-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_7751408-7947146

-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 GlimmerHMM_glimmerT_20514-T1
Valid prediction for GeneMark_model.35035_t
Valid prediction for GeneMark_model.35022_t
Valid prediction for GlimmerHMM_glimmerT_20504-T1
Valid prediction for snap_scaffold_8-snap.1505-T1
Valid prediction for snap_scaffold_8-snap.1524-T1
Valid prediction for GeneMark_model.35045_t
Valid prediction for GeneMark_model.35040_t
Valid prediction for GeneMark_model.35032_t
Valid prediction for pasa_asmbl_51983.p1
Valid prediction for GeneMark_model.35031_t
Valid prediction for snap_scaffold_8-snap.1549-T1
Valid prediction for GeneMark_model.35054_t
Valid prediction for GlimmerHMM_glimmerT_20517-T1
Valid prediction for snap_scaffold_8-snap.1536-T1
Valid prediction for GeneMark_model.35038_t
Valid prediction for GeneMark_model.35036_t
Valid prediction for GlimmerHMM_glimmerT_20513-T1
Valid prediction for Augustus_model.g13720.t1
Valid prediction for GeneMark_model.35042_t
Valid prediction for GeneMark_model.35028_t
Valid prediction for GlimmerHMM_glimmerT_20496-T1
Valid prediction for snap_scaffold_8-snap.1510-T1
Valid prediction for Augustus_model.g13717.t1
Valid prediction for snap_scaffold_8-snap.1544-T1
Valid prediction for Augustus_model.g13709.t1
Valid prediction for snap_scaffold_8-snap.1515-T1
Valid prediction for GeneMark_model.35026_t
Valid prediction for snap_scaffold_8-snap.1506-T1
Valid prediction for CodingQuarry_transcript_59549-T1
Valid prediction for snap_scaffold_8-snap.1514-T1
Valid prediction for GeneMark_model.35057_t
Valid prediction for GeneMark_model.35051_t
Valid prediction for snap_scaffold_8-snap.1529-T1
Valid prediction for snap_scaffold_8-snap.1508-T1
Valid prediction for GlimmerHMM_glimmerT_20491-T1
Valid prediction for pasa_asmbl_51984.p1
Valid prediction for snap_scaffold_8-snap.1519-T1
Valid prediction for GlimmerHMM_glimmerT_20505-T1
Valid prediction for GeneMark_model.35043_t
Valid prediction for snap_scaffold_8-snap.1523-T1
Valid prediction for GeneMark_model.35053_t
Valid prediction for GlimmerHMM_glimmerT_20512-T1
Valid prediction for snap_scaffold_8-snap.1539-T1
Valid prediction for Augustus_model.g13705.t1
Valid prediction for Augustus_model.g13702.t1
Valid prediction for snap_scaffold_8-snap.1548-T1
Valid prediction for snap_scaffold_8-snap.1542-T1
Valid prediction for GlimmerHMM_glimmerT_20495-T1
Valid prediction for snap_scaffold_8-snap.1528-T1
Valid prediction for snap_scaffold_8-snap.1527-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.1531-T1
Couldn't classify 189989, 190134
Sorry, prediction pasa_asmbl_51987.p1 fails validation.
(GGA)	 AG	189989-190134	GT	CGG
(CCT)	 AG	191050-191117	GT	AGG
(ATC)	 AG	191256-191590	TG	GAT
-recovered pasa_asmbl_51987.p1, terminal, 191256, 191590
-recovered pasa_asmbl_51987.p1, internal, 189989, 190134
-recovered pasa_asmbl_51987.p1, internal, 191050, 191117
Valid prediction for GeneMark_model.35024_t
Valid prediction for snap_scaffold_8-snap.1547-T1
Valid prediction for snap_scaffold_8-snap.1546-T1

-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_20500-T1
Valid prediction for GlimmerHMM_glimmerT_20497-T1
Valid prediction for GlimmerHMM_glimmerT_20493-T1
Valid prediction for GlimmerHMM_glimmerT_20508-T1
Valid prediction for Augustus_model.g13701.t1
Valid prediction for GeneMark_model.35021_t
Valid prediction for GlimmerHMM_glimmerT_20494-T1
Valid prediction for snap_scaffold_8-snap.1520-T1
Valid prediction for GeneMark_model.35048_t
Valid prediction for HiQ_model.g13719.t1
Valid prediction for GeneMark_model.35055_t
Valid prediction for Augustus_model.g13698.t1
Valid prediction for Augustus_model.g13706.t1
Valid prediction for GeneMark_model.35056_t
Valid prediction for snap_scaffold_8-snap.1509-T1
Valid prediction for Augustus_model.g13711.t1
Valid prediction for GlimmerHMM_glimmerT_20499-T1
Valid prediction for snap_scaffold_8-snap.1521-T1
Valid prediction for GlimmerHMM_glimmerT_20490-T1
Valid prediction for GlimmerHMM_glimmerT_20516-T1
Couldn't classify 79064, 79399
Sorry, prediction pasa_asmbl_52924.p1 fails validation.
(GAC)	 CA	79064-79399	CA	AGC
Valid prediction for snap_scaffold_8-snap.1543-T1
Valid prediction for snap_scaffold_8-snap.1513-T1
Valid prediction for GlimmerHMM_glimmerT_20509-T1
Valid prediction for Augustus_model.g13716.t1
Valid prediction for GlimmerHMM_glimmerT_20488-T1
Valid prediction for GlimmerHMM_glimmerT_20510-T1
Valid prediction for GeneMark_model.35025_t
Valid prediction for GeneMark_model.35018_t
Valid prediction for snap_scaffold_8-snap.1538-T1
Valid prediction for GeneMark_model.35029_t
Valid prediction for GeneMark_model.35052_t
Valid prediction for snap_scaffold_8-snap.1534-T1
Valid prediction for snap_scaffold_8-snap.1517-T1
Valid prediction for GlimmerHMM_glimmerT_20507-T1
Valid prediction for snap_scaffold_8-snap.1530-T1
Valid prediction for snap_scaffold_8-snap.1533-T1
Valid prediction for pasa_asmbl_52923.p1
Valid prediction for GlimmerHMM_glimmerT_20506-T1
Valid prediction for GeneMark_model.35044_t
Valid prediction for GeneMark_model.35023_t
Valid prediction for snap_scaffold_8-snap.1516-T1
Valid prediction for snap_scaffold_8-snap.1507-T1
Valid prediction for Augustus_model.g13707.t1
Valid prediction for Augustus_model.g13718.t1
Couldn't classify 125798, 126346
Sorry, prediction pasa_asmbl_52921.p1 fails validation.
(CGA)	 TA	125798-126346	GA	GAG
Valid prediction for CodingQuarry_transcript_59550-T1
Valid prediction for snap_scaffold_8-snap.1541-T1
Valid prediction for GeneMark_model.35039_t
Valid prediction for Augustus_model.g13714.t1
Valid prediction for GeneMark_model.35027_t
Valid prediction for GeneMark_model.35033_t
Valid prediction for GlimmerHMM_glimmerT_20498-T1
Valid prediction for Augustus_model.g13700.t1
Valid prediction for snap_scaffold_8-snap.1545-T1
Valid prediction for pasa_asmbl_52927.p1
Valid prediction for GlimmerHMM_glimmerT_20492-T1
Valid prediction for snap_scaffold_8-snap.1525-T1
Valid prediction for GlimmerHMM_glimmerT_20503-T1
Valid prediction for Augustus_model.g13713.t1
Valid prediction for GeneMark_model.35041_t
Valid prediction for snap_scaffold_8-snap.1512-T1
Valid prediction for pasa_asmbl_52914.p1
Valid prediction for CodingQuarry_transcript_59551-T1
Valid prediction for GeneMark_model.35034_t
Valid prediction for snap_scaffold_8-snap.1537-T1
Valid prediction for GlimmerHMM_glimmerT_20515-T1
Valid prediction for HiQ_model.g13703.t1
Valid prediction for GlimmerHMM_glimmerT_20502-T1
Valid prediction for pasa_asmbl_52918.p1
Valid prediction for GeneMark_model.35019_t
Valid prediction for HiQ_model.g13710.t1
Valid prediction for snap_scaffold_8-snap.1522-T1
Valid prediction for snap_scaffold_8-snap.1504-T1
Valid prediction for snap_scaffold_8-snap.1550-T1
Valid prediction for snap_scaffold_8-snap.1511-T1
Valid prediction for GeneMark_model.35050_t
Valid prediction for HiQ_model.g13715.t1
Valid prediction for GeneMark_model.35047_t
Valid prediction for Augustus_model.g13708.t1
Valid prediction for snap_scaffold_8-snap.1535-T1
Valid prediction for HiQ_model.g13704.t1
Valid prediction for snap_scaffold_8-snap.1540-T1
Valid prediction for Augustus_model.g13699.t1
Valid prediction for GeneMark_model.35020_t
Valid prediction for GlimmerHMM_glimmerT_20501-T1
Valid prediction for snap_scaffold_8-snap.1526-T1
Valid prediction for snap_scaffold_8-snap.1518-T1
Valid prediction for GeneMark_model.35037_t
Valid prediction for Augustus_model.g13712.t1
Valid prediction for GeneMark_model.35030_t
Valid prediction for GeneMark_model.35046_t
Valid prediction for GeneMark_model.35049_t
Valid prediction for snap_scaffold_8-snap.1532-T1
Valid prediction for GlimmerHMM_glimmerT_20489-T1
Valid prediction for pasa_asmbl_52915.p1
Valid prediction for pasa_asmbl_52926.p1
Valid prediction for GlimmerHMM_glimmerT_20511-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17200, rend_intergenic: 14639  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19980, rend_intergenic: 17459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33162, rend_intergenic: 24863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65991, rend_intergenic: 61218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77094, rend_intergenic: 73565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88208, rend_intergenic: 78687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102358, rend_intergenic: 90389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109317, rend_intergenic: 108117  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152383, rend_intergenic: 148027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156294, rend_intergenic: 155098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160037, rend_intergenic: 156299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168752, rend_intergenic: 167186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178418, rend_intergenic: 174972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 195739
-exon list size: 636


building trellis

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-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 17200, rend_intergenic: 14639  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19980, rend_intergenic: 17459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33162, rend_intergenic: 24863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65991, rend_intergenic: 61218  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77094, rend_intergenic: 73565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88208, rend_intergenic: 78687  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102358, rend_intergenic: 90389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109317, rend_intergenic: 108117  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152383, rend_intergenic: 148027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156294, rend_intergenic: 155098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160037, rend_intergenic: 156299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168752, rend_intergenic: 167186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178418, rend_intergenic: 174972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support