-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_16/scaffold_16_5485176-5670861

-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_16-snap.1105-T1
Valid prediction for snap_scaffold_16-snap.1088-T1
Valid prediction for snap_scaffold_16-snap.1092-T1
Valid prediction for snap_scaffold_16-snap.1104-T1
Valid prediction for GeneMark_model.67143_t
Couldn't classify 152006, 152356
Sorry, prediction pasa_asmbl_16304.p1 fails validation.
(CTG)	 TG	152006-152356	CT	CCC
Valid prediction for Augustus_model.g26338.t1
Valid prediction for GeneMark_model.67156_t
Valid prediction for snap_scaffold_16-snap.1108-T1
Valid prediction for pasa_asmbl_17011.p1
Valid prediction for snap_scaffold_16-snap.1079-T1
Valid prediction for GeneMark_model.67146_t
Valid prediction for GeneMark_model.67162_t
Valid prediction for snap_scaffold_16-snap.1086-T1
Valid prediction for GeneMark_model.67145_t
Valid prediction for GeneMark_model.67124_t
Valid prediction for snap_scaffold_16-snap.1084-T1
Valid prediction for GlimmerHMM_glimmerT_39215-T1
Valid prediction for snap_scaffold_16-snap.1093-T1
Valid prediction for GeneMark_model.67134_t
Valid prediction for GlimmerHMM_glimmerT_39213-T1
Valid prediction for snap_scaffold_16-snap.1099-T1
Valid prediction for HiQ_model.g26348.t1
Valid prediction for GeneMark_model.67137_t
Valid prediction for GlimmerHMM_glimmerT_39205-T1
Valid prediction for snap_scaffold_16-snap.1074-T1
Valid prediction for GlimmerHMM_glimmerT_39211-T1
Valid prediction for snap_scaffold_16-snap.1075-T1
Valid prediction for pasa_asmbl_17013.p1
Valid prediction for GeneMark_model.67131_t
Valid prediction for GeneMark_model.67139_t
Valid prediction for GeneMark_model.67155_t
Valid prediction for CodingQuarry_transcript_19931-T1
Valid prediction for GeneMark_model.67135_t
Valid prediction for snap_scaffold_16-snap.1097-T1
Valid prediction for GeneMark_model.67150_t
Valid prediction for GeneMark_model.67141_t
Valid prediction for GeneMark_model.67126_t
Valid prediction for snap_scaffold_16-snap.1101-T1
Valid prediction for GlimmerHMM_glimmerT_39219-T1
Valid prediction for CodingQuarry_transcript_19929-T1
Valid prediction for GlimmerHMM_glimmerT_39207-T1
Valid prediction for Augustus_model.g26345.t1
Valid prediction for snap_scaffold_16-snap.1072-T1
Valid prediction for snap_scaffold_16-snap.1090-T1
Valid prediction for GeneMark_model.67140_t
Valid prediction for GeneMark_model.67157_t
Valid prediction for GlimmerHMM_glimmerT_39208-T1
Valid prediction for snap_scaffold_16-snap.1083-T1
Valid prediction for snap_scaffold_16-snap.1102-T1
Valid prediction for GlimmerHMM_glimmerT_39199-T1
Valid prediction for GeneMark_model.67152_t
Valid prediction for GeneMark_model.67149_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_16-snap.1100-T1
Valid prediction for GeneMark_model.67133_t
Valid prediction for Augustus_model.g26352.t1
Valid prediction for snap_scaffold_16-snap.1077-T1
Valid prediction for GeneMark_model.67148_t
Valid prediction for GlimmerHMM_glimmerT_39203-T1
Valid prediction for GlimmerHMM_glimmerT_39212-T1
Valid prediction for snap_scaffold_16-snap.1094-T1
Valid prediction for GeneMark_model.67144_t
Valid prediction for GeneMark_model.67159_t
Valid prediction for GeneMark_model.67130_t
Valid prediction for GlimmerHMM_glimmerT_39214-T1
Valid prediction for GeneMark_model.67158_t
Valid prediction for GlimmerHMM_glimmerT_39217-T1
Couldn't classify 153168, 153253
Couldn't classify 155179, 155426
Sorry, prediction pasa_asmbl_16298.p1 fails validation.
(AAG)	 TC	153168-153253	GT	AGG
(ATA)	 AG	154070-154607	GT	AGG
(GCA)	 AG	154819-155029	GT	AGG
(AAG)	 AG	155179-155426	CC	CCC
-recovered pasa_asmbl_16298.p1, internal, 154070, 154607
-recovered pasa_asmbl_16298.p1, internal, 154819, 155029
Valid prediction for snap_scaffold_16-snap.1081-T1
Valid prediction for GeneMark_model.67129_t
Valid prediction for GeneMark_model.67153_t
Valid prediction for GlimmerHMM_glimmerT_39206-T1
Valid prediction for GlimmerHMM_glimmerT_39201-T1
Valid prediction for GeneMark_model.67151_t
Valid prediction for GlimmerHMM_glimmerT_39209-T1
Couldn't classify 172385, 172464
Couldn't classify 174602, 174671
Sorry, prediction pasa_asmbl_16287.p1 fails validation.
(AGA)	 TG	172385-172464	GT	GGG
(GGA)	 AG	172630-172752	GT	AGG
(GGG)	 AG	173214-173403	GT	AGG
(GCG)	 AG	173790-174031	GT	AAG
(GTA)	 AG	174197-174272	GT	TGG
(TAT)	 AG	174377-174504	GT	GAG
(GGC)	 AG	174602-174671	TG	ACT
-recovered pasa_asmbl_16287.p1, internal, 172630, 172752
-recovered pasa_asmbl_16287.p1, internal, 173214, 173403
-recovered pasa_asmbl_16287.p1, internal, 173790, 174031
-recovered pasa_asmbl_16287.p1, internal, 174197, 174272
-recovered pasa_asmbl_16287.p1, internal, 174377, 174504
Valid prediction for snap_scaffold_16-snap.1110-T1
Valid prediction for snap_scaffold_16-snap.1080-T1
Valid prediction for GlimmerHMM_glimmerT_39204-T1
Valid prediction for snap_scaffold_16-snap.1098-T1
Valid prediction for snap_scaffold_16-snap.1103-T1
Valid prediction for Augustus_model.g26342.t1
Valid prediction for snap_scaffold_16-snap.1106-T1
Valid prediction for Augustus_model.g26341.t1
Valid prediction for snap_scaffold_16-snap.1107-T1
Valid prediction for snap_scaffold_16-snap.1073-T1
Valid prediction for snap_scaffold_16-snap.1096-T1
Couldn't classify 174804, 174842
Sorry, prediction pasa_asmbl_16285.p1 fails validation.
(TAC)	 CC	174804-174842	GT	GGG
(GGG)	 AG	174995-175120	GT	TGG
(AAG)	 AG	175228-175343	GT	AGG
(TTA)	 AG	175694-175862	AT	GAA
-recovered pasa_asmbl_16285.p1, terminal, 175694, 175862
-recovered pasa_asmbl_16285.p1, internal, 174995, 175120
-recovered pasa_asmbl_16285.p1, internal, 175228, 175343
Valid prediction for GeneMark_model.67132_t
Valid prediction for snap_scaffold_16-snap.1082-T1
Valid prediction for snap_scaffold_16-snap.1095-T1
Valid prediction for Augustus_model.g26343.t1
Valid prediction for GeneMark_model.67127_t
Couldn't classify 170250, 170342
Couldn't classify 171858, 171893
Sorry, prediction pasa_asmbl_16289.p1 fails validation.
(TCC)	 AG	170250-170342	GT	AGG
(CTC)	 AG	170482-170625	GT	AGG
(CAG)	 AG	170809-170906	GT	AGG
(ACT)	 AG	171116-171218	GT	AGG
(GAG)	 AG	171348-171430	GT	GGG
(GTC)	 AG	171551-171683	GT	AGG
(ATG)	 AG	171858-171893	AG	TGA
-recovered pasa_asmbl_16289.p1, internal, 170250, 170342
-recovered pasa_asmbl_16289.p1, internal, 170482, 170625
-recovered pasa_asmbl_16289.p1, internal, 170809, 170906
-recovered pasa_asmbl_16289.p1, internal, 171116, 171218
-recovered pasa_asmbl_16289.p1, internal, 171348, 171430
-recovered pasa_asmbl_16289.p1, internal, 171551, 171683
Valid prediction for snap_scaffold_16-snap.1076-T1
Valid prediction for HiQ_model.g26349.t1
Valid prediction for Augustus_model.g26346.t1
Valid prediction for snap_scaffold_16-snap.1087-T1
Couldn't classify 133295, 133493
Couldn't classify 137321, 137372
Sorry, prediction pasa_asmbl_16300.p1 fails validation.
(CAG)	 TC	133295-133493	GT	GGG
(GTG)	 AG	136262-136460	GT	AGG
(GAA)	 AG	137321-137372	GC	AGG
-recovered pasa_asmbl_16300.p1, internal, 136262, 136460
-recovered pasa_asmbl_16300.p1, internal, 137321, 137372
Valid prediction for Augustus_model.g26340.t1
Valid prediction for snap_scaffold_16-snap.1078-T1
Valid prediction for GeneMark_model.67161_t
Couldn't classify 156310, 156435
Sorry, prediction pasa_asmbl_16294.p1 fails validation.
(CCC)	 CT	156310-156435	GT	AGG
(AGC)	 AG	157870-157947	GT	GGG
(GTC)	 AG	158292-158405	GT	AGG
(AAC)	 AG	160547-160672	GT	AGG
(ACT)	 AG	162112-162327	CA	AGC
-recovered pasa_asmbl_16294.p1, terminal, 162112, 162327
-recovered pasa_asmbl_16294.p1, internal, 157870, 157947
-recovered pasa_asmbl_16294.p1, internal, 158292, 158405
-recovered pasa_asmbl_16294.p1, internal, 160547, 160672
Couldn't classify 42146, 42478
Couldn't classify 42724, 42804
Sorry, prediction pasa_asmbl_16303.p1 fails validation.
(CCG)	 CC	42146-42478	GT	AGG
(GTT)	 AG	42724-42804	AG	GAA
Couldn't classify 167192, 167299
Couldn't classify 168601, 168700
Sorry, prediction pasa_asmbl_16290.p1 fails validation.
(CAG)	 AC	167192-167299	GT	AGG
(ATC)	 AG	167400-167550	GT	AGG
(CTG)	 AG	167669-167821	GT	AGG
(ACG)	 AG	167984-168117	GT	GGG
(AGG)	 AG	168230-168390	GT	AGG
(CTC)	 AG	168601-168700	CC	GCC
-recovered pasa_asmbl_16290.p1, internal, 167400, 167550
-recovered pasa_asmbl_16290.p1, internal, 167669, 167821
-recovered pasa_asmbl_16290.p1, internal, 167984, 168117
-recovered pasa_asmbl_16290.p1, internal, 168230, 168390
Valid prediction for Augustus_model.g26350.t1
Valid prediction for GeneMark_model.67138_t
Valid prediction for HiQ_model.g26337.t1
Valid prediction for snap_scaffold_16-snap.1109-T1
Valid prediction for GlimmerHMM_glimmerT_39210-T1
Couldn't classify 160499, 160672
Couldn't classify 161785, 161940
Sorry, prediction pasa_asmbl_16297.p1 fails validation.
(TTT)	 AT	160499-160672	GT	AGG
(GCT)	 AG	161785-161940	AC	CCA
Valid prediction for GlimmerHMM_glimmerT_39202-T1
Valid prediction for snap_scaffold_16-snap.1085-T1
Valid prediction for snap_scaffold_16-snap.1111-T1
Valid prediction for GlimmerHMM_glimmerT_39218-T1
Valid prediction for GeneMark_model.67136_t
Valid prediction for snap_scaffold_16-snap.1089-T1
Valid prediction for GeneMark_model.67125_t
Valid prediction for GeneMark_model.67147_t
Valid prediction for GeneMark_model.67142_t
Valid prediction for Augustus_model.g26344.t1
Valid prediction for snap_scaffold_16-snap.1091-T1
Valid prediction for GeneMark_model.67160_t
Valid prediction for GlimmerHMM_glimmerT_39216-T1
Valid prediction for Augustus_model.g26339.t1
Valid prediction for GeneMark_model.67154_t
Valid prediction for Augustus_model.g26351.t1
Valid prediction for GlimmerHMM_glimmerT_39200-T1
Valid prediction for Augustus_model.g26347.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19067, rend_intergenic: 9888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37009, rend_intergenic: 32759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64176, rend_intergenic: 49308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75235, rend_intergenic: 69634  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80864, rend_intergenic: 76440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97129, rend_intergenic: 96278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104925, rend_intergenic: 100889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114419, rend_intergenic: 112577  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121253, rend_intergenic: 120506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139098, rend_intergenic: 136281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151538, rend_intergenic: 139106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158043, rend_intergenic: 151644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 185686
-exon list size: 540


building trellis

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99.6    
99.8    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 19067, rend_intergenic: 9888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37009, rend_intergenic: 32759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64176, rend_intergenic: 49308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75235, rend_intergenic: 69634  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80864, rend_intergenic: 76440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97129, rend_intergenic: 96278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104925, rend_intergenic: 100889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114419, rend_intergenic: 112577  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121253, rend_intergenic: 120506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139098, rend_intergenic: 136281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151538, rend_intergenic: 139106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158043, rend_intergenic: 151644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support