-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_24/scaffold_24_8025385-8163751

-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_24-snap.1688-T1
Valid prediction for Augustus_model.g36311.t1
Valid prediction for snap_scaffold_24-snap.1684-T1
Valid prediction for GeneMark_model.94503_t
Valid prediction for GeneMark_model.94509_t
Couldn't classify 101808, 102017
Sorry, prediction pasa_asmbl_32422.p1 fails validation.
(TCC)	 AC	101808-102017	GT	AGG
(GCC)	 AG	102128-102328	GT	AGG
(GCA)	 AG	102461-102549	GT	CGG
(AGA)	 AG	102644-102701	GA	AGG
-recovered pasa_asmbl_32422.p1, terminal, 102644, 102701
-recovered pasa_asmbl_32422.p1, internal, 102128, 102328
-recovered pasa_asmbl_32422.p1, internal, 102461, 102549
Valid prediction for snap_scaffold_24-snap.1691-T1
Valid prediction for snap_scaffold_24-snap.1680-T1
Valid prediction for snap_scaffold_24-snap.1677-T1
Valid prediction for Augustus_model.g36297.t1
Valid prediction for GeneMark_model.94536_t
Valid prediction for GeneMark_model.94517_t
Valid prediction for Augustus_model.g36309.t1
Valid prediction for Augustus_model.g36302.t1
Valid prediction for GeneMark_model.94542_t
Valid prediction for snap_scaffold_24-snap.1689-T1
Valid prediction for GlimmerHMM_glimmerT_54225-T1
Valid prediction for GeneMark_model.94506_t
Valid prediction for GlimmerHMM_glimmerT_54231-T1
Couldn't classify 96416, 96417
Sorry, prediction CodingQuarry_transcript_37301-T1 fails validation.
(ATG)	 CC	93417-93740	GT	ATG
(GTA)	 AG	94574-94670	GT	AGG
(ACC)	 AG	95828-95981	GT	CTG
(GCT)	 AG	96112-96236	GT	ATG
(GAA)	 AG	96416-96417	AC	GAA
-recovered CodingQuarry_transcript_37301-T1, initial, 93417, 93740
-recovered CodingQuarry_transcript_37301-T1, internal, 94574, 94670
-recovered CodingQuarry_transcript_37301-T1, internal, 95828, 95981
-recovered CodingQuarry_transcript_37301-T1, internal, 96112, 96236
Valid prediction for Augustus_model.g36306.t1
Valid prediction for GeneMark_model.94513_t
Valid prediction for GeneMark_model.94514_t
Valid prediction for snap_scaffold_24-snap.1659-T1
Valid prediction for GlimmerHMM_glimmerT_54242-T1
Valid prediction for GlimmerHMM_glimmerT_54230-T1
Valid prediction for snap_scaffold_24-snap.1672-T1
Valid prediction for Augustus_model.g36300.t1
Valid prediction for GeneMark_model.94528_t
Valid prediction for GeneMark_model.94512_t
Valid prediction for GlimmerHMM_glimmerT_54237-T1
Valid prediction for Augustus_model.g36308.t1
Couldn't classify 85140, 85201
Couldn't classify 86738, 86809
Sorry, prediction pasa_asmbl_32630.p1 fails validation.
(CGA)	 TC	85140-85201	GT	CTG
(GCT)	 AG	85669-85795	GT	TGG
(GTC)	 AG	86135-86287	GT	AGG
(GCT)	 AG	86738-86809	AT	ACA
-recovered pasa_asmbl_32630.p1, internal, 85669, 85795
-recovered pasa_asmbl_32630.p1, internal, 86135, 86287
Valid prediction for snap_scaffold_24-snap.1678-T1
Valid prediction for snap_scaffold_24-snap.1674-T1
Valid prediction for GlimmerHMM_glimmerT_54227-T1
Valid prediction for GeneMark_model.94510_t
Valid prediction for snap_scaffold_24-snap.1685-T1
Valid prediction for snap_scaffold_24-snap.1663-T1
Valid prediction for GeneMark_model.94522_t
Valid prediction for GlimmerHMM_glimmerT_54238-T1
Valid prediction for GeneMark_model.94527_t
Valid prediction for GeneMark_model.94520_t
Valid prediction for GlimmerHMM_glimmerT_54228-T1
Valid prediction for Augustus_model.g36305.t1
Valid prediction for snap_scaffold_24-snap.1670-T1
Valid prediction for GeneMark_model.94534_t
Valid prediction for snap_scaffold_24-snap.1661-T1
Valid prediction for GlimmerHMM_glimmerT_54239-T1
Valid prediction for Augustus_model.g36310.t1
Valid prediction for snap_scaffold_24-snap.1667-T1
Couldn't classify 86900, 87265
Sorry, prediction pasa_asmbl_32413.p2 fails validation.
(ACC)	 AC	86900-87265	AC	GAA
Valid prediction for snap_scaffold_24-snap.1683-T1
Valid prediction for GeneMark_model.94531_t
Valid prediction for GlimmerHMM_glimmerT_54220-T1
Valid prediction for GlimmerHMM_glimmerT_54235-T1
Valid prediction for snap_scaffold_24-snap.1682-T1
Valid prediction for GlimmerHMM_glimmerT_54233-T1
Couldn't classify 100194, 100272
Couldn't classify 101569, 101759
Sorry, prediction pasa_asmbl_32419.p1 fails validation.
(GGG)	 GG	100194-100272	GT	ACG
(GGG)	 AG	100364-100428	GT	TGG
(GTC)	 AG	100536-100621	GT	GGG
(AAT)	 AG	100886-100946	GT	TGG
(GAG)	 AG	101104-101179	GT	CGG
(GTT)	 AG	101392-101442	GT	CAG
(GCA)	 AG	101569-101759	GT	AAG
-recovered pasa_asmbl_32419.p1, internal, 100364, 100428
-recovered pasa_asmbl_32419.p1, internal, 100536, 100621
-recovered pasa_asmbl_32419.p1, internal, 100886, 100946
-recovered pasa_asmbl_32419.p1, internal, 101104, 101179
-recovered pasa_asmbl_32419.p1, internal, 101392, 101442
-recovered pasa_asmbl_32419.p1, internal, 101569, 101759
Valid prediction for GeneMark_model.94538_t
Valid prediction for GeneMark_model.94533_t
Valid prediction for GeneMark_model.94516_t
Valid prediction for snap_scaffold_24-snap.1681-T1
Valid prediction for GlimmerHMM_glimmerT_54226-T1
Valid prediction for Augustus_model.g36296.t1
Valid prediction for GlimmerHMM_glimmerT_54232-T1
Valid prediction for snap_scaffold_24-snap.1671-T1
Valid prediction for GlimmerHMM_glimmerT_54240-T1
Valid prediction for Augustus_model.g36312.t1
Valid prediction for GlimmerHMM_glimmerT_54236-T1
Valid prediction for snap_scaffold_24-snap.1690-T1
Valid prediction for snap_scaffold_24-snap.1676-T1
Valid prediction for Augustus_model.g36304.t1
Couldn't classify 96416, 96417
Sorry, prediction pasa_asmbl_32417.p1 fails validation.
(ATG)	 CC	93417-93740	GT	ATG
(GTA)	 AG	94574-94670	GT	AGG
(ACC)	 AG	95828-95981	GT	CTG
(GCT)	 AG	96112-96236	GT	ATG
(GAA)	 AG	96416-96417	AC	GAA
-recovered pasa_asmbl_32417.p1, initial, 93417, 93740
-recovered pasa_asmbl_32417.p1, internal, 94574, 94670
-recovered pasa_asmbl_32417.p1, internal, 95828, 95981
-recovered pasa_asmbl_32417.p1, internal, 96112, 96236

-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 GeneMark_model.94526_t
Valid prediction for Augustus_model.g36298.t1
Valid prediction for snap_scaffold_24-snap.1687-T1
Valid prediction for snap_scaffold_24-snap.1662-T1
Valid prediction for GeneMark_model.94511_t
Valid prediction for GeneMark_model.94535_t
Valid prediction for snap_scaffold_24-snap.1664-T1
Valid prediction for GeneMark_model.94507_t
Valid prediction for snap_scaffold_24-snap.1657-T1
Valid prediction for GlimmerHMM_glimmerT_54241-T1
Valid prediction for GlimmerHMM_glimmerT_54224-T1
Valid prediction for GeneMark_model.94540_t
Valid prediction for GeneMark_model.94515_t
Valid prediction for GeneMark_model.94505_t
Valid prediction for GlimmerHMM_glimmerT_54221-T1
Valid prediction for GeneMark_model.94529_t
Valid prediction for GeneMark_model.94519_t
Valid prediction for GeneMark_model.94532_t
Valid prediction for GeneMark_model.94530_t
Valid prediction for HiQ_model.g36307.t1
Valid prediction for GeneMark_model.94541_t
Valid prediction for snap_scaffold_24-snap.1668-T1
Valid prediction for snap_scaffold_24-snap.1658-T1
Valid prediction for GeneMark_model.94521_t
Valid prediction for Augustus_model.g36303.t1
Valid prediction for snap_scaffold_24-snap.1666-T1
Valid prediction for snap_scaffold_24-snap.1669-T1
Valid prediction for snap_scaffold_24-snap.1679-T1
Valid prediction for GlimmerHMM_glimmerT_54243-T1
Valid prediction for GeneMark_model.94523_t
Valid prediction for GeneMark_model.94539_t
Valid prediction for GeneMark_model.94525_t
Valid prediction for Augustus_model.g36299.t1
Valid prediction for snap_scaffold_24-snap.1665-T1
Valid prediction for GeneMark_model.94508_t
Valid prediction for GlimmerHMM_glimmerT_54222-T1
Valid prediction for GlimmerHMM_glimmerT_54223-T1
Valid prediction for snap_scaffold_24-snap.1660-T1
Valid prediction for Augustus_model.g36301.t1
Valid prediction for GlimmerHMM_glimmerT_54234-T1
Valid prediction for snap_scaffold_24-snap.1675-T1
Valid prediction for snap_scaffold_24-snap.1686-T1
Valid prediction for GeneMark_model.94518_t
Valid prediction for GlimmerHMM_glimmerT_54229-T1
Valid prediction for GeneMark_model.94504_t
Valid prediction for GeneMark_model.94537_t
Valid prediction for snap_scaffold_24-snap.1673-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6759, rend_intergenic: 3791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18242, rend_intergenic: 15330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35122, rend_intergenic: 28646  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63584, rend_intergenic: 58898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65143, rend_intergenic: 63591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69434, rend_intergenic: 66093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108915, rend_intergenic: 106315  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 138367
-exon list size: 442


building trellis

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30.6    
30.9    
31.1    
31.3    
31.5    
31.8    
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32.9    
33.1    
33.3    
33.6    
33.8    
34.0    
34.2    
34.5    
34.7    
34.9    
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35.4    
35.6    
35.8    
36.0    
36.3    
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36.9    
37.2    
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37.6    
37.8    
38.1    
38.3    
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39.0    
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39.4    
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39.9    
40.1    
40.3    
40.5    
40.8    
41.0    
41.2    
41.4    
41.7    
41.9    
42.1    
42.3    
42.6    
42.8    
43.0    
43.2    
43.5    
43.7    
43.9    
44.1    
44.4    
44.6    
44.8    
45.0    
45.3    
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48.4    
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49.3    
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63.1    
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64.0    
64.2    
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77.9    
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78.6    
78.8    
79.1    
79.3    
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80.0    
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80.6    
80.9    
81.1    
81.3    
81.5    
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82.0    
82.2    
82.4    
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82.9    
83.1    
83.3    
83.6    
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84.0    
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84.5    
84.7    
84.9    
85.1    
85.4    
85.6    
85.8    
86.0    
86.3    
86.5    
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86.9    
87.2    
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87.6    
87.8    
88.1    
88.3    
88.5    
88.7    
89.0    
89.2    
89.4    
89.6    
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90.1    
90.3    
90.5    
90.8    
91.0    
91.2    
91.4    
91.7    
91.9    
92.1    
92.3    
92.6    
92.8    
93.0    
93.2    
93.5    
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93.9    
94.1    
94.4    
94.6    
94.8    
95.0    
95.3    
95.5    
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95.9    
96.2    
96.4    
96.6    
96.8    
97.1    
97.3    
97.5    
97.7    
98.0    
98.2    
98.4    
98.6    
98.9    
99.1    
99.3    
99.5    
99.8    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 6759, rend_intergenic: 3791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18242, rend_intergenic: 15330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35122, rend_intergenic: 28646  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63584, rend_intergenic: 58898  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65143, rend_intergenic: 63591  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69434, rend_intergenic: 66093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108915, rend_intergenic: 106315  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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