-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_13333954-13551118

-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_17-snap.2747-T1
Valid prediction for GlimmerHMM_glimmerT_41364-T1
Valid prediction for Augustus_model.g27560.t1
Valid prediction for snap_scaffold_17-snap.2769-T1
Valid prediction for Augustus_model.g27565.t1
Couldn't classify 25628, 25816
Sorry, prediction pasa_asmbl_19495.p2 fails validation.
(TAT)	 GC	25628-25816	GT	GGG
(GAG)	 AG	26119-26238	AT	AGA
-recovered pasa_asmbl_19495.p2, terminal, 26119, 26238
Valid prediction for snap_scaffold_17-snap.2745-T1
Valid prediction for GlimmerHMM_glimmerT_41356-T1
Valid prediction for GlimmerHMM_glimmerT_41351-T1
Couldn't classify 10804, 10946
Couldn't classify 14746, 14904
Sorry, prediction pasa_asmbl_19463.p1 fails validation.
(GAG)	 AG	10804-10946	GT	CTG
(GGT)	 AG	13457-13553	GT	AGG
(ACT)	 AG	14746-14904	GT	AGG
-recovered pasa_asmbl_19463.p1, internal, 10804, 10946
-recovered pasa_asmbl_19463.p1, internal, 13457, 13553
-recovered pasa_asmbl_19463.p1, internal, 14746, 14904
Valid prediction for GlimmerHMM_glimmerT_41358-T1
Valid prediction for GlimmerHMM_glimmerT_41352-T1
Valid prediction for snap_scaffold_17-snap.2735-T1
Valid prediction for GlimmerHMM_glimmerT_41355-T1
Valid prediction for snap_scaffold_17-snap.2765-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_41365-T1
Valid prediction for snap_scaffold_17-snap.2757-T1
Couldn't classify 203696, 204025
Couldn't classify 205023, 205175
Sorry, prediction pasa_asmbl_19333.p1 fails validation.
(TGT)	 TG	203696-204025	GT	AGG
(ACC)	 AG	204237-204326	GT	CTG
(TTC)	 AG	204447-204566	GT	AGG
(GTT)	 AG	205023-205175	AA	CCA
-recovered pasa_asmbl_19333.p1, internal, 204237, 204326
-recovered pasa_asmbl_19333.p1, internal, 204447, 204566
Valid prediction for snap_scaffold_17-snap.2739-T1
Valid prediction for snap_scaffold_17-snap.2738-T1
Valid prediction for CodingQuarry_transcript_22236-T1
Valid prediction for Augustus_model.g27566.t1
Valid prediction for GlimmerHMM_glimmerT_41363-T1
Valid prediction for snap_scaffold_17-snap.2732-T1
Valid prediction for snap_scaffold_17-snap.2772-T1
Valid prediction for Augustus_model.g27550.t1
Valid prediction for snap_scaffold_17-snap.2773-T1
Valid prediction for GlimmerHMM_glimmerT_41368-T1
Valid prediction for snap_scaffold_17-snap.2776-T1
Valid prediction for snap_scaffold_17-snap.2775-T1
Valid prediction for snap_scaffold_17-snap.2771-T1
Valid prediction for GlimmerHMM_glimmerT_41342-T1
Valid prediction for Augustus_model.g27559.t1
Valid prediction for snap_scaffold_17-snap.2749-T1
Valid prediction for snap_scaffold_17-snap.2782-T1
Valid prediction for GlimmerHMM_glimmerT_41367-T1
Valid prediction for snap_scaffold_17-snap.2733-T1
Valid prediction for snap_scaffold_17-snap.2751-T1
Valid prediction for snap_scaffold_17-snap.2768-T1
Valid prediction for snap_scaffold_17-snap.2742-T1
Valid prediction for snap_scaffold_17-snap.2756-T1
Valid prediction for snap_scaffold_17-snap.2780-T1
Valid prediction for GlimmerHMM_glimmerT_41343-T1
Valid prediction for CodingQuarry_transcript_22238-T1
Valid prediction for pasa_asmbl_19327.p1
Valid prediction for GlimmerHMM_glimmerT_41357-T1
Valid prediction for HiQ_model.g27564.t1
Valid prediction for GlimmerHMM_glimmerT_41353-T1
Valid prediction for GlimmerHMM_glimmerT_41347-T1
Couldn't classify 206877, 206969
Sorry, prediction pasa_asmbl_19334.p1 fails validation.
(AAG)	 AG	206877-206969	GT	TCG
(ATC)	 AG	207678-207755	GT	AGG
(ATT)	 AG	207959-208051	GT	AGG
(TTG)	 AG	208228-208497	AG	AAA
-recovered pasa_asmbl_19334.p1, terminal, 208228, 208497
-recovered pasa_asmbl_19334.p1, internal, 206877, 206969
-recovered pasa_asmbl_19334.p1, internal, 207678, 207755
-recovered pasa_asmbl_19334.p1, internal, 207959, 208051
Valid prediction for GlimmerHMM_glimmerT_41346-T1
Valid prediction for snap_scaffold_17-snap.2758-T1
Valid prediction for snap_scaffold_17-snap.2761-T1
Valid prediction for snap_scaffold_17-snap.2760-T1
Valid prediction for pasa_asmbl_19330.p1
Valid prediction for HiQ_model.g27558.t1
Valid prediction for Augustus_model.g27552.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 snap_scaffold_17-snap.2755-T1
Valid prediction for snap_scaffold_17-snap.2759-T1
Valid prediction for snap_scaffold_17-snap.2754-T1
Valid prediction for snap_scaffold_17-snap.2736-T1
Valid prediction for snap_scaffold_17-snap.2741-T1
Valid prediction for snap_scaffold_17-snap.2778-T1
Valid prediction for Augustus_model.g27554.t1
Valid prediction for snap_scaffold_17-snap.2770-T1
Valid prediction for snap_scaffold_17-snap.2762-T1
Valid prediction for GlimmerHMM_glimmerT_41359-T1
Valid prediction for snap_scaffold_17-snap.2753-T1
Valid prediction for snap_scaffold_17-snap.2740-T1
Valid prediction for pasa_asmbl_18365.p1
Valid prediction for snap_scaffold_17-snap.2752-T1
Valid prediction for snap_scaffold_17-snap.2737-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for Augustus_model.g27551.t1
Valid prediction for Augustus_model.g27553.t1
Valid prediction for snap_scaffold_17-snap.2763-T1
Valid prediction for GlimmerHMM_glimmerT_41348-T1
Valid prediction for GlimmerHMM_glimmerT_41345-T1
Valid prediction for GlimmerHMM_glimmerT_41366-T1
Valid prediction for GlimmerHMM_glimmerT_41362-T1
Valid prediction for Augustus_model.g27567.t1
Valid prediction for Augustus_model.g27557.t1
Valid prediction for pasa_asmbl_18368.p1
Valid prediction for Augustus_model.g27556.t1
Valid prediction for GlimmerHMM_glimmerT_41361-T1
Valid prediction for CodingQuarry_transcript_22235-T1
Valid prediction for snap_scaffold_17-snap.2750-T1
Valid prediction for GlimmerHMM_glimmerT_41350-T1
Valid prediction for snap_scaffold_17-snap.2743-T1
Valid prediction for Augustus_model.g27562.t1
Valid prediction for snap_scaffold_17-snap.2781-T1
Valid prediction for snap_scaffold_17-snap.2734-T1
Valid prediction for GlimmerHMM_glimmerT_41349-T1
Valid prediction for snap_scaffold_17-snap.2748-T1
Valid prediction for GlimmerHMM_glimmerT_41360-T1
Valid prediction for snap_scaffold_17-snap.2777-T1
Valid prediction for snap_scaffold_17-snap.2766-T1
Valid prediction for snap_scaffold_17-snap.2744-T1
Valid prediction for snap_scaffold_17-snap.2746-T1
Valid prediction for Augustus_model.g27555.t1
Valid prediction for GlimmerHMM_glimmerT_41344-T1
Valid prediction for CodingQuarry_transcript_22237-T1
Valid prediction for Augustus_model.g27563.t1
Valid prediction for HiQ_model.g27561.t1
Valid prediction for snap_scaffold_17-snap.2779-T1
Valid prediction for snap_scaffold_17-snap.2774-T1
Valid prediction for snap_scaffold_17-snap.2764-T1
Valid prediction for snap_scaffold_17-snap.2767-T1
Valid prediction for GlimmerHMM_glimmerT_41354-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17747, rend_intergenic: 15703  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19876, rend_intergenic: 17964  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22134, rend_intergenic: 19917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26621, rend_intergenic: 22500  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37784, rend_intergenic: 35789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52773, rend_intergenic: 48917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56641, rend_intergenic: 54499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71774, rend_intergenic: 70859  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72576, rend_intergenic: 72477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80765, rend_intergenic: 73643  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89648, rend_intergenic: 83729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131124, rend_intergenic: 124501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172986, rend_intergenic: 168959  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183047, rend_intergenic: 179444  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184606, rend_intergenic: 183975  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188296, rend_intergenic: 184607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192306, rend_intergenic: 190295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196180, rend_intergenic: 192566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208497, rend_intergenic: 202527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 213251, rend_intergenic: 211908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215824, rend_intergenic: 214110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 217165
-exon list size: 429


building trellis

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98.1    
98.4    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 17747, rend_intergenic: 15703  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19876, rend_intergenic: 17964  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22134, rend_intergenic: 19917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26621, rend_intergenic: 22500  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37784, rend_intergenic: 35789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52773, rend_intergenic: 48917  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56641, rend_intergenic: 54499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71774, rend_intergenic: 70859  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72576, rend_intergenic: 72477  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80765, rend_intergenic: 73643  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89648, rend_intergenic: 83729  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131124, rend_intergenic: 124501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172986, rend_intergenic: 168959  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183047, rend_intergenic: 179444  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184606, rend_intergenic: 183975  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188296, rend_intergenic: 184607  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192306, rend_intergenic: 190295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196180, rend_intergenic: 192566  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208497, rend_intergenic: 202527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 213251, rend_intergenic: 211908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215824, rend_intergenic: 214110  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 10303
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support