-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_8437195-8639212

-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_40720-T1
Valid prediction for snap_scaffold_17-snap.1677-T1
Valid prediction for HiQ_model.g27150.t1
Valid prediction for GlimmerHMM_glimmerT_40716-T1
Valid prediction for snap_scaffold_17-snap.1690-T1
Valid prediction for pasa_asmbl_19009.p1
Valid prediction for HiQ_model.g27148.t1
Valid prediction for snap_scaffold_17-snap.1715-T1
Valid prediction for snap_scaffold_17-snap.1714-T1
Valid prediction for snap_scaffold_17-snap.1701-T1
Valid prediction for CodingQuarry_transcript_22070-T1
Couldn't classify 135297, 135902
Sorry, prediction pasa_asmbl_18999.p1 fails validation.
(CTG)	 CA	135297-135902	GG	GAG
Valid prediction for snap_scaffold_17-snap.1686-T1
Valid prediction for CodingQuarry_transcript_22077-T1
Valid prediction for Augustus_model.g27154.t1
Valid prediction for CodingQuarry_transcript_22068-T1
Valid prediction for snap_scaffold_17-snap.1712-T1
Valid prediction for snap_scaffold_17-snap.1689-T1
Valid prediction for snap_scaffold_17-snap.1679-T1
Valid prediction for snap_scaffold_17-snap.1687-T1
Valid prediction for GlimmerHMM_glimmerT_40732-T1
Valid prediction for snap_scaffold_17-snap.1710-T1
Valid prediction for GlimmerHMM_glimmerT_40725-T1
Couldn't classify 193422, 193483
Sorry, prediction pasa_asmbl_19012.p1 fails validation.
(GCC)	 CA	193422-193483	GT	AGG
(TGC)	 AG	193599-193866	TG	GAT
-recovered pasa_asmbl_19012.p1, terminal, 193599, 193866
Valid prediction for GlimmerHMM_glimmerT_40714-T1
Valid prediction for GlimmerHMM_glimmerT_40719-T1
Valid prediction for CodingQuarry_transcript_22076-T1
Valid prediction for Augustus_model.g27144.t1
Valid prediction for CodingQuarry_transcript_22069-T1
Valid prediction for GlimmerHMM_glimmerT_40723-T1
Valid prediction for GlimmerHMM_glimmerT_40728-T1
Valid prediction for GlimmerHMM_glimmerT_40731-T1
Valid prediction for snap_scaffold_17-snap.1695-T1
Valid prediction for GlimmerHMM_glimmerT_40721-T1
Valid prediction for snap_scaffold_17-snap.1713-T1
Valid prediction for GlimmerHMM_glimmerT_40710-T1
Valid prediction for snap_scaffold_17-snap.1705-T1
Valid prediction for HiQ_model.g27153.t1
Valid prediction for snap_scaffold_17-snap.1698-T1
Valid prediction for snap_scaffold_17-snap.1703-T1
Valid prediction for GlimmerHMM_glimmerT_40708-T1
Valid prediction for GlimmerHMM_glimmerT_40706-T1
Valid prediction for GlimmerHMM_glimmerT_40711-T1
Valid prediction for HiQ_model.g27145.t1
Valid prediction for GlimmerHMM_glimmerT_40709-T1
Valid prediction for snap_scaffold_17-snap.1708-T1
Valid prediction for snap_scaffold_17-snap.1699-T1
Valid prediction for snap_scaffold_17-snap.1675-T1
Valid prediction for snap_scaffold_17-snap.1682-T1
Valid prediction for GlimmerHMM_glimmerT_40733-T1
Couldn't classify 161975, 162061
Sorry, prediction pasa_asmbl_19000.p1 fails validation.
(GTA)	 TT	161975-162061	GT	AGG
(CCA)	 AG	162151-162246	GT	AGG
(GTG)	 AG	162337-162420	GT	AGG
(GTG)	 AG	162619-162684	GT	AGG
(TTT)	 AG	162808-162897	GT	ATG
(GTG)	 AG	163463-163570	GT	ATG
(GCA)	 AG	164073-164293	GT	AGG
(GAC)	 AG	164588-164693	GT	AGG
(CTG)	 AG	165011-165094	GT	AGG
(AAC)	 AG	165883-165977	GT	AGG
(CAA)	 AG	166098-166170	GC	GAG
-recovered pasa_asmbl_19000.p1, terminal, 166098, 166170
-recovered pasa_asmbl_19000.p1, internal, 162151, 162246
-recovered pasa_asmbl_19000.p1, internal, 162337, 162420
-recovered pasa_asmbl_19000.p1, internal, 162619, 162684
-recovered pasa_asmbl_19000.p1, internal, 162808, 162897
-recovered pasa_asmbl_19000.p1, internal, 163463, 163570
-recovered pasa_asmbl_19000.p1, internal, 164073, 164293
-recovered pasa_asmbl_19000.p1, internal, 164588, 164693
-recovered pasa_asmbl_19000.p1, internal, 165011, 165094
-recovered pasa_asmbl_19000.p1, internal, 165883, 165977
-recovered pasa_asmbl_19000.p1, internal, 166098, 166170
Valid prediction for GlimmerHMM_glimmerT_40718-T1
Valid prediction for GlimmerHMM_glimmerT_40724-T1
Valid prediction for Augustus_model.g27149.t1
Couldn't classify 185451, 185621
Sorry, prediction pasa_asmbl_19004.p1 fails validation.
(ATG)	 AA	172802-172897	GT	AGG
(GCC)	 AG	173210-173287	GT	AGG
(CTG)	 AG	173460-173570	GT	CTG
(GAC)	 AG	173692-173866	GT	GTG
(TCC)	 AG	174017-174112	GT	AGG
(GAG)	 AG	174259-174304	GT	GGG
(CCA)	 AG	176366-176410	GT	AGG
(AAC)	 AG	177117-177223	GT	CAG
(GGC)	 AG	177935-178003	GT	GAG
(GTG)	 AG	178120-178172	GT	ATG
(CTG)	 AG	178326-178411	GT	AGG
(GAT)	 AG	178627-178807	GT	TGG
(GTC)	 AG	179034-179235	GT	CGG
(ATC)	 AG	179325-179650	GT	AGG
(ATC)	 AG	179834-180006	GT	AGG
(CGA)	 AG	180124-180244	GT	AGG
(AAC)	 AG	180522-180561	GT	AGG
(CTG)	 AG	180729-180918	GT	AAG
(TTC)	 AG	181035-181101	GT	TGG
(CAC)	 AG	181237-181537	GT	AGG
(GGA)	 AG	181664-181752	GT	CTG
(CCT)	 AG	181836-181889	GT	TGG
(GAT)	 AG	182037-182118	GT	TGG
(GCG)	 AG	182467-182684	GT	CAG
(GTG)	 AG	183212-183311	GT	CGG
(GAG)	 AG	185243-185310	GT	AGG
(TCA)	 AG	185451-185621	CA	ACC
-recovered pasa_asmbl_19004.p1, initial, 172802, 172897
-recovered pasa_asmbl_19004.p1, internal, 173210, 173287
-recovered pasa_asmbl_19004.p1, internal, 173460, 173570
-recovered pasa_asmbl_19004.p1, internal, 173692, 173866
-recovered pasa_asmbl_19004.p1, internal, 174017, 174112
-recovered pasa_asmbl_19004.p1, internal, 174259, 174304
-recovered pasa_asmbl_19004.p1, internal, 176366, 176410
-recovered pasa_asmbl_19004.p1, internal, 177117, 177223
-recovered pasa_asmbl_19004.p1, internal, 177935, 178003
-recovered pasa_asmbl_19004.p1, internal, 178120, 178172
-recovered pasa_asmbl_19004.p1, internal, 178326, 178411
-recovered pasa_asmbl_19004.p1, internal, 178627, 178807
-recovered pasa_asmbl_19004.p1, internal, 179034, 179235
-recovered pasa_asmbl_19004.p1, internal, 179325, 179650
-recovered pasa_asmbl_19004.p1, internal, 179834, 180006
-recovered pasa_asmbl_19004.p1, internal, 180124, 180244
-recovered pasa_asmbl_19004.p1, internal, 180522, 180561
-recovered pasa_asmbl_19004.p1, internal, 180729, 180918
-recovered pasa_asmbl_19004.p1, internal, 181035, 181101
-recovered pasa_asmbl_19004.p1, internal, 181237, 181537
-recovered pasa_asmbl_19004.p1, internal, 181664, 181752
-recovered pasa_asmbl_19004.p1, internal, 181836, 181889
-recovered pasa_asmbl_19004.p1, internal, 182037, 182118
-recovered pasa_asmbl_19004.p1, internal, 182467, 182684
-recovered pasa_asmbl_19004.p1, internal, 183212, 183311
-recovered pasa_asmbl_19004.p1, internal, 185243, 185310
Valid prediction for GlimmerHMM_glimmerT_40713-T1
Couldn't classify 134280, 134537
Sorry, prediction pasa_asmbl_18997.p1 fails validation.
(ATG)	 AA	134008-134049	GT	AGG
(GGG)	 AG	134280-134537	AG	GCA
-recovered pasa_asmbl_18997.p1, initial, 134008, 134049
Couldn't classify 179034, 179199
Couldn't classify 179379, 179650
Sorry, prediction CodingQuarry_transcript_22075-T1 fails validation.
(ATG)	 AA	172802-172897	GT	AGG
(GCC)	 AG	173210-173287	GT	AGG
(CTG)	 AG	173460-173570	GT	CTG
(GAC)	 AG	173692-173866	GT	GTG
(TCC)	 AG	174017-174112	GT	AGG
(GAG)	 AG	174259-174304	GT	GGG
(CCA)	 AG	176366-176410	GT	AGG
(AAC)	 AG	177117-177223	GT	CAG
(GGC)	 AG	177935-177997	GT	TGG
(GTG)	 AG	178120-178172	GT	ATG
(CTG)	 AG	178326-178411	GT	AGG
(GAT)	 AG	178627-178807	GT	TGG
(GTC)	 AG	179034-179199	CC	CTC
(CCT)	 GC	179379-179650	GT	AGG
(ATC)	 AG	179834-180006	GT	AGG
(CGA)	 AG	180124-180244	GT	AGG
(AAC)	 AG	180522-180561	GT	AGG
(CTG)	 AG	180729-180918	GT	AAG
(TTC)	 AG	181035-181101	GT	TGG
(CAC)	 AG	181237-181537	GT	AGG
(GGA)	 AG	181664-181752	GT	CTG
(CCT)	 AG	181836-181889	GT	TGG
(GAT)	 AG	182037-182118	GT	TGG
(GCG)	 AG	182467-182756	AG	GAA
-recovered CodingQuarry_transcript_22075-T1, initial, 172802, 172897
-recovered CodingQuarry_transcript_22075-T1, terminal, 182467, 182756
-recovered CodingQuarry_transcript_22075-T1, internal, 173210, 173287
-recovered CodingQuarry_transcript_22075-T1, internal, 173460, 173570
-recovered CodingQuarry_transcript_22075-T1, internal, 173692, 173866
-recovered CodingQuarry_transcript_22075-T1, internal, 174017, 174112
-recovered CodingQuarry_transcript_22075-T1, internal, 174259, 174304
-recovered CodingQuarry_transcript_22075-T1, internal, 176366, 176410
-recovered CodingQuarry_transcript_22075-T1, internal, 177117, 177223
-recovered CodingQuarry_transcript_22075-T1, internal, 177935, 177997
-recovered CodingQuarry_transcript_22075-T1, internal, 178120, 178172
-recovered CodingQuarry_transcript_22075-T1, internal, 178326, 178411
-recovered CodingQuarry_transcript_22075-T1, internal, 178627, 178807
-recovered CodingQuarry_transcript_22075-T1, internal, 179834, 180006
-recovered CodingQuarry_transcript_22075-T1, internal, 180124, 180244
-recovered CodingQuarry_transcript_22075-T1, internal, 180522, 180561
-recovered CodingQuarry_transcript_22075-T1, internal, 180729, 180918
-recovered CodingQuarry_transcript_22075-T1, internal, 181035, 181101
-recovered CodingQuarry_transcript_22075-T1, internal, 181237, 181537
-recovered CodingQuarry_transcript_22075-T1, internal, 181664, 181752
-recovered CodingQuarry_transcript_22075-T1, internal, 181836, 181889
-recovered CodingQuarry_transcript_22075-T1, internal, 182037, 182118
Valid prediction for HiQ_model.g27143.t1
Valid prediction for CodingQuarry_transcript_22074-T1
Valid prediction for HiQ_model.g27152.t1
Valid prediction for pasa_asmbl_18996.p2
Valid prediction for GlimmerHMM_glimmerT_40726-T1
Valid prediction for GlimmerHMM_glimmerT_40729-T1
Valid prediction for snap_scaffold_17-snap.1700-T1
Valid prediction for GlimmerHMM_glimmerT_40705-T1
Valid prediction for Augustus_model.g27146.t1
Couldn't classify 103221, 103794
Sorry, prediction pasa_asmbl_18994.p1 fails validation.
(GCT)	 AG	103221-103794	GT	AGG
(AGC)	 AG	104488-104721	GT	AGG
(ACG)	 AG	105931-105968	GT	AGG
(GAT)	 AG	106053-106142	GT	AGG
(ACC)	 AG	106286-106466	GT	AGG
(CCA)	 AG	106697-107751	AA	AGA
-recovered pasa_asmbl_18994.p1, terminal, 106697, 107751
-recovered pasa_asmbl_18994.p1, internal, 103221, 103794
-recovered pasa_asmbl_18994.p1, internal, 104488, 104721
-recovered pasa_asmbl_18994.p1, internal, 105931, 105968
-recovered pasa_asmbl_18994.p1, internal, 106053, 106142
-recovered pasa_asmbl_18994.p1, internal, 106286, 106466
Valid prediction for snap_scaffold_17-snap.1706-T1
Valid prediction for GlimmerHMM_glimmerT_40715-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 CodingQuarry_transcript_22073-T1
Valid prediction for snap_scaffold_17-snap.1685-T1
Valid prediction for HiQ_model.g27151.t1
Valid prediction for GlimmerHMM_glimmerT_40707-T1
Valid prediction for snap_scaffold_17-snap.1680-T1
Valid prediction for snap_scaffold_17-snap.1711-T1
Valid prediction for Augustus_model.g27155.t1
Valid prediction for snap_scaffold_17-snap.1684-T1
Valid prediction for CodingQuarry_transcript_22071-T1
Valid prediction for GlimmerHMM_glimmerT_40722-T1
Valid prediction for pasa_asmbl_18103.p1
Valid prediction for snap_scaffold_17-snap.1709-T1
Valid prediction for snap_scaffold_17-snap.1676-T1
Valid prediction for Augustus_model.g27140.t1
Valid prediction for snap_scaffold_17-snap.1688-T1
Valid prediction for snap_scaffold_17-snap.1707-T1
Valid prediction for snap_scaffold_17-snap.1716-T1
Valid prediction for snap_scaffold_17-snap.1674-T1
Valid prediction for CodingQuarry_transcript_22072-T1
Valid prediction for GlimmerHMM_glimmerT_40734-T1
Valid prediction for GlimmerHMM_glimmerT_40704-T1
Valid prediction for snap_scaffold_17-snap.1683-T1
Valid prediction for GlimmerHMM_glimmerT_40727-T1
Valid prediction for GlimmerHMM_glimmerT_40730-T1
Valid prediction for Augustus_model.g27141.t1
Valid prediction for Augustus_model.g27139.t1
Valid prediction for pasa_asmbl_18100.p1
Valid prediction for snap_scaffold_17-snap.1702-T1
Valid prediction for snap_scaffold_17-snap.1697-T1
Valid prediction for HiQ_model.g27142.t1
Valid prediction for snap_scaffold_17-snap.1692-T1
Valid prediction for snap_scaffold_17-snap.1704-T1
Valid prediction for GlimmerHMM_glimmerT_40712-T1
Valid prediction for snap_scaffold_17-snap.1693-T1
Valid prediction for snap_scaffold_17-snap.1691-T1
Valid prediction for snap_scaffold_17-snap.1696-T1
Valid prediction for snap_scaffold_17-snap.1694-T1
Valid prediction for snap_scaffold_17-snap.1681-T1
Valid prediction for snap_scaffold_17-snap.1678-T1
Valid prediction for GlimmerHMM_glimmerT_40717-T1
Valid prediction for HiQ_model.g27147.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15943, rend_intergenic: 11317  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17820, rend_intergenic: 17801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33395, rend_intergenic: 29942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40897, rend_intergenic: 33823  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45685, rend_intergenic: 41128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59687, rend_intergenic: 57528  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88731, rend_intergenic: 87946  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93326, rend_intergenic: 89798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125733, rend_intergenic: 118101  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145370, rend_intergenic: 139558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150963, rend_intergenic: 147911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 202018
-exon list size: 369


building trellis

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86.8    
87.1    
87.3    
87.6    
87.9    
88.1    
88.4    
88.7    
88.9    
89.2    
89.5    
89.8    
90.0    
90.3    
90.6    
90.8    
91.1    
91.4    
91.6    
91.9    
92.2    
92.5    
92.7    
93.0    
93.3    
93.5    
93.8    
94.1    
94.3    
94.6    
94.9    
95.1    
95.4    
95.7    
96.0    
96.2    
96.5    
96.8    
97.0    
97.3    
97.6    
97.8    
98.1    
98.4    
98.7    
98.9    
99.2    
99.5    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 15943, rend_intergenic: 11317  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17820, rend_intergenic: 17801  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33395, rend_intergenic: 29942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40897, rend_intergenic: 33823  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45685, rend_intergenic: 41128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59687, rend_intergenic: 57528  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88731, rend_intergenic: 87946  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93326, rend_intergenic: 89798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125733, rend_intergenic: 118101  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145370, rend_intergenic: 139558  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150963, rend_intergenic: 147911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 11316
-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