-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_17/scaffold_17_7574040-7756536

-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 GeneMark_model.71439_t
Valid prediction for snap_scaffold_17-snap.1506-T1
Valid prediction for Augustus_model.g27803.t1
Valid prediction for GeneMark_model.71453_t
Valid prediction for GlimmerHMM_glimmerT_41513-T1
Valid prediction for GeneMark_model.71462_t
Valid prediction for GeneMark_model.71451_t
Valid prediction for snap_scaffold_17-snap.1526-T1
Valid prediction for Augustus_model.g27806.t1
Valid prediction for snap_scaffold_17-snap.1523-T1
Valid prediction for GeneMark_model.71448_t
Valid prediction for HiQ_model.g27813.t1
Valid prediction for snap_scaffold_17-snap.1527-T1
Valid prediction for GeneMark_model.71443_t
Valid prediction for snap_scaffold_17-snap.1500-T1
Valid prediction for GeneMark_model.71438_t
Valid prediction for GeneMark_model.71449_t
Valid prediction for GlimmerHMM_glimmerT_41520-T1
Valid prediction for GeneMark_model.71469_t
Valid prediction for snap_scaffold_17-snap.1511-T1
Valid prediction for GeneMark_model.71432_t
Valid prediction for GlimmerHMM_glimmerT_41501-T1
Valid prediction for GeneMark_model.71460_t
Valid prediction for GlimmerHMM_glimmerT_41500-T1
Valid prediction for snap_scaffold_17-snap.1498-T1
Valid prediction for GlimmerHMM_glimmerT_41499-T1
Valid prediction for Augustus_model.g27820.t1
Valid prediction for snap_scaffold_17-snap.1517-T1
Valid prediction for pasa_asmbl_18047.p1
Valid prediction for GeneMark_model.71433_t
Valid prediction for GeneMark_model.71436_t
Valid prediction for snap_scaffold_17-snap.1522-T1
Valid prediction for snap_scaffold_17-snap.1496-T1
Valid prediction for snap_scaffold_17-snap.1501-T1
Valid prediction for GeneMark_model.71454_t
Valid prediction for Augustus_model.g27816.t1
Valid prediction for GeneMark_model.71458_t
Valid prediction for snap_scaffold_17-snap.1516-T1
Valid prediction for GeneMark_model.71446_t
Valid prediction for GeneMark_model.71472_t
Valid prediction for GlimmerHMM_glimmerT_41498-T1
Valid prediction for snap_scaffold_17-snap.1519-T1
Valid prediction for GlimmerHMM_glimmerT_41508-T1
Valid prediction for CodingQuarry_transcript_21990-T1
Valid prediction for GeneMark_model.71452_t
Valid prediction for snap_scaffold_17-snap.1504-T1
Valid prediction for Augustus_model.g27801.t1
Valid prediction for GlimmerHMM_glimmerT_41502-T1
Valid prediction for GeneMark_model.71467_t
Valid prediction for Augustus_model.g27802.t1
Valid prediction for snap_scaffold_17-snap.1508-T1
Valid prediction for snap_scaffold_17-snap.1491-T1
Valid prediction for GlimmerHMM_glimmerT_41518-T1
Valid prediction for snap_scaffold_17-snap.1525-T1
Couldn't classify 173684, 174088
Sorry, prediction pasa_asmbl_18050.p1 fails validation.
(CCT)	 AA	173684-174088	AC	GGA
Valid prediction for Augustus_model.g27812.t1
Valid prediction for GlimmerHMM_glimmerT_41510-T1
Valid prediction for Augustus_model.g27804.t1
Valid prediction for Augustus_model.g27814.t1
Couldn't classify 45073, 45201
Couldn't classify 48669, 48836
Sorry, prediction pasa_asmbl_18043.p1 fails validation.
(GTG)	 CA	45073-45201	GT	AGG
(GTG)	 AG	46126-46227	GT	TGG
(GGG)	 AG	48669-48836	TC	GGT
-recovered pasa_asmbl_18043.p1, internal, 46126, 46227
Valid prediction for snap_scaffold_17-snap.1514-T1
Valid prediction for GeneMark_model.71441_t
Valid prediction for GlimmerHMM_glimmerT_41517-T1
Valid prediction for Augustus_model.g27805.t1
Valid prediction for GlimmerHMM_glimmerT_41512-T1
Valid prediction for snap_scaffold_17-snap.1494-T1
Valid prediction for Augustus_model.g27815.t1
Valid prediction for GeneMark_model.71464_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 snap_scaffold_17-snap.1528-T1
Valid prediction for Augustus_model.g27800.t1
Valid prediction for Augustus_model.g27807.t1
Valid prediction for Augustus_model.g27808.t1
Valid prediction for GeneMark_model.71455_t
Valid prediction for GeneMark_model.71440_t
Valid prediction for GlimmerHMM_glimmerT_41495-T1
Valid prediction for GeneMark_model.71456_t
Valid prediction for GeneMark_model.71459_t
Valid prediction for GeneMark_model.71445_t
Valid prediction for GeneMark_model.71457_t
Valid prediction for GeneMark_model.71431_t
Valid prediction for snap_scaffold_17-snap.1512-T1
Valid prediction for snap_scaffold_17-snap.1513-T1
Valid prediction for GlimmerHMM_glimmerT_41519-T1
Valid prediction for snap_scaffold_17-snap.1515-T1
Valid prediction for GlimmerHMM_glimmerT_41507-T1
Valid prediction for snap_scaffold_17-snap.1507-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g27817.t1
Valid prediction for snap_scaffold_17-snap.1505-T1
Valid prediction for GeneMark_model.71466_t
Valid prediction for GlimmerHMM_glimmerT_41514-T1
Valid prediction for snap_scaffold_17-snap.1499-T1
Valid prediction for snap_scaffold_17-snap.1510-T1
Valid prediction for GeneMark_model.71470_t
Valid prediction for GeneMark_model.71444_t
Valid prediction for GlimmerHMM_glimmerT_41506-T1
Valid prediction for GeneMark_model.71450_t
Valid prediction for GlimmerHMM_glimmerT_41505-T1
Valid prediction for GlimmerHMM_glimmerT_41496-T1
Valid prediction for snap_scaffold_17-snap.1503-T1
Valid prediction for Augustus_model.g27810.t1
Valid prediction for snap_scaffold_17-snap.1493-T1
Valid prediction for snap_scaffold_17-snap.1502-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_41497-T1
Valid prediction for snap_scaffold_17-snap.1524-T1
Valid prediction for snap_scaffold_17-snap.1518-T1
Valid prediction for Augustus_model.g27811.t1
Valid prediction for snap_scaffold_17-snap.1497-T1
Valid prediction for GeneMark_model.71461_t
Valid prediction for GlimmerHMM_glimmerT_41504-T1
Valid prediction for snap_scaffold_17-snap.1495-T1
Valid prediction for GeneMark_model.71465_t
Valid prediction for Augustus_model.g27819.t1
Valid prediction for GeneMark_model.71437_t
Valid prediction for GlimmerHMM_glimmerT_41509-T1
Valid prediction for GeneMark_model.71447_t
Valid prediction for snap_scaffold_17-snap.1520-T1
Valid prediction for GeneMark_model.71471_t
Valid prediction for GlimmerHMM_glimmerT_41516-T1
Valid prediction for GeneMark_model.71442_t
Valid prediction for GeneMark_model.71468_t
Valid prediction for snap_scaffold_17-snap.1509-T1
Valid prediction for GeneMark_model.71463_t
Valid prediction for Augustus_model.g27818.t1
Valid prediction for GlimmerHMM_glimmerT_41511-T1
Valid prediction for Augustus_model.g27799.t1
Valid prediction for Augustus_model.g27809.t1
Valid prediction for snap_scaffold_17-snap.1521-T1
Valid prediction for GlimmerHMM_glimmerT_41503-T1
Valid prediction for snap_scaffold_17-snap.1492-T1
Valid prediction for GeneMark_model.71434_t
Valid prediction for GlimmerHMM_glimmerT_41515-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9235, rend_intergenic: 5838  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23607, rend_intergenic: 17054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48912, rend_intergenic: 45018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75942, rend_intergenic: 72026  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83722, rend_intergenic: 80304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92121, rend_intergenic: 88712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97458, rend_intergenic: 96729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117713, rend_intergenic: 111230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121569, rend_intergenic: 118146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123342, rend_intergenic: 122039  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141028, rend_intergenic: 139635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160662, rend_intergenic: 149825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180550, rend_intergenic: 175813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 182497
-exon list size: 605


building trellis

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99.0    
99.2    
99.3    
99.5    
99.7    
99.8    
-found 41 predictions from path traversal
Error with prediction: snap lend_intergenic: 9235, rend_intergenic: 5838  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23607, rend_intergenic: 17054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48912, rend_intergenic: 45018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75942, rend_intergenic: 72026  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83722, rend_intergenic: 80304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92121, rend_intergenic: 88712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97458, rend_intergenic: 96729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117713, rend_intergenic: 111230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121569, rend_intergenic: 118146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123342, rend_intergenic: 122039  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141028, rend_intergenic: 139635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160662, rend_intergenic: 149825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180550, rend_intergenic: 175813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support