-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_3517307-3734452

-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 CodingQuarry_transcript_5338-T1
Valid prediction for Augustus_model.g16295.t1
Valid prediction for Augustus_model.g16289.t1
Valid prediction for GlimmerHMM_glimmerT_24455-T1
Valid prediction for snap_scaffold_10-snap.777-T1
Valid prediction for snap_scaffold_10-snap.764-T1
Valid prediction for pasa_asmbl_3061.p1
Valid prediction for GlimmerHMM_glimmerT_24457-T1
Couldn't classify 156964, 157050
Sorry, prediction pasa_asmbl_3060.p1 fails validation.
(CAG)	 TT	156964-157050	GT	CGG
(GTT)	 AG	157294-157407	GT	TGG
(ATC)	 AG	157569-157707	GT	AGG
(GTT)	 AG	158011-158124	GT	GGG
(GTG)	 AG	158750-158897	GT	AGG
(TCG)	 AG	159585-159678	GT	AGG
(GTG)	 AG	161752-161914	GT	AGG
(GCT)	 AG	162023-162191	GT	GAG
(GAA)	 AG	162367-162502	GT	TGG
(GTG)	 AG	164753-164917	AA	AGA
-recovered pasa_asmbl_3060.p1, terminal, 164753, 164917
-recovered pasa_asmbl_3060.p1, internal, 157294, 157407
-recovered pasa_asmbl_3060.p1, internal, 157569, 157707
-recovered pasa_asmbl_3060.p1, internal, 158011, 158124
-recovered pasa_asmbl_3060.p1, internal, 158750, 158897
-recovered pasa_asmbl_3060.p1, internal, 159585, 159678
-recovered pasa_asmbl_3060.p1, internal, 161752, 161914
-recovered pasa_asmbl_3060.p1, internal, 162023, 162191
-recovered pasa_asmbl_3060.p1, internal, 162367, 162502
Valid prediction for GlimmerHMM_glimmerT_24461-T1
Valid prediction for Augustus_model.g16288.t1
Valid prediction for snap_scaffold_10-snap.788-T1
Valid prediction for Augustus_model.g16294.t1
Valid prediction for snap_scaffold_10-snap.768-T1
Valid prediction for snap_scaffold_10-snap.773-T1
Valid prediction for GlimmerHMM_glimmerT_24473-T1
Valid prediction for snap_scaffold_10-snap.796-T1
Valid prediction for snap_scaffold_10-snap.778-T1
Valid prediction for Augustus_model.g16286.t1
Valid prediction for snap_scaffold_10-snap.783-T1
Valid prediction for snap_scaffold_10-snap.766-T1
Valid prediction for CodingQuarry_transcript_5337-T1
Valid prediction for snap_scaffold_10-snap.797-T1
Valid prediction for snap_scaffold_10-snap.772-T1
Valid prediction for Augustus_model.g16290.t1
Valid prediction for GlimmerHMM_glimmerT_24452-T1
Valid prediction for snap_scaffold_10-snap.790-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_24475-T1
Couldn't classify 139594, 139642
Couldn't classify 140431, 140542
Sorry, prediction pasa_asmbl_3055.p1 fails validation.
(GTG)	 CG	139594-139642	GT	GAG
(TCG)	 AG	139774-139850	GT	AGG
(GTG)	 AG	139945-140051	GT	AAG
(TGC)	 AG	140431-140542	CA	GCC
-recovered pasa_asmbl_3055.p1, internal, 139774, 139850
-recovered pasa_asmbl_3055.p1, internal, 139945, 140051
Valid prediction for snap_scaffold_10-snap.776-T1
Valid prediction for pasa_asmbl_3065.p1
Couldn't classify 141521, 141693
Sorry, prediction pasa_asmbl_3056.p1 fails validation.
(AAC)	 GG	141521-141693	GT	AAG
(TGA)	 AG	142630-142861	AC	AAA
-recovered pasa_asmbl_3056.p1, terminal, 142630, 142861
Valid prediction for snap_scaffold_10-snap.767-T1
Couldn't classify 150511, 150606
Couldn't classify 153623, 153752
Sorry, prediction pasa_asmbl_3059.p1 fails validation.
(AAT)	 CC	150511-150606	GT	AGG
(GTG)	 AG	151188-151317	GT	TGG
(AGT)	 AG	151869-151955	GT	AGG
(GGA)	 AG	153458-153548	GT	AGG
(GCG)	 AG	153623-153752	CC	ACC
-recovered pasa_asmbl_3059.p1, internal, 151188, 151317
-recovered pasa_asmbl_3059.p1, internal, 151869, 151955
-recovered pasa_asmbl_3059.p1, internal, 153458, 153548
Valid prediction for Augustus_model.g16284.t1
Valid prediction for GlimmerHMM_glimmerT_24466-T1
Valid prediction for GlimmerHMM_glimmerT_24451-T1
Valid prediction for snap_scaffold_10-snap.769-T1
Valid prediction for snap_scaffold_10-snap.794-T1
Valid prediction for GlimmerHMM_glimmerT_24450-T1
Valid prediction for Augustus_model.g16285.t1
Valid prediction for Augustus_model.g16292.t1
Valid prediction for GlimmerHMM_glimmerT_24467-T1
Valid prediction for GlimmerHMM_glimmerT_24470-T1
Valid prediction for GlimmerHMM_glimmerT_24474-T1
Couldn't classify 147710, 147719
Couldn't classify 149145, 149243
Sorry, prediction pasa_asmbl_3058.p1 fails validation.
(CAC)	 GG	147710-147719	GT	AGG
(GCC)	 AG	148068-148246	GT	CGG
(CTA)	 AG	148525-148704	GT	CGG
(GTG)	 AG	149145-149243	AC	AGA
-recovered pasa_asmbl_3058.p1, internal, 148068, 148246
-recovered pasa_asmbl_3058.p1, internal, 148525, 148704
Valid prediction for snap_scaffold_10-snap.775-T1
Valid prediction for GlimmerHMM_glimmerT_24463-T1
Valid prediction for GlimmerHMM_glimmerT_24464-T1
Valid prediction for GlimmerHMM_glimmerT_24456-T1
Valid prediction for GlimmerHMM_glimmerT_24465-T1
Valid prediction for HiQ_model.g16293.t1
Valid prediction for snap_scaffold_10-snap.798-T1
Valid prediction for snap_scaffold_10-snap.786-T1
Valid prediction for GlimmerHMM_glimmerT_24459-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_10-snap.779-T1
Valid prediction for Augustus_model.g16287.t1
Valid prediction for snap_scaffold_10-snap.770-T1
Valid prediction for GlimmerHMM_glimmerT_24449-T1
Valid prediction for snap_scaffold_10-snap.765-T1
Valid prediction for GlimmerHMM_glimmerT_24446-T1
Valid prediction for snap_scaffold_10-snap.771-T1
Valid prediction for Augustus_model.g16282.t1
Valid prediction for Augustus_model.g16283.t1
Valid prediction for GlimmerHMM_glimmerT_24454-T1
Valid prediction for GlimmerHMM_glimmerT_24453-T1
Valid prediction for GlimmerHMM_glimmerT_24462-T1
Valid prediction for snap_scaffold_10-snap.787-T1
Valid prediction for snap_scaffold_10-snap.792-T1
Valid prediction for snap_scaffold_10-snap.793-T1
Valid prediction for Augustus_model.g16291.t1
Valid prediction for GlimmerHMM_glimmerT_24471-T1
Valid prediction for GlimmerHMM_glimmerT_24445-T1
Valid prediction for snap_scaffold_10-snap.795-T1
Valid prediction for snap_scaffold_10-snap.780-T1
Couldn't classify 207086, 207097
Couldn't classify 208829, 208854
Sorry, prediction pasa_asmbl_4216.p1 fails validation.
(CTC)	 CC	207086-207097	GT	GGG
(CCC)	 AG	207259-207370	GT	AGG
(GAG)	 AG	207540-207637	GT	AGG
(CAC)	 AG	208635-208740	GT	AGG
(GCT)	 AG	208829-208854	GA	AGG
-recovered pasa_asmbl_4216.p1, internal, 207259, 207370
-recovered pasa_asmbl_4216.p1, internal, 207540, 207637
-recovered pasa_asmbl_4216.p1, internal, 208635, 208740
Valid prediction for snap_scaffold_10-snap.781-T1
Valid prediction for GlimmerHMM_glimmerT_24458-T1
Valid prediction for GlimmerHMM_glimmerT_24472-T1
Valid prediction for GlimmerHMM_glimmerT_24460-T1
Valid prediction for snap_scaffold_10-snap.774-T1
Valid prediction for GlimmerHMM_glimmerT_24469-T1
Couldn't classify 198371, 198627
Couldn't classify 198834, 198948
Sorry, prediction pasa_asmbl_4217.p2 fails validation.
(AGG)	 AG	198371-198627	GT	AGG
(GGA)	 AG	198834-198948	CC	AGC
-recovered pasa_asmbl_4217.p2, internal, 198371, 198627
Valid prediction for snap_scaffold_10-snap.785-T1
Valid prediction for pasa_asmbl_4215.p1
Valid prediction for GlimmerHMM_glimmerT_24468-T1
Valid prediction for snap_scaffold_10-snap.784-T1
Valid prediction for GlimmerHMM_glimmerT_24447-T1
Valid prediction for snap_scaffold_10-snap.791-T1
Valid prediction for GlimmerHMM_glimmerT_24448-T1
Valid prediction for snap_scaffold_10-snap.789-T1
Valid prediction for snap_scaffold_10-snap.782-T1
Valid prediction for snap_scaffold_10-snap.799-T1
Valid prediction for Augustus_model.g16281.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5943, rend_intergenic: 3436  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23306, rend_intergenic: 6028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35340, rend_intergenic: 23817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45901, rend_intergenic: 35799  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55437, rend_intergenic: 54221  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80214, rend_intergenic: 55451  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111439, rend_intergenic: 82288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125079, rend_intergenic: 119853  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161283, rend_intergenic: 146601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170440, rend_intergenic: 169780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176842, rend_intergenic: 170683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186945, rend_intergenic: 178224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192276, rend_intergenic: 191916  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195481, rend_intergenic: 192282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210928, rend_intergenic: 203869  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 217146
-exon list size: 410


building trellis

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30.6    
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37.6    
37.9    
38.1    
38.3    
38.6    
38.8    
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39.6    
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42.2    
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45.6    
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97.6    
97.8    
98.1    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 5943, rend_intergenic: 3436  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23306, rend_intergenic: 6028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35340, rend_intergenic: 23817  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45901, rend_intergenic: 35799  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55437, rend_intergenic: 54221  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80214, rend_intergenic: 55451  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111439, rend_intergenic: 82288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125079, rend_intergenic: 119853  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161283, rend_intergenic: 146601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170440, rend_intergenic: 169780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176842, rend_intergenic: 170683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186945, rend_intergenic: 178224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192276, rend_intergenic: 191916  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195481, rend_intergenic: 192282  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210928, rend_intergenic: 203869  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support