719-T1
Valid prediction for GlimmerHMM_glimmerT_36732-T1
Couldn't classify 179936, 179974
Sorry, prediction pasa_asmbl_15389.p1 fails validation.
(GCG)	 TC	179936-179974	GT	AGG
(ACA)	 AG	180449-181294	AA	AAA
-recovered pasa_asmbl_15389.p1, terminal, 180449, 181294
Valid prediction for GlimmerHMM_glimmerT_36731-T1
Valid prediction for Augustus_model.g24453.t1
Valid prediction for snap_scaffold_15-snap.1935-T1
Valid prediction for GlimmerHMM_glimmerT_36723-T1
Valid prediction for snap_scaffold_15-snap.1969-T1
Valid prediction for HiQ_model.g24460.t1
Valid prediction for snap_scaffold_15-snap.1956-T1
Valid prediction for snap_scaffold_15-snap.1942-T1
Valid prediction for GlimmerHMM_glimmerT_36702-T1
Valid prediction for GlimmerHMM_glimmerT_36734-T1
Valid prediction for snap_scaffold_15-snap.1940-T1
Valid prediction for HiQ_model.g24459.t1
Valid prediction for snap_scaffold_15-snap.1936-T1
Valid prediction for Augustus_model.g24452.t1
Valid prediction for GlimmerHMM_glimmerT_36706-T1
Valid prediction for snap_scaffold_15-snap.1952-T1
Valid prediction for GlimmerHMM_glimmerT_36695-T1
Couldn't classify 264237, 264481
Couldn't classify 265018, 265314
Sorry, prediction pasa_asmbl_15391.p1 fails validation.
(AAC)	 GC	264237-264481	GT	AAG
(GGT)	 AG	264812-264914	GT	AGG
(GAG)	 AG	265018-265314	CG	CCC
-recovered pasa_asmbl_15391.p1, internal, 264812, 264914
Valid prediction for snap_scaffold_15-snap.1939-T1
Valid prediction for Augustus_model.g24456.t1
Valid prediction for GlimmerHMM_glimmerT_36712-T1
Valid prediction for GlimmerHMM_glimmerT_36730-T1
Valid prediction for snap_scaffold_15-snap.1954-T1
Valid prediction for snap_scaffold_15-snap.1979-T1
Valid prediction for snap_scaffold_15-snap.1970-T1
Valid prediction for GlimmerHMM_glimmerT_36713-T1
Valid prediction for HiQ_model.g24446.t1
Valid prediction for snap_scaffold_15-snap.1924-T1
Valid prediction for snap_scaffold_15-snap.1962-T1
Valid prediction for Augustus_model.g24461.t1
Valid prediction for Augustus_model.g24447.t1
Valid prediction for CodingQuarry_transcript_18093-T1
Valid prediction for GlimmerHMM_glimmerT_36705-T1
Valid prediction for snap_scaffold_15-snap.1967-T1
Valid prediction for snap_scaffold_15-snap.1972-T1
Valid prediction for pasa_asmbl_15395.p1

-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 pasa_asmbl_14380.p1
Valid prediction for GlimmerHMM_glimmerT_36708-T1
Valid prediction for snap_scaffold_15-snap.1944-T1
Valid prediction for snap_scaffold_15-snap.1938-T1
Valid prediction for Augustus_model.g24454.t1
Valid prediction for GlimmerHMM_glimmerT_36699-T1
Valid prediction for CodingQuarry_transcript_18097-T1
Valid prediction for snap_scaffold_15-snap.1966-T1
Valid prediction for GlimmerHMM_glimmerT_36720-T1
Valid prediction for snap_scaffold_15-snap.1937-T1
Valid prediction for Augustus_model.g24441.t1
Valid prediction for snap_scaffold_15-snap.1958-T1
Valid prediction for Augustus_model.g24438.t1
Valid prediction for snap_scaffold_15-snap.1975-T1
Valid prediction for snap_scaffold_15-snap.1934-T1
Valid prediction for GlimmerHMM_glimmerT_36711-T1
Valid prediction for pasa_asmbl_14383.p1
Valid prediction for Augustus_model.g24439.t1
Valid prediction for Augustus_model.g24445.t1
Valid prediction for Augustus_model.g24436.t1
Valid prediction for snap_scaffold_15-snap.1973-T1
Valid prediction for GlimmerHMM_glimmerT_36697-T1
Valid prediction for snap_scaffold_15-snap.1968-T1
Valid prediction for GlimmerHMM_glimmerT_36704-T1
Valid prediction for snap_scaffold_15-snap.1964-T1
Valid prediction for snap_scaffold_15-snap.1931-T1
Valid prediction for GlimmerHMM_glimmerT_36700-T1
Valid prediction for Augustus_model.g24455.t1
Valid prediction for GlimmerHMM_glimmerT_36728-T1
Valid prediction for HiQ_model.g24458.t1
Valid prediction for snap_scaffold_15-snap.1961-T1
Valid prediction for GlimmerHMM_glimmerT_36707-T1
Valid prediction for GlimmerHMM_glimmerT_36709-T1
Valid prediction for snap_scaffold_15-snap.1957-T1
Valid prediction for snap_scaffold_15-snap.1947-T1
Valid prediction for snap_scaffold_15-snap.1927-T1
Valid prediction for GlimmerHMM_glimmerT_36724-T1
Valid prediction for GlimmerHMM_glimmerT_36703-T1
Valid prediction for Augustus_model.g24442.t1
Valid prediction for snap_scaffold_15-snap.1925-T1
Valid prediction for GlimmerHMM_glimmerT_36727-T1
Valid prediction for HiQ_model.g24450.t1
Valid prediction for snap_scaffold_15-snap.1929-T1
Valid prediction for GlimmerHMM_glimmerT_36718-T1
Valid prediction for GlimmerHMM_glimmerT_36721-T1
Valid prediction for snap_scaffold_15-snap.1946-T1
Valid prediction for snap_scaffold_15-snap.1974-T1
Valid prediction for snap_scaffold_15-snap.1941-T1
Valid prediction for snap_scaffold_15-snap.1965-T1
Valid prediction for GlimmerHMM_glimmerT_36714-T1
Valid prediction for GlimmerHMM_glimmerT_36701-T1
Valid prediction for GlimmerHMM_glimmerT_36717-T1
Valid prediction for snap_scaffold_15-snap.1980-T1
Valid prediction for snap_scaffold_15-snap.1971-T1
Valid prediction for snap_scaffold_15-snap.1959-T1
Valid prediction for CodingQuarry_transcript_18095-T1
Valid prediction for Augustus_model.g24444.t1
Valid prediction for Augustus_model.g24443.t1
Valid prediction for snap_scaffold_15-snap.1945-T1
Valid prediction for snap_scaffold_15-snap.1932-T1
Valid prediction for Augustus_model.g24440.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 21687, rend_intergenic: 12099  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25712, rend_intergenic: 22195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51442, rend_intergenic: 25974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57269, rend_intergenic: 51792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65308, rend_intergenic: 57285  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66089, rend_intergenic: 65642  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67120, rend_intergenic: 66093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73635, rend_intergenic: 67489  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78638, rend_intergenic: 74961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99985, rend_intergenic: 90483  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102096, rend_intergenic: 100622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133297, rend_intergenic: 111267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164416, rend_intergenic: 136761  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187941, rend_intergenic: 186316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208541, rend_intergenic: 204579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210027, rend_intergenic: 209769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214508, rend_intergenic: 210557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 243197, rend_intergenic: 226963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245473, rend_intergenic: 243252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 248097, rend_intergenic: 245552  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 249653, rend_intergenic: 248132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 287681, rend_intergenic: 277616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 291433, rend_intergenic: 289032  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 307429, rend_intergenic: 302422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 310347
-exon list size: 497


building trellis

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-found 42 predictions from path traversal
Error with prediction: snap lend_intergenic: 21687, rend_intergenic: 12099  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25712, rend_intergenic: 22195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51442, rend_intergenic: 25974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57269, rend_intergenic: 51792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65308, rend_intergenic: 57285  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66089, rend_intergenic: 65642  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67120, rend_intergenic: 66093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73635, rend_intergenic: 67489  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78638, rend_intergenic: 74961  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99985, rend_intergenic: 90483  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102096, rend_intergenic: 100622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133297, rend_intergenic: 111267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164416, rend_intergenic: 136761  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187941, rend_intergenic: 186316  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208541, rend_intergenic: 204579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210027, rend_intergenic: 209769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214508, rend_intergenic: 210557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 243197, rend_intergenic: 226963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245473, rend_intergenic: 243252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 248097, rend_intergenic: 245552  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 249653, rend_intergenic: 248132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 287681, rend_intergenic: 277616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 291433, rend_intergenic: 289032  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 307429, rend_intergenic: 302422  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support