-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_19/scaffold_19_10214364-10385943

-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_19-snap.1965-T1
Valid prediction for snap_scaffold_19-snap.1954-T1
Valid prediction for snap_scaffold_19-snap.1953-T1
Valid prediction for CodingQuarry_transcript_25729-T1
Valid prediction for snap_scaffold_19-snap.1951-T1
Valid prediction for GlimmerHMM_glimmerT_45776-T1
Valid prediction for snap_scaffold_19-snap.1950-T1
Valid prediction for HiQ_model.g30525.t1
Valid prediction for GeneMark_model.79819_t
Valid prediction for CodingQuarry_transcript_25730-T1
Valid prediction for pasa_asmbl_22437.p1
Valid prediction for GlimmerHMM_glimmerT_45764-T1
Valid prediction for snap_scaffold_19-snap.1961-T1
Valid prediction for snap_scaffold_19-snap.1960-T1
Couldn't classify 35868, 36014
Sorry, prediction pasa_asmbl_22440.p1 fails validation.
(ATG)	 AC	33882-34079	GT	AGG
(CTG)	 AG	35868-36014	AG	ACA
-recovered pasa_asmbl_22440.p1, initial, 33882, 34079
Valid prediction for GeneMark_model.79825_t
Valid prediction for CodingQuarry_transcript_25726-T1
Valid prediction for snap_scaffold_19-snap.1952-T1
Valid prediction for GeneMark_model.79822_t
Valid prediction for GeneMark_model.79839_t
Valid prediction for GeneMark_model.79814_t
Valid prediction for pasa_asmbl_22738.p1
Valid prediction for snap_scaffold_19-snap.1947-T1
Valid prediction for GlimmerHMM_glimmerT_45758-T1
Valid prediction for GlimmerHMM_glimmerT_45768-T1
Valid prediction for snap_scaffold_19-snap.1974-T1
Valid prediction for GeneMark_model.79845_t
Valid prediction for GeneMark_model.79834_t
Valid prediction for pasa_asmbl_22442.p1
Valid prediction for Augustus_model.g30531.t1
Valid prediction for snap_scaffold_19-snap.1962-T1
Valid prediction for snap_scaffold_19-snap.1959-T1
Valid prediction for Augustus_model.g30536.t1
Valid prediction for HiQ_model.g30526.t1
Valid prediction for pasa_asmbl_22444.p1
Valid prediction for snap_scaffold_19-snap.1976-T1
Valid prediction for Augustus_model.g30522.t1
Valid prediction for GlimmerHMM_glimmerT_45753-T1
Valid prediction for snap_scaffold_19-snap.1967-T1
Valid prediction for GlimmerHMM_glimmerT_45774-T1
Valid prediction for GeneMark_model.79810_t
Couldn't classify 6563, 6615
Sorry, prediction pasa_asmbl_22431.p1 fails validation.
(GAA)	 AC	6563-6615	GT	AAG
(GGT)	 AG	6991-7078	GT	AGG
(ACC)	 AG	9217-9283	GT	CTG
(GTG)	 AG	10031-10080	GT	AGG
(GAG)	 AG	10217-10315	GT	AGG
(TTC)	 AG	10432-10565	GT	GGG
(AGA)	 AG	10788-10880	GT	AGG
(ACA)	 AG	11034-11163	AT	AAA
-recovered pasa_asmbl_22431.p1, terminal, 11034, 11163
-recovered pasa_asmbl_22431.p1, internal, 6991, 7078
-recovered pasa_asmbl_22431.p1, internal, 9217, 9283
-recovered pasa_asmbl_22431.p1, internal, 10031, 10080
-recovered pasa_asmbl_22431.p1, internal, 10217, 10315
-recovered pasa_asmbl_22431.p1, internal, 10432, 10565
-recovered pasa_asmbl_22431.p1, internal, 10788, 10880
Valid prediction for Augustus_model.g30530.t1
Valid prediction for Augustus_model.g30519.t1
Valid prediction for Augustus_model.g30524.t1
Valid prediction for Augustus_model.g30523.t1
Valid prediction for GeneMark_model.79812_t
Valid prediction for Augustus_model.g30518.t1
Valid prediction for GeneMark_model.79827_t
Valid prediction for GeneMark_model.79843_t
Valid prediction for GlimmerHMM_glimmerT_45751-T1
Valid prediction for snap_scaffold_19-snap.1978-T1
Valid prediction for snap_scaffold_19-snap.1943-T1
Valid prediction for snap_scaffold_19-snap.1955-T1
Valid prediction for GlimmerHMM_glimmerT_45759-T1
Valid prediction for GlimmerHMM_glimmerT_45765-T1
Valid prediction for snap_scaffold_19-snap.1958-T1
Valid prediction for GeneMark_model.79823_t
Valid prediction for GeneMark_model.79817_t
Valid prediction for GeneMark_model.79848_t
Valid prediction for GeneMark_model.79821_t
Valid prediction for GlimmerHMM_glimmerT_45760-T1
Valid prediction for snap_scaffold_19-snap.1944-T1
Valid prediction for GlimmerHMM_glimmerT_45757-T1
Valid prediction for HiQ_model.g30527.t1
Valid prediction for GeneMark_model.79820_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 Augustus_model.g30534.t1
Valid prediction for GlimmerHMM_glimmerT_45761-T1
Valid prediction for snap_scaffold_19-snap.1968-T1
Valid prediction for GeneMark_model.79833_t
Valid prediction for snap_scaffold_19-snap.1963-T1
Valid prediction for GeneMark_model.79816_t
Valid prediction for GeneMark_model.79846_t
Valid prediction for snap_scaffold_19-snap.1969-T1
Valid prediction for GeneMark_model.79811_t
Valid prediction for GlimmerHMM_glimmerT_45775-T1
Valid prediction for GlimmerHMM_glimmerT_45750-T1
Valid prediction for GeneMark_model.79813_t
Valid prediction for snap_scaffold_19-snap.1970-T1
Valid prediction for GlimmerHMM_glimmerT_45772-T1
Valid prediction for GeneMark_model.79831_t
Valid prediction for snap_scaffold_19-snap.1964-T1
Valid prediction for Augustus_model.g30529.t1
Valid prediction for GeneMark_model.79836_t
Valid prediction for GeneMark_model.79849_t
Valid prediction for GlimmerHMM_glimmerT_45773-T1
Valid prediction for snap_scaffold_19-snap.1949-T1
Valid prediction for GeneMark_model.79840_t
Valid prediction for GlimmerHMM_glimmerT_45754-T1
Valid prediction for snap_scaffold_19-snap.1948-T1
Valid prediction for GeneMark_model.79828_t
Valid prediction for HiQ_model.g30520.t1
Valid prediction for GeneMark_model.79835_t
Valid prediction for GeneMark_model.79841_t
Valid prediction for snap_scaffold_19-snap.1971-T1
Valid prediction for GeneMark_model.79842_t
Valid prediction for Augustus_model.g30517.t1
Valid prediction for CodingQuarry_transcript_25727-T1
Valid prediction for pasa_asmbl_21554.p1
Valid prediction for GlimmerHMM_glimmerT_45763-T1
Valid prediction for GlimmerHMM_glimmerT_45769-T1
Valid prediction for GlimmerHMM_glimmerT_45755-T1
Valid prediction for snap_scaffold_19-snap.1942-T1
Valid prediction for GlimmerHMM_glimmerT_45762-T1
Valid prediction for GeneMark_model.79826_t
Valid prediction for GeneMark_model.79837_t
Valid prediction for snap_scaffold_19-snap.1979-T1
Valid prediction for snap_scaffold_19-snap.1957-T1
Valid prediction for GlimmerHMM_glimmerT_45767-T1
Valid prediction for Augustus_model.g30537.t1
Valid prediction for GeneMark_model.79824_t
Valid prediction for GlimmerHMM_glimmerT_45756-T1
Valid prediction for Augustus_model.g30532.t1
Valid prediction for snap_scaffold_19-snap.1966-T1
Valid prediction for GlimmerHMM_glimmerT_45766-T1
Valid prediction for GlimmerHMM_glimmerT_45771-T1
Valid prediction for snap_scaffold_19-snap.1972-T1
Valid prediction for GeneMark_model.79815_t
Valid prediction for GlimmerHMM_glimmerT_45752-T1
Valid prediction for snap_scaffold_19-snap.1945-T1
Valid prediction for GeneMark_model.79847_t
Valid prediction for Augustus_model.g30521.t1
Valid prediction for CodingQuarry_transcript_25728-T1
Valid prediction for snap_scaffold_19-snap.1973-T1
Valid prediction for GlimmerHMM_glimmerT_45770-T1
Valid prediction for GeneMark_model.79829_t
Valid prediction for snap_scaffold_19-snap.1975-T1
Valid prediction for snap_scaffold_19-snap.1946-T1
Valid prediction for snap_scaffold_19-snap.1977-T1
Valid prediction for GeneMark_model.79832_t
Valid prediction for snap_scaffold_19-snap.1956-T1
Valid prediction for GeneMark_model.79838_t
Valid prediction for Augustus_model.g30535.t1
Valid prediction for Augustus_model.g30528.t1
Valid prediction for Augustus_model.g30533.t1
Valid prediction for GeneMark_model.79844_t
Valid prediction for GeneMark_model.79818_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17992, rend_intergenic: 13067  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21192, rend_intergenic: 19354  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111201, rend_intergenic: 105683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149422, rend_intergenic: 148601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152942, rend_intergenic: 150729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160368, rend_intergenic: 157822  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 171580
-exon list size: 476


building trellis

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-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 17992, rend_intergenic: 13067  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21192, rend_intergenic: 19354  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111201, rend_intergenic: 105683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149422, rend_intergenic: 148601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152942, rend_intergenic: 150729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160368, rend_intergenic: 157822  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 26 predictions persist after filtering for low support