-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_26/scaffold_26_4155426-4285512

-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.99185_t
Valid prediction for snap_scaffold_26-snap.932-T1
Valid prediction for snap_scaffold_26-snap.926-T1
Valid prediction for Augustus_model.g37827.t1
Valid prediction for snap_scaffold_26-snap.901-T1
Valid prediction for CodingQuarry_transcript_40218-T1
Valid prediction for GeneMark_model.99178_t
Valid prediction for GeneMark_model.99177_t
Valid prediction for GlimmerHMM_glimmerT_56798-T1
Valid prediction for HiQ_model.g37837.t1
Valid prediction for GlimmerHMM_glimmerT_56787-T1
Valid prediction for pasa_asmbl_35408.p1
Valid prediction for GlimmerHMM_glimmerT_56804-T1
Valid prediction for GlimmerHMM_glimmerT_56806-T1
Valid prediction for GeneMark_model.99172_t
Valid prediction for snap_scaffold_26-snap.934-T1
Valid prediction for snap_scaffold_26-snap.938-T1
Valid prediction for Augustus_model.g37830.t1
Valid prediction for GeneMark_model.99171_t
Valid prediction for GeneMark_model.99191_t
Valid prediction for GeneMark_model.99216_t
Valid prediction for GlimmerHMM_glimmerT_56805-T1
Valid prediction for GeneMark_model.99201_t
Valid prediction for snap_scaffold_26-snap.916-T1
Valid prediction for GeneMark_model.99174_t
Valid prediction for GlimmerHMM_glimmerT_56793-T1
Valid prediction for snap_scaffold_26-snap.921-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g37825.t1
Valid prediction for snap_scaffold_26-snap.919-T1
Valid prediction for GeneMark_model.99179_t
Valid prediction for snap_scaffold_26-snap.912-T1
Valid prediction for GeneMark_model.99205_t
Valid prediction for GeneMark_model.99193_t
Valid prediction for GeneMark_model.99208_t
Valid prediction for GeneMark_model.99212_t
Valid prediction for snap_scaffold_26-snap.914-T1
Valid prediction for GeneMark_model.99183_t
Valid prediction for GlimmerHMM_glimmerT_56801-T1
Valid prediction for snap_scaffold_26-snap.900-T1
Valid prediction for snap_scaffold_26-snap.922-T1
Valid prediction for snap_scaffold_26-snap.924-T1
Valid prediction for snap_scaffold_26-snap.909-T1
Valid prediction for GeneMark_model.99194_t
Valid prediction for Augustus_model.g37828.t1
Valid prediction for snap_scaffold_26-snap.930-T1
Valid prediction for GlimmerHMM_glimmerT_56807-T1
Valid prediction for GeneMark_model.99188_t
Valid prediction for Augustus_model.g37820.t1
Valid prediction for CodingQuarry_transcript_40217-T1
Valid prediction for GeneMark_model.99196_t
Valid prediction for GeneMark_model.99202_t
Valid prediction for snap_scaffold_26-snap.902-T1
Valid prediction for snap_scaffold_26-snap.929-T1
Valid prediction for GlimmerHMM_glimmerT_56809-T1
Valid prediction for snap_scaffold_26-snap.920-T1
Valid prediction for GlimmerHMM_glimmerT_56790-T1
Valid prediction for GeneMark_model.99214_t
Valid prediction for GeneMark_model.99181_t
Valid prediction for GeneMark_model.99209_t
Valid prediction for GeneMark_model.99210_t
Valid prediction for snap_scaffold_26-snap.907-T1
Valid prediction for GlimmerHMM_glimmerT_56799-T1
Valid prediction for Augustus_model.g37829.t1
Valid prediction for GeneMark_model.99184_t
Valid prediction for GeneMark_model.99200_t
Valid prediction for GeneMark_model.99199_t
Valid prediction for GeneMark_model.99207_t
Valid prediction for snap_scaffold_26-snap.917-T1
Valid prediction for GlimmerHMM_glimmerT_56797-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_56802-T1
Valid prediction for snap_scaffold_26-snap.923-T1
Valid prediction for GlimmerHMM_glimmerT_56789-T1
Valid prediction for GeneMark_model.99195_t
Valid prediction for GlimmerHMM_glimmerT_56794-T1
Valid prediction for snap_scaffold_26-snap.939-T1
Valid prediction for GeneMark_model.99215_t
Valid prediction for snap_scaffold_26-snap.933-T1
Valid prediction for snap_scaffold_26-snap.925-T1
Valid prediction for snap_scaffold_26-snap.903-T1
Valid prediction for snap_scaffold_26-snap.908-T1
Valid prediction for snap_scaffold_26-snap.936-T1
Valid prediction for Augustus_model.g37824.t1
Valid prediction for Augustus_model.g37835.t1
Valid prediction for snap_scaffold_26-snap.935-T1
Valid prediction for GeneMark_model.99213_t
Valid prediction for GeneMark_model.99190_t
Valid prediction for GlimmerHMM_glimmerT_56800-T1
Valid prediction for GeneMark_model.99187_t
Valid prediction for GeneMark_model.99186_t
Valid prediction for snap_scaffold_26-snap.911-T1
Valid prediction for snap_scaffold_26-snap.904-T1
Valid prediction for snap_scaffold_26-snap.918-T1
Valid prediction for snap_scaffold_26-snap.910-T1
Valid prediction for GeneMark_model.99197_t
Valid prediction for GeneMark_model.99217_t
Valid prediction for GeneMark_model.99198_t
Valid prediction for GlimmerHMM_glimmerT_56811-T1
Valid prediction for snap_scaffold_26-snap.905-T1
Valid prediction for Augustus_model.g37826.t1
Valid prediction for Augustus_model.g37821.t1
Valid prediction for GlimmerHMM_glimmerT_56795-T1
Valid prediction for snap_scaffold_26-snap.927-T1
Valid prediction for GlimmerHMM_glimmerT_56803-T1
Valid prediction for Augustus_model.g37832.t1
Valid prediction for GeneMark_model.99211_t
Valid prediction for GeneMark_model.99182_t
Valid prediction for GeneMark_model.99180_t
Valid prediction for snap_scaffold_26-snap.928-T1
Couldn't classify 12908, 12928
Sorry, prediction pasa_asmbl_34812.p1 fails validation.
(GTG)	 GA	12908-12928	GT	AGG
(TTT)	 AG	13369-13488	GT	AGG
(GAG)	 AG	13840-13993	GT	AGG
(ACA)	 AG	16504-16655	CC	GAC
-recovered pasa_asmbl_34812.p1, terminal, 16504, 16655
-recovered pasa_asmbl_34812.p1, internal, 13369, 13488
-recovered pasa_asmbl_34812.p1, internal, 13840, 13993
Valid prediction for Augustus_model.g37831.t1
Valid prediction for GeneMark_model.99189_t
Valid prediction for Augustus_model.g37838.t1
Valid prediction for GeneMark_model.99175_t
Valid prediction for Augustus_model.g37833.t1
Valid prediction for GlimmerHMM_glimmerT_56808-T1
Valid prediction for Augustus_model.g37834.t1
Valid prediction for snap_scaffold_26-snap.906-T1
Valid prediction for snap_scaffold_26-snap.915-T1
Valid prediction for GeneMark_model.99218_t
Valid prediction for snap_scaffold_26-snap.913-T1
Couldn't classify 12063, 12069
Sorry, prediction pasa_asmbl_34813.p1 fails validation.
(ATG)	 AA	10254-10331	GT	AGG
(GTG)	 AG	10552-10699	GT	CGG
(CTG)	 AG	10835-10982	GT	GGG
(TGA)	 AG	11711-11863	GT	AGG
(GTG)	 AG	12063-12069	GA	GGG
-recovered pasa_asmbl_34813.p1, initial, 10254, 10331
-recovered pasa_asmbl_34813.p1, internal, 10552, 10699
-recovered pasa_asmbl_34813.p1, internal, 10835, 10982
-recovered pasa_asmbl_34813.p1, internal, 11711, 11863
Valid prediction for Augustus_model.g37836.t1
Valid prediction for GeneMark_model.99192_t
Valid prediction for GlimmerHMM_glimmerT_56810-T1
Valid prediction for GlimmerHMM_glimmerT_56791-T1
Valid prediction for GeneMark_model.99173_t
Valid prediction for Augustus_model.g37823.t1
Valid prediction for snap_scaffold_26-snap.937-T1
Valid prediction for GeneMark_model.99203_t
Valid prediction for GeneMark_model.99219_t
Valid prediction for Augustus_model.g37822.t1
Valid prediction for snap_scaffold_26-snap.931-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_56792-T1
Valid prediction for GeneMark_model.99206_t
Valid prediction for GlimmerHMM_glimmerT_56788-T1
Valid prediction for GlimmerHMM_glimmerT_56796-T1
Valid prediction for GeneMark_model.99176_t
Valid prediction for GeneMark_model.99204_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 24246, rend_intergenic: 22564  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25738, rend_intergenic: 24249  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32872, rend_intergenic: 28983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34781, rend_intergenic: 33255  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35472, rend_intergenic: 34815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37163, rend_intergenic: 35597  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38902, rend_intergenic: 38709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45670, rend_intergenic: 39477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48042, rend_intergenic: 45920  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63130, rend_intergenic: 48407  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79356, rend_intergenic: 75230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84798, rend_intergenic: 81846  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97130, rend_intergenic: 90288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103418, rend_intergenic: 102282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119834, rend_intergenic: 116015  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 130087
-exon list size: 628


building trellis

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-found 47 predictions from path traversal
Error with prediction: snap lend_intergenic: 24246, rend_intergenic: 22564  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25738, rend_intergenic: 24249  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32872, rend_intergenic: 28983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34781, rend_intergenic: 33255  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35472, rend_intergenic: 34815  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37163, rend_intergenic: 35597  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38902, rend_intergenic: 38709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45670, rend_intergenic: 39477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48042, rend_intergenic: 45920  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63130, rend_intergenic: 48407  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79356, rend_intergenic: 75230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84798, rend_intergenic: 81846  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97130, rend_intergenic: 90288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103418, rend_intergenic: 102282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119834, rend_intergenic: 116015  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