-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_15/scaffold_15_584868-746611

-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_15-snap.164-T1
Valid prediction for Augustus_model.g24382.t1
Valid prediction for GeneMark_model.62394_t
Valid prediction for GlimmerHMM_glimmerT_36259-T1
Valid prediction for snap_scaffold_15-snap.159-T1
Valid prediction for GeneMark_model.62373_t
Valid prediction for GeneMark_model.62392_t
Valid prediction for GeneMark_model.62364_t
Valid prediction for snap_scaffold_15-snap.166-T1
Valid prediction for GeneMark_model.62388_t
Valid prediction for GeneMark_model.62377_t
Valid prediction for snap_scaffold_15-snap.153-T1
Valid prediction for snap_scaffold_15-snap.133-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GeneMark_model.62357_t
Valid prediction for GeneMark_model.62390_t
Valid prediction for GeneMark_model.62380_t
Valid prediction for snap_scaffold_15-snap.145-T1
Valid prediction for GeneMark_model.62362_t
Valid prediction for snap_scaffold_15-snap.151-T1
Valid prediction for Augustus_model.g24379.t1
Valid prediction for Augustus_model.g24383.t1
Valid prediction for snap_scaffold_15-snap.168-T1
Valid prediction for snap_scaffold_15-snap.141-T1
Valid prediction for GeneMark_model.62366_t
Valid prediction for snap_scaffold_15-snap.162-T1
Valid prediction for GeneMark_model.62356_t
Valid prediction for GeneMark_model.62361_t
Valid prediction for GlimmerHMM_glimmerT_36276-T1
Valid prediction for GeneMark_model.62368_t
Valid prediction for GeneMark_model.62359_t
Valid prediction for snap_scaffold_15-snap.165-T1
Valid prediction for GeneMark_model.62371_t
Valid prediction for snap_scaffold_15-snap.149-T1
Valid prediction for GlimmerHMM_glimmerT_36268-T1
Valid prediction for snap_scaffold_15-snap.175-T1
Valid prediction for snap_scaffold_15-snap.143-T1
Valid prediction for GeneMark_model.62375_t
Valid prediction for GlimmerHMM_glimmerT_36261-T1
Valid prediction for GlimmerHMM_glimmerT_36277-T1
Valid prediction for GeneMark_model.62382_t
Valid prediction for GlimmerHMM_glimmerT_36255-T1
Valid prediction for Augustus_model.g24385.t1
Valid prediction for snap_scaffold_15-snap.152-T1
Valid prediction for snap_scaffold_15-snap.135-T1
Valid prediction for GeneMark_model.62391_t
Valid prediction for GlimmerHMM_glimmerT_36273-T1
Valid prediction for Augustus_model.g24377.t1
Valid prediction for GlimmerHMM_glimmerT_36281-T1
Valid prediction for Augustus_model.g24381.t1
Valid prediction for snap_scaffold_15-snap.137-T1
Valid prediction for GeneMark_model.62372_t
Valid prediction for snap_scaffold_15-snap.160-T1
Valid prediction for GlimmerHMM_glimmerT_36257-T1
Valid prediction for GeneMark_model.62397_t
Valid prediction for GlimmerHMM_glimmerT_36251-T1
Valid prediction for snap_scaffold_15-snap.174-T1
Valid prediction for GlimmerHMM_glimmerT_36266-T1
Valid prediction for snap_scaffold_15-snap.138-T1
Valid prediction for GlimmerHMM_glimmerT_36270-T1
Valid prediction for GeneMark_model.62378_t
Valid prediction for GlimmerHMM_glimmerT_36272-T1
Valid prediction for GlimmerHMM_glimmerT_36258-T1
Valid prediction for GeneMark_model.62386_t
Valid prediction for Augustus_model.g24392.t1
Valid prediction for GlimmerHMM_glimmerT_36265-T1
Valid prediction for snap_scaffold_15-snap.148-T1
Valid prediction for GlimmerHMM_glimmerT_36253-T1
Valid prediction for GlimmerHMM_glimmerT_36256-T1
Valid prediction for snap_scaffold_15-snap.172-T1
Valid prediction for snap_scaffold_15-snap.176-T1
Couldn't classify 107747, 108106
Sorry, prediction pasa_asmbl_14955.p1 fails validation.
(CAC)	 GT	107747-108106	CT	CTC
Valid prediction for GeneMark_model.62354_t
Valid prediction for GlimmerHMM_glimmerT_36278-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 GlimmerHMM_glimmerT_36280-T1
Valid prediction for snap_scaffold_15-snap.156-T1
Valid prediction for GeneMark_model.62365_t
Valid prediction for snap_scaffold_15-snap.163-T1
Valid prediction for HiQ_model.g24387.t1
Valid prediction for GlimmerHMM_glimmerT_36264-T1
Valid prediction for pasa_asmbl_14951.p1
Valid prediction for GeneMark_model.62398_t
Valid prediction for snap_scaffold_15-snap.155-T1
Valid prediction for GlimmerHMM_glimmerT_36252-T1
Valid prediction for snap_scaffold_15-snap.167-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for GeneMark_model.62379_t
Valid prediction for snap_scaffold_15-snap.170-T1
Valid prediction for GlimmerHMM_glimmerT_36260-T1
Valid prediction for snap_scaffold_15-snap.157-T1
Valid prediction for Augustus_model.g24378.t1
Valid prediction for GeneMark_model.62369_t
Valid prediction for GlimmerHMM_glimmerT_36279-T1
Valid prediction for snap_scaffold_15-snap.132-T1
Valid prediction for Augustus_model.g24391.t1
Couldn't classify 133046, 133277
Couldn't classify 135399, 135493
Sorry, prediction pasa_asmbl_14947.p1 fails validation.
(AAG)	 GC	133046-133277	GT	AGG
(GAG)	 AG	135399-135493	AC	GCA
Valid prediction for GlimmerHMM_glimmerT_36254-T1
Couldn't classify 139444, 139541
Sorry, prediction pasa_asmbl_14946.p1 fails validation.
(GAA)	 GT	139444-139541	GT	GAG
(CTG)	 AG	140743-140846	GT	GGG
(GTG)	 AG	141137-141286	GT	AGG
(AGA)	 AG	144020-144184	GT	GGG
(GAA)	 AG	146207-146386	GT	AGG
(GAA)	 AG	147170-147246	GT	AGG
(GTG)	 AG	147444-147597	GT	AGG
(GCG)	 AG	148172-148303	GT	AGG
(GTA)	 AG	149239-149447	AC	AGA
-recovered pasa_asmbl_14946.p1, terminal, 149239, 149447
-recovered pasa_asmbl_14946.p1, internal, 140743, 140846
-recovered pasa_asmbl_14946.p1, internal, 141137, 141286
-recovered pasa_asmbl_14946.p1, internal, 144020, 144184
-recovered pasa_asmbl_14946.p1, internal, 146207, 146386
-recovered pasa_asmbl_14946.p1, internal, 147170, 147246
-recovered pasa_asmbl_14946.p1, internal, 147444, 147597
-recovered pasa_asmbl_14946.p1, internal, 148172, 148303
Valid prediction for Augustus_model.g24380.t1
Valid prediction for Augustus_model.g24376.t1
Valid prediction for GlimmerHMM_glimmerT_36249-T1
Valid prediction for snap_scaffold_15-snap.146-T1
Valid prediction for GeneMark_model.62384_t
Couldn't classify 78803, 78877
Couldn't classify 79883, 79919
Sorry, prediction pasa_asmbl_15868.p1 fails validation.
(GTT)	 CA	78803-78877	GT	AAG
(AAA)	 AG	79066-79118	GT	CGG
(TAG)	 AG	79239-79296	GT	GGG
(GCC)	 AG	79524-79639	GT	TGG
(GGC)	 AG	79883-79919	GA	GGG
-recovered pasa_asmbl_15868.p1, internal, 79066, 79118
-recovered pasa_asmbl_15868.p1, internal, 79239, 79296
-recovered pasa_asmbl_15868.p1, internal, 79524, 79639
Valid prediction for Augustus_model.g24389.t1
Valid prediction for pasa_asmbl_14953.p1
Valid prediction for Augustus_model.g24384.t1
Valid prediction for GeneMark_model.62393_t
Valid prediction for GeneMark_model.62387_t
Valid prediction for GlimmerHMM_glimmerT_36263-T1
Valid prediction for Augustus_model.g24390.t1
Valid prediction for snap_scaffold_15-snap.144-T1
Valid prediction for snap_scaffold_15-snap.161-T1
Valid prediction for GlimmerHMM_glimmerT_36275-T1
Valid prediction for Augustus_model.g24386.t1
Valid prediction for GeneMark_model.62363_t
Valid prediction for GeneMark_model.62367_t
Couldn't classify 101806, 101840
Sorry, prediction pasa_asmbl_14948.p1 fails validation.
(ATC)	 AC	101806-101840	GT	AGG
(GCA)	 AG	102150-102362	GT	AGG
(TGA)	 AG	102564-102633	AG	GAA
-recovered pasa_asmbl_14948.p1, terminal, 102564, 102633
-recovered pasa_asmbl_14948.p1, internal, 102150, 102362
Valid prediction for GeneMark_model.62374_t
Valid prediction for snap_scaffold_15-snap.140-T1
Valid prediction for GeneMark_model.62389_t
Valid prediction for GlimmerHMM_glimmerT_36267-T1
Valid prediction for snap_scaffold_15-snap.139-T1
Valid prediction for GeneMark_model.62385_t
Valid prediction for snap_scaffold_15-snap.169-T1
Valid prediction for snap_scaffold_15-snap.154-T1
Valid prediction for Augustus_model.g24375.t1
Valid prediction for snap_scaffold_15-snap.142-T1
Valid prediction for GeneMark_model.62396_t
Valid prediction for GlimmerHMM_glimmerT_36269-T1
Valid prediction for snap_scaffold_15-snap.150-T1
Valid prediction for GeneMark_model.62376_t
Valid prediction for Augustus_model.g24388.t1
Valid prediction for snap_scaffold_15-snap.173-T1
Valid prediction for GeneMark_model.62358_t
Valid prediction for snap_scaffold_15-snap.158-T1
Valid prediction for GlimmerHMM_glimmerT_36271-T1
Valid prediction for GlimmerHMM_glimmerT_36274-T1
Valid prediction for GeneMark_model.62360_t
Valid prediction for GlimmerHMM_glimmerT_36262-T1
Valid prediction for GeneMark_model.62383_t
Valid prediction for GeneMark_model.62370_t
Valid prediction for GeneMark_model.62352_t
Valid prediction for snap_scaffold_15-snap.171-T1
Valid prediction for GlimmerHMM_glimmerT_36250-T1
Valid prediction for snap_scaffold_15-snap.147-T1
Valid prediction for snap_scaffold_15-snap.134-T1
Couldn't classify 82650, 82776
Sorry, prediction pasa_asmbl_14950.p1 fails validation.
(ATG)	 CC	81570-81610	GT	AGG
(CTC)	 AG	82038-82178	GT	AGG
(GCT)	 AG	82650-82776	AG	GCA
-recovered pasa_asmbl_14950.p1, initial, 81570, 81610
-recovered pasa_asmbl_14950.p1, internal, 82038, 82178
Valid prediction for snap_scaffold_15-snap.136-T1
Valid prediction for GeneMark_model.62395_t
Valid prediction for GeneMark_model.62381_t
Couldn't classify 83782, 83955
Sorry, prediction pasa_asmbl_14949.p1 fails validation.
(CTG)	 GA	83782-83955	GT	AGG
(GCT)	 AG	84403-84561	AG	AAA
-recovered pasa_asmbl_14949.p1, terminal, 84403, 84561

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5844, rend_intergenic: 3472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18793, rend_intergenic: 13787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28289, rend_intergenic: 19278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36074, rend_intergenic: 28346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36963, rend_intergenic: 36450  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39902, rend_intergenic: 37393  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45761, rend_intergenic: 41708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46462, rend_intergenic: 46004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53966, rend_intergenic: 49016  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96976, rend_intergenic: 86302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98056, rend_intergenic: 97594  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103130, rend_intergenic: 98951  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114813, rend_intergenic: 109807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118072, rend_intergenic: 114941  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119519, rend_intergenic: 118861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125351, rend_intergenic: 119693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133832, rend_intergenic: 133113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136461, rend_intergenic: 134230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 161744
-exon list size: 719


building trellis

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76.6    
76.7    
76.8    
77.0    
77.1    
77.3    
77.4    
77.5    
77.7    
77.8    
77.9    
78.1    
78.2    
78.4    
78.5    
78.6    
78.8    
78.9    
79.1    
79.2    
79.3    
79.5    
79.6    
79.8    
79.9    
80.0    
80.2    
80.3    
80.4    
80.6    
80.7    
80.9    
81.0    
81.1    
81.3    
81.4    
81.6    
81.7    
81.8    
82.0    
82.1    
82.2    
82.4    
82.5    
82.7    
82.8    
82.9    
83.1    
83.2    
83.4    
83.5    
83.6    
83.8    
83.9    
84.0    
84.2    
84.3    
84.5    
84.6    
84.7    
84.9    
85.0    
85.2    
85.3    
85.4    
85.6    
85.7    
85.9    
86.0    
86.1    
86.3    
86.4    
86.5    
86.7    
86.8    
87.0    
87.1    
87.2    
87.4    
87.5    
87.7    
87.8    
87.9    
88.1    
88.2    
88.3    
88.5    
88.6    
88.8    
88.9    
89.0    
89.2    
89.3    
89.5    
89.6    
89.7    
89.9    
90.0    
90.2    
90.3    
90.4    
90.6    
90.7    
90.8    
91.0    
91.1    
91.3    
91.4    
91.5    
91.7    
91.8    
92.0    
92.1    
92.2    
92.4    
92.5    
92.6    
92.8    
92.9    
93.1    
93.2    
93.3    
93.5    
93.6    
93.8    
93.9    
94.0    
94.2    
94.3    
94.5    
94.6    
94.7    
94.9    
95.0    
95.1    
95.3    
95.4    
95.6    
95.7    
95.8    
96.0    
96.1    
96.3    
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    
98.8    
98.9    
99.0    
99.2    
99.3    
99.4    
99.6    
99.7    
99.9    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 5844, rend_intergenic: 3472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18793, rend_intergenic: 13787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28289, rend_intergenic: 19278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36074, rend_intergenic: 28346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36963, rend_intergenic: 36450  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39902, rend_intergenic: 37393  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45761, rend_intergenic: 41708  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46462, rend_intergenic: 46004  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53966, rend_intergenic: 49016  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96976, rend_intergenic: 86302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98056, rend_intergenic: 97594  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103130, rend_intergenic: 98951  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114813, rend_intergenic: 109807  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118072, rend_intergenic: 114941  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119519, rend_intergenic: 118861  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125351, rend_intergenic: 119693  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133832, rend_intergenic: 133113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136461, rend_intergenic: 134230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 144748 - 161744
-exon list size: 17


building trellis

5.3    
10.5    
15.8    
21.1    
26.3    
31.6    
36.8    
42.1    
47.4    
52.6    
57.9    
63.2    
68.4    
73.7    
78.9    
84.2    
89.5    
94.7    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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