-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_24/scaffold_24_10434890-10626574

-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.2276-T1
Valid prediction for HiQ_model.g36557.t1
Valid prediction for GeneMark_model.95229_t
Valid prediction for GeneMark_model.95242_t
Valid prediction for snap_scaffold_24-snap.2260-T1
Valid prediction for snap_scaffold_24-snap.2237-T1
Valid prediction for snap_scaffold_24-snap.2239-T1
Valid prediction for snap_scaffold_24-snap.2246-T1
Valid prediction for snap_scaffold_24-snap.2265-T1
Valid prediction for GlimmerHMM_glimmerT_54638-T1
Valid prediction for GeneMark_model.95234_t
Valid prediction for snap_scaffold_24-snap.2272-T1
Valid prediction for Augustus_model.g36559.t1
Valid prediction for pasa_asmbl_32564.p2
Valid prediction for GeneMark_model.95250_t
Valid prediction for GlimmerHMM_glimmerT_54657-T1
Valid prediction for GeneMark_model.95218_t
Valid prediction for GlimmerHMM_glimmerT_54668-T1
Valid prediction for GeneMark_model.95204_t
Valid prediction for GlimmerHMM_glimmerT_54647-T1
Valid prediction for snap_scaffold_24-snap.2245-T1
Valid prediction for Augustus_model.g36564.t1
Valid prediction for snap_scaffold_24-snap.2258-T1
Valid prediction for snap_scaffold_24-snap.2250-T1
Valid prediction for GlimmerHMM_glimmerT_54651-T1
Valid prediction for GeneMark_model.95221_t
Valid prediction for GeneMark_model.95212_t
Valid prediction for snap_scaffold_24-snap.2231-T1
Couldn't classify 49342, 49401
Sorry, prediction pasa_asmbl_32571.p1 fails validation.
(ATC)	 CG	49342-49401	GT	GGG
(GTG)	 AG	50265-50373	GT	AGG
(TGG)	 AG	50536-50642	GT	AGG
(TCC)	 AG	50811-50958	GT	AGG
(GTG)	 AG	51433-51538	GT	AGG
(AGC)	 AG	51751-51782	GT	AGG
(GTG)	 AG	52931-52950	AC	AGA
-recovered pasa_asmbl_32571.p1, terminal, 52931, 52950
-recovered pasa_asmbl_32571.p1, internal, 50265, 50373
-recovered pasa_asmbl_32571.p1, internal, 50536, 50642
-recovered pasa_asmbl_32571.p1, internal, 50811, 50958
-recovered pasa_asmbl_32571.p1, internal, 51433, 51538
-recovered pasa_asmbl_32571.p1, internal, 51751, 51782
Valid prediction for GeneMark_model.95215_t
Valid prediction for GeneMark_model.95210_t
Valid prediction for GeneMark_model.95222_t
Valid prediction for GeneMark_model.95230_t
Valid prediction for GeneMark_model.95207_t
Valid prediction for GlimmerHMM_glimmerT_54640-T1
Valid prediction for snap_scaffold_24-snap.2262-T1
Valid prediction for Augustus_model.g36561.t1
Valid prediction for snap_scaffold_24-snap.2273-T1
Valid prediction for snap_scaffold_24-snap.2270-T1
Valid prediction for Augustus_model.g36565.t1
Valid prediction for snap_scaffold_24-snap.2243-T1
Valid prediction for snap_scaffold_24-snap.2254-T1
Valid prediction for GeneMark_model.95240_t
Valid prediction for pasa_asmbl_32563.p1
Valid prediction for GeneMark_model.95246_t
Valid prediction for GlimmerHMM_glimmerT_54671-T1
Valid prediction for snap_scaffold_24-snap.2267-T1
Valid prediction for snap_scaffold_24-snap.2275-T1
Valid prediction for Augustus_model.g36567.t1
Valid prediction for GlimmerHMM_glimmerT_54652-T1
Valid prediction for GeneMark_model.95225_t
Valid prediction for snap_scaffold_24-snap.2238-T1
Valid prediction for snap_scaffold_24-snap.2228-T1
Valid prediction for snap_scaffold_24-snap.2230-T1
Valid prediction for Augustus_model.g36558.t1
Valid prediction for GlimmerHMM_glimmerT_54663-T1
Valid prediction for GeneMark_model.95227_t
Valid prediction for snap_scaffold_24-snap.2269-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for CodingQuarry_transcript_37364-T1
Valid prediction for GeneMark_model.95254_t
Valid prediction for GeneMark_model.95217_t
Valid prediction for GeneMark_model.95238_t
Valid prediction for GlimmerHMM_glimmerT_54641-T1
Valid prediction for GlimmerHMM_glimmerT_54664-T1
Valid prediction for GeneMark_model.95252_t
Valid prediction for snap_scaffold_24-snap.2264-T1
Valid prediction for GlimmerHMM_glimmerT_54656-T1
Valid prediction for GlimmerHMM_glimmerT_54648-T1
Valid prediction for snap_scaffold_24-snap.2247-T1
Valid prediction for CodingQuarry_transcript_37362-T1
Valid prediction for snap_scaffold_24-snap.2256-T1
Valid prediction for GlimmerHMM_glimmerT_54642-T1
Valid prediction for snap_scaffold_24-snap.2259-T1
Valid prediction for GeneMark_model.95213_t
Valid prediction for GeneMark_model.95232_t
Valid prediction for CodingQuarry_transcript_37361-T1
Valid prediction for CodingQuarry_transcript_37365-T1
Valid prediction for GeneMark_model.95243_t
Valid prediction for Augustus_model.g36560.t1
Valid prediction for GlimmerHMM_glimmerT_54658-T1
Valid prediction for CodingQuarry_transcript_37363-T1
Valid prediction for GeneMark_model.95206_t
Valid prediction for snap_scaffold_24-snap.2235-T1
Valid prediction for snap_scaffold_24-snap.2241-T1
Valid prediction for Augustus_model.g36562.t1
Valid prediction for GeneMark_model.95209_t
Valid prediction for GlimmerHMM_glimmerT_54661-T1
Valid prediction for snap_scaffold_24-snap.2236-T1
Valid prediction for GlimmerHMM_glimmerT_54644-T1
Valid prediction for GeneMark_model.95236_t
Couldn't classify 169400, 169468
Sorry, prediction pasa_asmbl_32584.p1 fails validation.
(CCG)	 CC	169400-169468	GT	AGG
(GAA)	 AG	169801-169967	GT	AAG
(AGC)	 AG	170215-170331	GT	ATG
(GTA)	 AG	170613-170764	GT	AGG
(AAA)	 AG	170869-171194	CC	AAC
-recovered pasa_asmbl_32584.p1, terminal, 170869, 171194
-recovered pasa_asmbl_32584.p1, internal, 169801, 169967
-recovered pasa_asmbl_32584.p1, internal, 170215, 170331
-recovered pasa_asmbl_32584.p1, internal, 170613, 170764
Valid prediction for GlimmerHMM_glimmerT_54649-T1
Valid prediction for GeneMark_model.95248_t

-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: -)Couldn't classify 101623, 101718
Sorry, prediction Augustus_model.g36568.t1 fails validation.
(GCC)	 AG	101623-101718	GT	AGG
(GCG)	 AG	103196-103465	GT	GGG
(TCC)	 AG	103550-103732	GT	AGG
(CTG)	 AG	104351-104506	GT	AGG
(CAA)	 AG	104640-104957	GT	TGG
(AGA)	 AG	105521-105629	GT	TGG
(GTA)	 AG	105871-106028	GT	CGG
(CTA)	 AG	107916-110185	GG	GAG
-recovered Augustus_model.g36568.t1, terminal, 107916, 110185
-recovered Augustus_model.g36568.t1, internal, 101623, 101718
-recovered Augustus_model.g36568.t1, internal, 103196, 103465
-recovered Augustus_model.g36568.t1, internal, 103550, 103732
-recovered Augustus_model.g36568.t1, internal, 104351, 104506
-recovered Augustus_model.g36568.t1, internal, 104640, 104957
-recovered Augustus_model.g36568.t1, internal, 105521, 105629
-recovered Augustus_model.g36568.t1, internal, 105871, 106028
Valid prediction for snap_scaffold_24-snap.2227-T1
Valid prediction for GeneMark_model.95228_t
Valid prediction for snap_scaffold_24-snap.2257-T1
Valid prediction for snap_scaffold_24-snap.2240-T1
Couldn't classify 45547, 45732
Couldn't classify 46006, 46221
Sorry, prediction pasa_asmbl_33198.p1 fails validation.
(GAG)	 TC	45547-45732	GT	AGG
(AGC)	 AG	46006-46221	AA	GGA
Valid prediction for GlimmerHMM_glimmerT_54654-T1
Valid prediction for snap_scaffold_24-snap.2271-T1
Valid prediction for GeneMark_model.95244_t
Valid prediction for Augustus_model.g36566.t1
Valid prediction for HiQ_model.g36556.t1
Valid prediction for snap_scaffold_24-snap.2252-T1
Valid prediction for snap_scaffold_24-snap.2244-T1
Valid prediction for snap_scaffold_24-snap.2232-T1
Valid prediction for GeneMark_model.95214_t
Valid prediction for GlimmerHMM_glimmerT_54637-T1
Couldn't classify 136165, 136179
Sorry, prediction pasa_asmbl_33194.p1 fails validation.
(ATC)	 AC	136165-136179	GT	AGG
(CTC)	 AG	136303-136527	GT	AGG
(GGA)	 AG	136651-136794	TA	GAT
-recovered pasa_asmbl_33194.p1, terminal, 136651, 136794
-recovered pasa_asmbl_33194.p1, internal, 136303, 136527
Valid prediction for GeneMark_model.95239_t
Valid prediction for snap_scaffold_24-snap.2253-T1
Valid prediction for Augustus_model.g36563.t1
Valid prediction for GeneMark_model.95245_t
Valid prediction for GlimmerHMM_glimmerT_54639-T1
Valid prediction for snap_scaffold_24-snap.2263-T1
Valid prediction for GlimmerHMM_glimmerT_54646-T1
Valid prediction for GeneMark_model.95249_t
Valid prediction for snap_scaffold_24-snap.2234-T1
Valid prediction for GlimmerHMM_glimmerT_54662-T1
Valid prediction for GeneMark_model.95226_t
Valid prediction for GlimmerHMM_glimmerT_54660-T1
Valid prediction for snap_scaffold_24-snap.2249-T1
Valid prediction for snap_scaffold_24-snap.2229-T1
Valid prediction for GeneMark_model.95231_t
Valid prediction for snap_scaffold_24-snap.2268-T1
Valid prediction for GeneMark_model.95253_t
Valid prediction for GlimmerHMM_glimmerT_54645-T1
Valid prediction for CodingQuarry_transcript_37366-T1
Valid prediction for GlimmerHMM_glimmerT_54667-T1
Valid prediction for GeneMark_model.95220_t
Valid prediction for GeneMark_model.95208_t
Couldn't classify 29693, 29830
Sorry, prediction pasa_asmbl_33204.p2 fails validation.
(GTC)	 CC	29693-29830	GT	GGG
(GAA)	 AG	30009-30099	GT	AGG
(ACC)	 AG	30196-30323	GT	GTG
(TGG)	 AG	30907-30981	GC	GAG
-recovered pasa_asmbl_33204.p2, terminal, 30907, 30981
-recovered pasa_asmbl_33204.p2, internal, 30009, 30099
-recovered pasa_asmbl_33204.p2, internal, 30196, 30323
-recovered pasa_asmbl_33204.p2, internal, 30907, 30981
Valid prediction for snap_scaffold_24-snap.2266-T1
Valid prediction for GeneMark_model.95247_t
Valid prediction for GlimmerHMM_glimmerT_54666-T1
Valid prediction for GeneMark_model.95205_t
Couldn't classify 189667, 189922
Sorry, prediction pasa_asmbl_33193.p1 fails validation.
(ATG)	 CG	189388-189578	GT	AAG
(GGA)	 AG	189667-189922	GA	GAG
-recovered pasa_asmbl_33193.p1, initial, 189388, 189578
Valid prediction for GeneMark_model.95251_t
Valid prediction for snap_scaffold_24-snap.2233-T1
Valid prediction for GeneMark_model.95241_t
Valid prediction for GeneMark_model.95219_t
Valid prediction for GeneMark_model.95235_t
Valid prediction for GlimmerHMM_glimmerT_54655-T1
Valid prediction for GlimmerHMM_glimmerT_54670-T1
Couldn't classify 108794, 110008
Sorry, prediction pasa_asmbl_33196.p1 fails validation.
(ATG)	 AA	108794-110008	GA	AGG
Valid prediction for GeneMark_model.95203_t
Valid prediction for GlimmerHMM_glimmerT_54653-T1
Valid prediction for GeneMark_model.95223_t
Valid prediction for GlimmerHMM_glimmerT_54659-T1
Valid prediction for snap_scaffold_24-snap.2261-T1
Valid prediction for GeneMark_model.95211_t
Valid prediction for snap_scaffold_24-snap.2242-T1
Valid prediction for GlimmerHMM_glimmerT_54643-T1
Valid prediction for GlimmerHMM_glimmerT_54665-T1
Valid prediction for snap_scaffold_24-snap.2251-T1
Valid prediction for GeneMark_model.95237_t
Valid prediction for GlimmerHMM_glimmerT_54650-T1
Valid prediction for GlimmerHMM_glimmerT_54669-T1
Couldn't classify 42209, 42322
Couldn't classify 42721, 42924
Sorry, prediction pasa_asmbl_33200.p1 fails validation.
(CGG)	 AG	42209-42322	GT	TGG
(AAG)	 AG	42721-42924	CA	TCC
-recovered pasa_asmbl_33200.p1, internal, 42209, 42322
Valid prediction for snap_scaffold_24-snap.2274-T1
Valid prediction for snap_scaffold_24-snap.2248-T1
Valid prediction for GeneMark_model.95216_t
Valid prediction for snap_scaffold_24-snap.2255-T1
Valid prediction for GeneMark_model.95224_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 20020, rend_intergenic: 9325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29470, rend_intergenic: 23681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92783, rend_intergenic: 87453  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101453, rend_intergenic: 100735  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110025, rend_intergenic: 105304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119612, rend_intergenic: 110721  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126223, rend_intergenic: 123828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129153, rend_intergenic: 127469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134780, rend_intergenic: 129187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139128, rend_intergenic: 136487  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156781, rend_intergenic: 145999  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191663, rend_intergenic: 178576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 191685
-exon list size: 717


building trellis

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67.7    
67.9    
68.0    
68.2    
68.3    
68.4    
68.6    
68.7    
68.8    
69.0    
69.1    
69.3    
69.4    
69.5    
69.7    
69.8    
70.0    
70.1    
70.2    
70.4    
70.5    
70.7    
70.8    
70.9    
71.1    
71.2    
71.3    
71.5    
71.6    
71.8    
71.9    
72.0    
72.2    
72.3    
72.5    
72.6    
72.7    
72.9    
73.0    
73.2    
73.3    
73.4    
73.6    
73.7    
73.9    
74.0    
74.1    
74.3    
74.4    
74.5    
74.7    
74.8    
75.0    
75.1    
75.2    
75.4    
75.5    
75.7    
75.8    
75.9    
76.1    
76.2    
76.4    
76.5    
76.6    
76.8    
76.9    
77.1    
77.2    
77.3    
77.5    
77.6    
77.7    
77.9    
78.0    
78.2    
78.3    
78.4    
78.6    
78.7    
78.9    
79.0    
79.1    
79.3    
79.4    
79.6    
79.7    
79.8    
80.0    
80.1    
80.3    
80.4    
80.5    
80.7    
80.8    
80.9    
81.1    
81.2    
81.4    
81.5    
81.6    
81.8    
81.9    
82.1    
82.2    
82.3    
82.5    
82.6    
82.8    
82.9    
83.0    
83.2    
83.3    
83.4    
83.6    
83.7    
83.9    
84.0    
84.1    
84.3    
84.4    
84.6    
84.7    
84.8    
85.0    
85.1    
85.3    
85.4    
85.5    
85.7    
85.8    
86.0    
86.1    
86.2    
86.4    
86.5    
86.6    
86.8    
86.9    
87.1    
87.2    
87.3    
87.5    
87.6    
87.8    
87.9    
88.0    
88.2    
88.3    
88.5    
88.6    
88.7    
88.9    
89.0    
89.2    
89.3    
89.4    
89.6    
89.7    
89.8    
90.0    
90.1    
90.3    
90.4    
90.5    
90.7    
90.8    
91.0    
91.1    
91.2    
91.4    
91.5    
91.7    
91.8    
91.9    
92.1    
92.2    
92.4    
92.5    
92.6    
92.8    
92.9    
93.0    
93.2    
93.3    
93.5    
93.6    
93.7    
93.9    
94.0    
94.2    
94.3    
94.4    
94.6    
94.7    
94.9    
95.0    
95.1    
95.3    
95.4    
95.5    
95.7    
95.8    
96.0    
96.1    
96.2    
96.4    
96.5    
96.7    
96.8    
96.9    
97.1    
97.2    
97.4    
97.5    
97.6    
97.8    
97.9    
98.1    
98.2    
98.3    
98.5    
98.6    
98.7    
98.9    
99.0    
99.2    
99.3    
99.4    
99.6    
99.7    
99.9    
-found 44 predictions from path traversal
Error with prediction: snap lend_intergenic: 20020, rend_intergenic: 9325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29470, rend_intergenic: 23681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92783, rend_intergenic: 87453  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101453, rend_intergenic: 100735  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110025, rend_intergenic: 105304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119612, rend_intergenic: 110721  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126223, rend_intergenic: 123828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129153, rend_intergenic: 127469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134780, rend_intergenic: 129187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139128, rend_intergenic: 136487  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156781, rend_intergenic: 145999  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191663, rend_intergenic: 178576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 28 predictions persist after filtering for low support