-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_14/scaffold_14_12614074-12845327

-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_35651-T1
Valid prediction for GlimmerHMM_glimmerT_35647-T1
Valid prediction for GeneMark_model.61088_t
Valid prediction for snap_scaffold_14-snap.2612-T1
Valid prediction for Augustus_model.g24008.t1
Valid prediction for snap_scaffold_14-snap.2625-T1
Valid prediction for GeneMark_model.61089_t
Valid prediction for GeneMark_model.61107_t
Valid prediction for HiQ_model.g23993.t1
Valid prediction for GeneMark_model.61113_t
Valid prediction for snap_scaffold_14-snap.2617-T1
Valid prediction for GeneMark_model.61080_t
Valid prediction for GlimmerHMM_glimmerT_35656-T1
Valid prediction for snap_scaffold_14-snap.2632-T1
Valid prediction for GlimmerHMM_glimmerT_35650-T1
Valid prediction for GeneMark_model.61109_t
Valid prediction for Augustus_model.g24005.t1
Valid prediction for snap_scaffold_14-snap.2604-T1
Valid prediction for snap_scaffold_14-snap.2621-T1
Valid prediction for GeneMark_model.61110_t
Valid prediction for GlimmerHMM_glimmerT_35645-T1
Valid prediction for GeneMark_model.61092_t
Valid prediction for GlimmerHMM_glimmerT_35654-T1
Valid prediction for GeneMark_model.61079_t
Valid prediction for GeneMark_model.61116_t
Valid prediction for snap_scaffold_14-snap.2600-T1
Valid prediction for HiQ_model.g24010.t1
Valid prediction for snap_scaffold_14-snap.2608-T1
Valid prediction for CodingQuarry_transcript_15844-T1
Valid prediction for snap_scaffold_14-snap.2614-T1
Valid prediction for CodingQuarry_transcript_15841-T1
Valid prediction for snap_scaffold_14-snap.2629-T1
Valid prediction for snap_scaffold_14-snap.2622-T1
Valid prediction for GeneMark_model.61101_t
Valid prediction for GeneMark_model.61085_t
Valid prediction for GeneMark_model.61106_t
Valid prediction for snap_scaffold_14-snap.2637-T1
Valid prediction for snap_scaffold_14-snap.2603-T1
Valid prediction for GlimmerHMM_glimmerT_35636-T1
Valid prediction for Augustus_model.g23992.t1
Valid prediction for GlimmerHMM_glimmerT_35648-T1
Valid prediction for snap_scaffold_14-snap.2635-T1
Valid prediction for GlimmerHMM_glimmerT_35641-T1
Valid prediction for CodingQuarry_transcript_15836-T1
Valid prediction for GlimmerHMM_glimmerT_35642-T1
Valid prediction for GeneMark_model.61104_t
Valid prediction for pasa_asmbl_12705.p1
Valid prediction for snap_scaffold_14-snap.2626-T1
Valid prediction for GeneMark_model.61086_t
Valid prediction for Augustus_model.g23998.t1
Valid prediction for GeneMark_model.61118_t
Valid prediction for pasa_asmbl_12432.p1

-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 Augustus_model.g23996.t1
Valid prediction for GeneMark_model.61090_t
Valid prediction for Augustus_model.g23995.t1
Valid prediction for GeneMark_model.61099_t
Valid prediction for pasa_asmbl_13583.p1
Valid prediction for GlimmerHMM_glimmerT_35633-T1
Valid prediction for snap_scaffold_14-snap.2602-T1
Valid prediction for pasa_asmbl_13600.p1
Valid prediction for GeneMark_model.61087_t
Valid prediction for GeneMark_model.61094_t
Valid prediction for snap_scaffold_14-snap.2619-T1
Valid prediction for Augustus_model.g23997.t1
Valid prediction for GeneMark_model.61114_t
Valid prediction for GeneMark_model.61102_t
Valid prediction for snap_scaffold_14-snap.2599-T1
Valid prediction for pasa_asmbl_13596.p1
Valid prediction for GlimmerHMM_glimmerT_35639-T1
Valid prediction for Augustus_model.g24002.t1
Valid prediction for snap_scaffold_14-snap.2620-T1
Valid prediction for GeneMark_model.61117_t
Valid prediction for HiQ_model.g24000.t1
Valid prediction for Augustus_model.g23994.t1
Valid prediction for snap_scaffold_14-snap.2613-T1
Valid prediction for CodingQuarry_transcript_15842-T1
Couldn't classify 134719, 135025
Sorry, prediction pasa_asmbl_13576.p1 fails validation.
(GAG)	 AG	134719-135025	GT	TGG
(ATC)	 AG	135362-135424	GT	TGG
(CAC)	 AG	135541-135822	GT	GGG
(GTG)	 AG	136192-136389	GT	AGG
(GTA)	 AG	136749-136927	GT	AGG
(CTC)	 AG	137223-137244	GT	AGG
(GAC)	 AG	137542-137806	GT	AGG
(GAT)	 AG	137960-138116	AA	AAA
-recovered pasa_asmbl_13576.p1, terminal, 137223, 137244
-recovered pasa_asmbl_13576.p1, terminal, 137960, 138116
-recovered pasa_asmbl_13576.p1, internal, 134719, 135025
-recovered pasa_asmbl_13576.p1, internal, 135362, 135424
-recovered pasa_asmbl_13576.p1, internal, 135541, 135822
-recovered pasa_asmbl_13576.p1, internal, 136192, 136389
-recovered pasa_asmbl_13576.p1, internal, 136749, 136927
-recovered pasa_asmbl_13576.p1, internal, 137223, 137244
-recovered pasa_asmbl_13576.p1, internal, 137542, 137806
Valid prediction for snap_scaffold_14-snap.2630-T1
Valid prediction for GlimmerHMM_glimmerT_35635-T1
Valid prediction for GeneMark_model.61108_t
Valid prediction for HiQ_model.g24004.t1
Valid prediction for GlimmerHMM_glimmerT_35649-T1
Valid prediction for GeneMark_model.61103_t
Valid prediction for snap_scaffold_14-snap.2606-T1
Couldn't classify 215557, 215628
Sorry, prediction pasa_asmbl_13571.p1 fails validation.
(CCC)	 AC	215557-215628	GT	TGG
(ACT)	 AG	216099-216161	GT	ATG
(GCG)	 AG	216262-216342	GT	AGG
(GAT)	 AG	216587-216739	GT	TGG
(GAG)	 AG	216969-217067	GT	AGG
(GAA)	 AG	217199-217307	GT	GGG
(TTC)	 AG	217531-217616	GT	TGG
(GAG)	 AG	217758-217862	GT	AGG
(CAC)	 AG	217996-218086	GT	TGG
(AAT)	 AG	218282-218337	GT	AGG
(AAG)	 AG	218855-218989	GT	AGG
(GTT)	 AG	219111-219638	GT	AGG
(GCT)	 AG	219875-219996	GT	AGG
(TGC)	 AG	220512-220642	GT	AGG
(ACT)	 AG	220973-222267	AG	AGA
-recovered pasa_asmbl_13571.p1, terminal, 220973, 222267
-recovered pasa_asmbl_13571.p1, internal, 216099, 216161
-recovered pasa_asmbl_13571.p1, internal, 216262, 216342
-recovered pasa_asmbl_13571.p1, internal, 216587, 216739
-recovered pasa_asmbl_13571.p1, internal, 216969, 217067
-recovered pasa_asmbl_13571.p1, internal, 217199, 217307
-recovered pasa_asmbl_13571.p1, internal, 217531, 217616
-recovered pasa_asmbl_13571.p1, internal, 217758, 217862
-recovered pasa_asmbl_13571.p1, internal, 217996, 218086
-recovered pasa_asmbl_13571.p1, internal, 218282, 218337
-recovered pasa_asmbl_13571.p1, internal, 218855, 218989
-recovered pasa_asmbl_13571.p1, internal, 219111, 219638
-recovered pasa_asmbl_13571.p1, internal, 219875, 219996
-recovered pasa_asmbl_13571.p1, internal, 220512, 220642
Valid prediction for GlimmerHMM_glimmerT_35655-T1
Valid prediction for snap_scaffold_14-snap.2618-T1
Valid prediction for Augustus_model.g24011.t1
Valid prediction for GeneMark_model.61115_t
Valid prediction for GeneMark_model.61081_t
Valid prediction for snap_scaffold_14-snap.2623-T1
Valid prediction for snap_scaffold_14-snap.2627-T1
Valid prediction for GeneMark_model.61093_t
Valid prediction for GeneMark_model.61084_t
Valid prediction for snap_scaffold_14-snap.2609-T1
Valid prediction for GlimmerHMM_glimmerT_35646-T1
Valid prediction for snap_scaffold_14-snap.2634-T1
Valid prediction for snap_scaffold_14-snap.2633-T1
Valid prediction for Augustus_model.g24006.t1
Valid prediction for GeneMark_model.61082_t
Valid prediction for Augustus_model.g23991.t1
Valid prediction for GeneMark_model.61096_t
Valid prediction for CodingQuarry_transcript_15840-T1
Valid prediction for CodingQuarry_transcript_15843-T1
Valid prediction for GlimmerHMM_glimmerT_35657-T1
Valid prediction for pasa_asmbl_13579.p1
Valid prediction for GeneMark_model.61112_t
Valid prediction for GlimmerHMM_glimmerT_35652-T1
Valid prediction for Augustus_model.g23990.t1
Valid prediction for GlimmerHMM_glimmerT_35638-T1
Valid prediction for snap_scaffold_14-snap.2631-T1
Valid prediction for snap_scaffold_14-snap.2624-T1
Couldn't classify 164808, 164903
Sorry, prediction pasa_asmbl_13846.p1 fails validation.
(AAC)	 AG	164808-164903	GT	AGG
(AAG)	 AG	165295-165427	GT	AGG
(GGG)	 AG	165643-165725	GT	CAG
(CAC)	 AG	166024-166130	GT	GGG
(ATC)	 AG	166349-166527	GT	AGG
(GGA)	 AG	167022-167131	GA	AGG
-recovered pasa_asmbl_13846.p1, terminal, 167022, 167131
-recovered pasa_asmbl_13846.p1, internal, 164808, 164903
-recovered pasa_asmbl_13846.p1, internal, 165295, 165427
-recovered pasa_asmbl_13846.p1, internal, 165643, 165725
-recovered pasa_asmbl_13846.p1, internal, 166024, 166130
-recovered pasa_asmbl_13846.p1, internal, 166349, 166527
Valid prediction for GeneMark_model.61119_t
Valid prediction for Augustus_model.g24001.t1
Valid prediction for GeneMark_model.61095_t
Valid prediction for snap_scaffold_14-snap.2615-T1
Valid prediction for HiQ_model.g24007.t1
Valid prediction for CodingQuarry_transcript_15835-T1
Valid prediction for GlimmerHMM_glimmerT_35653-T1
Valid prediction for GeneMark_model.61091_t
Valid prediction for snap_scaffold_14-snap.2611-T1
Valid prediction for snap_scaffold_14-snap.2607-T1
Valid prediction for GeneMark_model.61105_t
Valid prediction for Augustus_model.g23999.t1
Valid prediction for CodingQuarry_transcript_15839-T1
Valid prediction for GlimmerHMM_glimmerT_35634-T1
Valid prediction for GeneMark_model.61097_t
Valid prediction for snap_scaffold_14-snap.2616-T1
Valid prediction for GlimmerHMM_glimmerT_35637-T1
Valid prediction for GlimmerHMM_glimmerT_35640-T1
Valid prediction for CodingQuarry_transcript_15837-T1
Valid prediction for snap_scaffold_14-snap.2636-T1
Valid prediction for GeneMark_model.61100_t
Valid prediction for HiQ_model.g23989.t1
Valid prediction for snap_scaffold_14-snap.2601-T1
Valid prediction for snap_scaffold_14-snap.2605-T1
Valid prediction for snap_scaffold_14-snap.2628-T1
Valid prediction for GlimmerHMM_glimmerT_35643-T1
Valid prediction for GlimmerHMM_glimmerT_35644-T1
Valid prediction for snap_scaffold_14-snap.2610-T1
Valid prediction for HiQ_model.g24009.t1
Valid prediction for GeneMark_model.61111_t
Valid prediction for Augustus_model.g24003.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17975, rend_intergenic: 9812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63790, rend_intergenic: 59573  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74272, rend_intergenic: 69940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123567, rend_intergenic: 117979  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129638, rend_intergenic: 128150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134753, rend_intergenic: 129941  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155753, rend_intergenic: 151415  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158610, rend_intergenic: 155984  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192674, rend_intergenic: 190812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 231254
-exon list size: 701


building trellis

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85.5    
85.6    
85.8    
85.9    
86.1    
86.2    
86.3    
86.5    
86.6    
86.8    
86.9    
87.1    
87.2    
87.3    
87.5    
87.6    
87.8    
87.9    
88.1    
88.2    
88.3    
88.5    
88.6    
88.8    
88.9    
89.0    
89.2    
89.3    
89.5    
89.6    
89.8    
89.9    
90.0    
90.2    
90.3    
90.5    
90.6    
90.8    
90.9    
91.0    
91.2    
91.3    
91.5    
91.6    
91.7    
91.9    
92.0    
92.2    
92.3    
92.5    
92.6    
92.7    
92.9    
93.0    
93.2    
93.3    
93.5    
93.6    
93.7    
93.9    
94.0    
94.2    
94.3    
94.5    
94.6    
94.7    
94.9    
95.0    
95.2    
95.3    
95.4    
95.6    
95.7    
95.9    
96.0    
96.2    
96.3    
96.4    
96.6    
96.7    
96.9    
97.0    
97.2    
97.3    
97.4    
97.6    
97.7    
97.9    
98.0    
98.2    
98.3    
98.4    
98.6    
98.7    
98.9    
99.0    
99.1    
99.3    
99.4    
99.6    
99.7    
99.9    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 17975, rend_intergenic: 9812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63790, rend_intergenic: 59573  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74272, rend_intergenic: 69940  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123567, rend_intergenic: 117979  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129638, rend_intergenic: 128150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134753, rend_intergenic: 129941  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155753, rend_intergenic: 151415  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158610, rend_intergenic: 155984  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192674, rend_intergenic: 190812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support