-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_24/scaffold_24_9251518-9418661

-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_24-snap.1921-T1
Valid prediction for snap_scaffold_24-snap.1943-T1
Valid prediction for GeneMark_model.94822_t
Valid prediction for snap_scaffold_24-snap.1960-T1
Valid prediction for GeneMark_model.94817_t
Valid prediction for snap_scaffold_24-snap.1932-T1
Valid prediction for GeneMark_model.94856_t
Valid prediction for GeneMark_model.94820_t
Valid prediction for Augustus_model.g36429.t1
Valid prediction for snap_scaffold_24-snap.1935-T1
Valid prediction for GlimmerHMM_glimmerT_54426-T1
Valid prediction for GlimmerHMM_glimmerT_54428-T1
Valid prediction for GeneMark_model.94861_t
Valid prediction for snap_scaffold_24-snap.1924-T1
Valid prediction for snap_scaffold_24-snap.1952-T1
Valid prediction for GlimmerHMM_glimmerT_54436-T1
Valid prediction for GlimmerHMM_glimmerT_54430-T1
Valid prediction for GlimmerHMM_glimmerT_54417-T1
Valid prediction for GeneMark_model.94842_t
Valid prediction for snap_scaffold_24-snap.1959-T1
Valid prediction for snap_scaffold_24-snap.1929-T1
Valid prediction for snap_scaffold_24-snap.1942-T1
Valid prediction for GeneMark_model.94819_t
Valid prediction for GeneMark_model.94825_t
Valid prediction for snap_scaffold_24-snap.1919-T1
Valid prediction for GeneMark_model.94835_t
Valid prediction for snap_scaffold_24-snap.1944-T1
Valid prediction for snap_scaffold_24-snap.1957-T1
Valid prediction for snap_scaffold_24-snap.1930-T1
Valid prediction for snap_scaffold_24-snap.1940-T1
Valid prediction for GeneMark_model.94813_t
Valid prediction for GeneMark_model.94846_t
Valid prediction for snap_scaffold_24-snap.1934-T1
Valid prediction for GeneMark_model.94816_t
Valid prediction for GlimmerHMM_glimmerT_54434-T1
Valid prediction for snap_scaffold_24-snap.1953-T1
Valid prediction for GeneMark_model.94840_t
Valid prediction for snap_scaffold_24-snap.1937-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GeneMark_model.94827_t
Valid prediction for GlimmerHMM_glimmerT_54438-T1
Valid prediction for Augustus_model.g36427.t1
Valid prediction for GeneMark_model.94853_t
Valid prediction for Augustus_model.g36439.t1
Valid prediction for GeneMark_model.94829_t
Valid prediction for GeneMark_model.94810_t
Valid prediction for GeneMark_model.94851_t
Valid prediction for snap_scaffold_24-snap.1951-T1
Valid prediction for GeneMark_model.94837_t
Valid prediction for GlimmerHMM_glimmerT_54411-T1
Valid prediction for GeneMark_model.94859_t
Valid prediction for snap_scaffold_24-snap.1926-T1
Valid prediction for Augustus_model.g36445.t1
Valid prediction for Augustus_model.g36441.t1
Valid prediction for GeneMark_model.94843_t
Valid prediction for GeneMark_model.94852_t
Valid prediction for GeneMark_model.94833_t
Valid prediction for GlimmerHMM_glimmerT_54435-T1
Valid prediction for GeneMark_model.94847_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 GlimmerHMM_glimmerT_54414-T1
Valid prediction for snap_scaffold_24-snap.1950-T1
Valid prediction for GlimmerHMM_glimmerT_54423-T1
Valid prediction for GeneMark_model.94821_t
Valid prediction for snap_scaffold_24-snap.1955-T1
Valid prediction for snap_scaffold_24-snap.1946-T1
Valid prediction for GeneMark_model.94812_t
Valid prediction for GlimmerHMM_glimmerT_54418-T1
Valid prediction for Augustus_model.g36436.t1
Valid prediction for snap_scaffold_24-snap.1948-T1
Valid prediction for Augustus_model.g36437.t1
Valid prediction for GlimmerHMM_glimmerT_54420-T1
Valid prediction for snap_scaffold_24-snap.1941-T1
Valid prediction for snap_scaffold_24-snap.1928-T1
Valid prediction for GeneMark_model.94838_t
Valid prediction for GlimmerHMM_glimmerT_54442-T1
Valid prediction for Augustus_model.g36431.t1
Valid prediction for Augustus_model.g36443.t1
Valid prediction for GeneMark_model.94836_t
Valid prediction for Augustus_model.g36432.t1
Valid prediction for GlimmerHMM_glimmerT_54441-T1
Valid prediction for GeneMark_model.94849_t
Valid prediction for GlimmerHMM_glimmerT_54431-T1
Valid prediction for GeneMark_model.94841_t
Valid prediction for GlimmerHMM_glimmerT_54427-T1
Valid prediction for snap_scaffold_24-snap.1954-T1
Valid prediction for snap_scaffold_24-snap.1933-T1
Valid prediction for GlimmerHMM_glimmerT_54410-T1
Valid prediction for snap_scaffold_24-snap.1936-T1
Valid prediction for GeneMark_model.94862_t
Valid prediction for GeneMark_model.94809_t
Valid prediction for GeneMark_model.94834_t
Valid prediction for GlimmerHMM_glimmerT_54439-T1
Valid prediction for GlimmerHMM_glimmerT_54412-T1
Valid prediction for snap_scaffold_24-snap.1939-T1
Valid prediction for Augustus_model.g36428.t1
Valid prediction for GeneMark_model.94855_t
Valid prediction for snap_scaffold_24-snap.1931-T1
Valid prediction for GeneMark_model.94857_t
Valid prediction for GlimmerHMM_glimmerT_54409-T1
Valid prediction for GeneMark_model.94824_t
Valid prediction for GlimmerHMM_glimmerT_54425-T1
Valid prediction for GeneMark_model.94830_t
Valid prediction for GlimmerHMM_glimmerT_54415-T1
Valid prediction for GlimmerHMM_glimmerT_54424-T1
Valid prediction for GeneMark_model.94826_t
Valid prediction for GeneMark_model.94828_t
Valid prediction for Augustus_model.g36435.t1
Valid prediction for GeneMark_model.94860_t
Valid prediction for GlimmerHMM_glimmerT_54433-T1
Valid prediction for Augustus_model.g36434.t1
Valid prediction for GeneMark_model.94811_t
Valid prediction for GeneMark_model.94832_t
Valid prediction for GeneMark_model.94858_t
Valid prediction for GeneMark_model.94814_t
Valid prediction for GeneMark_model.94854_t
Valid prediction for Augustus_model.g36444.t1
Valid prediction for snap_scaffold_24-snap.1938-T1
Valid prediction for snap_scaffold_24-snap.1947-T1
Valid prediction for GlimmerHMM_glimmerT_54419-T1
Valid prediction for GlimmerHMM_glimmerT_54422-T1
Valid prediction for Augustus_model.g36438.t1
Valid prediction for GeneMark_model.94845_t
Valid prediction for snap_scaffold_24-snap.1925-T1
Valid prediction for snap_scaffold_24-snap.1958-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_54440-T1
Valid prediction for GeneMark_model.94823_t
Valid prediction for GlimmerHMM_glimmerT_54437-T1
Valid prediction for GeneMark_model.94818_t
Valid prediction for Augustus_model.g36442.t1
Valid prediction for GlimmerHMM_glimmerT_54432-T1
Valid prediction for GeneMark_model.94815_t
Valid prediction for Augustus_model.g36433.t1
Valid prediction for Augustus_model.g36440.t1
Valid prediction for GlimmerHMM_glimmerT_54421-T1
Valid prediction for GlimmerHMM_glimmerT_54429-T1
Valid prediction for snap_scaffold_24-snap.1927-T1
Valid prediction for snap_scaffold_24-snap.1918-T1
Valid prediction for GeneMark_model.94848_t
Valid prediction for snap_scaffold_24-snap.1920-T1
Valid prediction for GeneMark_model.94831_t
Valid prediction for GlimmerHMM_glimmerT_54413-T1
Valid prediction for snap_scaffold_24-snap.1945-T1
Valid prediction for GeneMark_model.94850_t
Valid prediction for snap_scaffold_24-snap.1923-T1
Valid prediction for snap_scaffold_24-snap.1956-T1
Valid prediction for GeneMark_model.94844_t
Valid prediction for GlimmerHMM_glimmerT_54416-T1
Valid prediction for snap_scaffold_24-snap.1922-T1
Valid prediction for Augustus_model.g36430.t1
Valid prediction for snap_scaffold_24-snap.1949-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 83012, rend_intergenic: 83009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28459, rend_intergenic: 16331  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31510, rend_intergenic: 28807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40193, rend_intergenic: 34613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44620, rend_intergenic: 41717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59273, rend_intergenic: 45193  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64560, rend_intergenic: 61612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80325, rend_intergenic: 72957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84129, rend_intergenic: 80359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93279, rend_intergenic: 89313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105737, rend_intergenic: 95055  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106450, rend_intergenic: 106108  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135710, rend_intergenic: 131563  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142326, rend_intergenic: 136649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153015, rend_intergenic: 150493  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156491, rend_intergenic: 153966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 167144
-exon list size: 690


building trellis

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-found 47 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 83012, rend_intergenic: 83009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28459, rend_intergenic: 16331  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31510, rend_intergenic: 28807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40193, rend_intergenic: 34613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44620, rend_intergenic: 41717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59273, rend_intergenic: 45193  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64560, rend_intergenic: 61612  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80325, rend_intergenic: 72957  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84129, rend_intergenic: 80359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93279, rend_intergenic: 89313  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105737, rend_intergenic: 95055  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106450, rend_intergenic: 106108  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135710, rend_intergenic: 131563  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142326, rend_intergenic: 136649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153015, rend_intergenic: 150493  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156491, rend_intergenic: 153966  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support