-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_26/scaffold_26_1685549-1910990

-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_56452-T1
Valid prediction for GeneMark_model.98418_t
Valid prediction for snap_scaffold_26-snap.357-T1
Valid prediction for GeneMark_model.98420_t
Valid prediction for snap_scaffold_26-snap.377-T1
Valid prediction for Augustus_model.g37604.t1
Valid prediction for Augustus_model.g37602.t1
Valid prediction for GeneMark_model.98410_t
Valid prediction for GeneMark_model.98379_t
Valid prediction for snap_scaffold_26-snap.355-T1
Valid prediction for GlimmerHMM_glimmerT_56458-T1
Valid prediction for snap_scaffold_26-snap.384-T1
Valid prediction for GlimmerHMM_glimmerT_56454-T1
Valid prediction for GeneMark_model.98414_t
Valid prediction for GlimmerHMM_glimmerT_56450-T1
Valid prediction for GeneMark_model.98437_t
Valid prediction for GeneMark_model.98408_t
Valid prediction for snap_scaffold_26-snap.383-T1
Valid prediction for GeneMark_model.98374_t
Valid prediction for snap_scaffold_26-snap.380-T1
Valid prediction for snap_scaffold_26-snap.382-T1
Valid prediction for GeneMark_model.98383_t
Valid prediction for GeneMark_model.98385_t
Valid prediction for GeneMark_model.98381_t
Couldn't classify 150806, 151250
Couldn't classify 152262, 152488
Sorry, prediction pasa_asmbl_35254.p1 fails validation.
(ACC)	 AC	150806-151250	GT	GGG
(GCT)	 AG	152262-152488	GG	CTG
Valid prediction for snap_scaffold_26-snap.372-T1
Valid prediction for snap_scaffold_26-snap.365-T1
Valid prediction for GeneMark_model.98404_t
Valid prediction for GeneMark_model.98394_t
Valid prediction for snap_scaffold_26-snap.353-T1
Valid prediction for GeneMark_model.98377_t
Valid prediction for GeneMark_model.98397_t
Valid prediction for snap_scaffold_26-snap.369-T1
Valid prediction for snap_scaffold_26-snap.362-T1
Valid prediction for GeneMark_model.98406_t
Valid prediction for GeneMark_model.98402_t
Valid prediction for GeneMark_model.98443_t
Valid prediction for snap_scaffold_26-snap.358-T1
Valid prediction for GeneMark_model.98421_t
Valid prediction for GeneMark_model.98431_t
Valid prediction for GeneMark_model.98439_t
Valid prediction for GeneMark_model.98426_t
Valid prediction for GlimmerHMM_glimmerT_56463-T1
Valid prediction for GeneMark_model.98428_t
Valid prediction for snap_scaffold_26-snap.371-T1
Valid prediction for Augustus_model.g37605.t1
Valid prediction for GeneMark_model.98412_t
Valid prediction for GeneMark_model.98430_t
Valid prediction for snap_scaffold_26-snap.366-T1
Valid prediction for GeneMark_model.98434_t
Valid prediction for GlimmerHMM_glimmerT_56448-T1
Valid prediction for GeneMark_model.98392_t
Valid prediction for GeneMark_model.98441_t
Valid prediction for GeneMark_model.98445_t
Valid prediction for GeneMark_model.98447_t
Valid prediction for snap_scaffold_26-snap.348-T1
Valid prediction for snap_scaffold_26-snap.361-T1
Valid prediction for GeneMark_model.98399_t
Valid prediction for snap_scaffold_26-snap.368-T1
Valid prediction for GeneMark_model.98387_t
Valid prediction for GeneMark_model.98372_t
Valid prediction for snap_scaffold_26-snap.351-T1
Valid prediction for snap_scaffold_26-snap.374-T1
Valid prediction for snap_scaffold_26-snap.347-T1
Valid prediction for GlimmerHMM_glimmerT_56462-T1
Valid prediction for Augustus_model.g37611.t1
Valid prediction for snap_scaffold_26-snap.360-T1
Valid prediction for GlimmerHMM_glimmerT_56445-T1
Valid prediction for GeneMark_model.98427_t
Valid prediction for GeneMark_model.98389_t
Valid prediction for GeneMark_model.98376_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: -)Valid prediction for snap_scaffold_26-snap.346-T1
Valid prediction for GeneMark_model.98400_t
Valid prediction for GeneMark_model.98405_t
Valid prediction for Augustus_model.g37607.t1
Valid prediction for GeneMark_model.98407_t
Couldn't classify 19455, 19646
Sorry, prediction pasa_asmbl_34694.p1 fails validation.
(GCA)	 AG	19455-19646	GT	TCG
(TTC)	 AG	20266-20340	GT	GAG
(ATC)	 AG	20726-20821	GT	AGG
(TTG)	 AG	21196-21345	GT	AGG
(GGC)	 AG	21637-21720	GT	AGG
(TTC)	 AG	22079-22156	CC	GAC
-recovered pasa_asmbl_34694.p1, terminal, 22079, 22156
-recovered pasa_asmbl_34694.p1, internal, 19455, 19646
-recovered pasa_asmbl_34694.p1, internal, 20266, 20340
-recovered pasa_asmbl_34694.p1, internal, 20726, 20821
-recovered pasa_asmbl_34694.p1, internal, 21196, 21345
-recovered pasa_asmbl_34694.p1, internal, 21637, 21720
Valid prediction for GeneMark_model.98403_t
Valid prediction for snap_scaffold_26-snap.344-T1
Valid prediction for snap_scaffold_26-snap.364-T1
Valid prediction for GeneMark_model.98409_t
Valid prediction for Augustus_model.g37606.t1
Valid prediction for GlimmerHMM_glimmerT_56470-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_26-snap.373-T1
Valid prediction for GeneMark_model.98373_t
Valid prediction for GeneMark_model.98382_t
Valid prediction for GeneMark_model.98436_t
Valid prediction for snap_scaffold_26-snap.378-T1
Valid prediction for GeneMark_model.98432_t
Valid prediction for GlimmerHMM_glimmerT_56455-T1
Valid prediction for GlimmerHMM_glimmerT_56446-T1
Valid prediction for GeneMark_model.98378_t
Valid prediction for GlimmerHMM_glimmerT_56456-T1
Valid prediction for snap_scaffold_26-snap.359-T1
Valid prediction for GeneMark_model.98395_t
Couldn't classify 62174, 62280
Sorry, prediction pasa_asmbl_34687.p1 fails validation.
(ATG)	 GG	60481-60720	GT	AGG
(GTG)	 AG	61135-61309	GT	CGG
(ACC)	 AG	61513-61542	GT	AGG
(TTC)	 AG	61687-61905	GT	AAG
(ACA)	 AG	62174-62280	TG	ACT
-recovered pasa_asmbl_34687.p1, initial, 60481, 60720
-recovered pasa_asmbl_34687.p1, internal, 61135, 61309
-recovered pasa_asmbl_34687.p1, internal, 61513, 61542
-recovered pasa_asmbl_34687.p1, internal, 61687, 61905
Valid prediction for GlimmerHMM_glimmerT_56469-T1
Valid prediction for snap_scaffold_26-snap.352-T1
Valid prediction for GlimmerHMM_glimmerT_56460-T1
Valid prediction for GeneMark_model.98411_t
Valid prediction for GeneMark_model.98423_t
Valid prediction for GlimmerHMM_glimmerT_56459-T1
Valid prediction for GeneMark_model.98433_t
Valid prediction for GeneMark_model.98438_t
Valid prediction for GeneMark_model.98448_t
Valid prediction for Augustus_model.g37603.t1
Valid prediction for GeneMark_model.98416_t
Valid prediction for GeneMark_model.98442_t
Valid prediction for GeneMark_model.98424_t
Valid prediction for snap_scaffold_26-snap.370-T1
Valid prediction for GlimmerHMM_glimmerT_56465-T1
Valid prediction for Augustus_model.g37609.t1
Valid prediction for GlimmerHMM_glimmerT_56464-T1
Valid prediction for snap_scaffold_26-snap.354-T1
Valid prediction for GeneMark_model.98393_t
Valid prediction for pasa_asmbl_34691.p1
Valid prediction for GeneMark_model.98425_t
Valid prediction for GeneMark_model.98440_t
Valid prediction for Augustus_model.g37610.t1
Couldn't classify 56944, 57298
Couldn't classify 57603, 57718
Sorry, prediction pasa_asmbl_34688.p1 fails validation.
(GAT)	 TG	56944-57298	GT	TGG
(GTG)	 AG	57603-57718	GT	AGG
-recovered pasa_asmbl_34688.p1, internal, 57603, 57718
Valid prediction for GeneMark_model.98419_t
Valid prediction for GlimmerHMM_glimmerT_56453-T1
Valid prediction for GeneMark_model.98446_t
Valid prediction for GeneMark_model.98398_t
Valid prediction for GeneMark_model.98413_t
Valid prediction for GeneMark_model.98371_t
Valid prediction for snap_scaffold_26-snap.376-T1
Valid prediction for GeneMark_model.98417_t
Valid prediction for snap_scaffold_26-snap.363-T1
Valid prediction for GlimmerHMM_glimmerT_56457-T1
Valid prediction for GlimmerHMM_glimmerT_56449-T1
Valid prediction for GeneMark_model.98391_t
Valid prediction for GeneMark_model.98415_t
Valid prediction for GeneMark_model.98444_t
Valid prediction for GeneMark_model.98396_t
Valid prediction for CodingQuarry_transcript_40161-T1
Valid prediction for HiQ_model.g37608.t1
Valid prediction for GlimmerHMM_glimmerT_56447-T1
Valid prediction for snap_scaffold_26-snap.367-T1
Valid prediction for GeneMark_model.98429_t
Valid prediction for snap_scaffold_26-snap.349-T1
Valid prediction for GlimmerHMM_glimmerT_56466-T1
Valid prediction for GlimmerHMM_glimmerT_56467-T1
Valid prediction for GeneMark_model.98388_t
Valid prediction for Augustus_model.g37601.t1
Valid prediction for GeneMark_model.98435_t
Valid prediction for GlimmerHMM_glimmerT_56468-T1
Valid prediction for GeneMark_model.98384_t
Couldn't classify 13279, 13404
Couldn't classify 14075, 14116
Sorry, prediction pasa_asmbl_35170.p1 fails validation.
(GCC)	 TC	13279-13404	GT	ACG
(GCG)	 AG	13644-13775	GT	TGG
(AAA)	 AG	14075-14116	AC	TCA
-recovered pasa_asmbl_35170.p1, internal, 13644, 13775
Valid prediction for snap_scaffold_26-snap.381-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GeneMark_model.98422_t
Valid prediction for GeneMark_model.98386_t
Valid prediction for snap_scaffold_26-snap.345-T1
Valid prediction for GeneMark_model.98375_t
Valid prediction for GeneMark_model.98370_t
Valid prediction for snap_scaffold_26-snap.356-T1
Valid prediction for GlimmerHMM_glimmerT_56451-T1
Valid prediction for snap_scaffold_26-snap.350-T1
Valid prediction for snap_scaffold_26-snap.379-T1
Valid prediction for GeneMark_model.98401_t
Valid prediction for snap_scaffold_26-snap.375-T1
Valid prediction for GlimmerHMM_glimmerT_56461-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 41845, rend_intergenic: 19914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42175, rend_intergenic: 41872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61962, rend_intergenic: 44712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70546, rend_intergenic: 70115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76529, rend_intergenic: 75647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85425, rend_intergenic: 81132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103581, rend_intergenic: 86164  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104259, rend_intergenic: 104083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131779, rend_intergenic: 104290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141268, rend_intergenic: 131981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149403, rend_intergenic: 146803  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164962, rend_intergenic: 160273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179157, rend_intergenic: 172252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186399, rend_intergenic: 185175  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188288, rend_intergenic: 186401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195689, rend_intergenic: 188630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198428, rend_intergenic: 197470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201849, rend_intergenic: 199510  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204546, rend_intergenic: 203287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219290, rend_intergenic: 204677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 225442
-exon list size: 919


building trellis

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61.8    
61.9    
62.0    
62.1    
62.2    
62.3    
62.4    
62.5    
62.6    
62.8    
62.9    
63.0    
63.1    
63.2    
63.3    
63.4    
63.5    
63.6    
63.7    
63.8    
64.0    
64.1    
64.2    
64.3    
64.4    
64.5    
64.6    
64.7    
64.8    
64.9    
65.0    
65.1    
65.3    
65.4    
65.5    
65.6    
65.7    
65.8    
65.9    
66.0    
66.1    
66.2    
66.3    
66.4    
66.6    
66.7    
66.8    
66.9    
67.0    
67.1    
67.2    
67.3    
67.4    
67.5    
67.6    
67.8    
67.9    
68.0    
68.1    
68.2    
68.3    
68.4    
68.5    
68.6    
68.7    
68.8    
68.9    
69.1    
69.2    
69.3    
69.4    
69.5    
69.6    
69.7    
69.8    
69.9    
70.0    
70.1    
70.2    
70.4    
70.5    
70.6    
70.7    
70.8    
70.9    
71.0    
71.1    
71.2    
71.3    
71.4    
71.6    
71.7    
71.8    
71.9    
72.0    
72.1    
72.2    
72.3    
72.4    
72.5    
72.6    
72.7    
72.9    
73.0    
73.1    
73.2    
73.3    
73.4    
73.5    
73.6    
73.7    
73.8    
73.9    
74.0    
74.2    
74.3    
74.4    
74.5    
74.6    
74.7    
74.8    
74.9    
75.0    
75.1    
75.2    
75.4    
75.5    
75.6    
75.7    
75.8    
75.9    
76.0    
76.1    
76.2    
76.3    
76.4    
76.5    
76.7    
76.8    
76.9    
77.0    
77.1    
77.2    
77.3    
77.4    
77.5    
77.6    
77.7    
77.9    
78.0    
78.1    
78.2    
78.3    
78.4    
78.5    
78.6    
78.7    
78.8    
78.9    
79.0    
79.2    
79.3    
79.4    
79.5    
79.6    
79.7    
79.8    
79.9    
80.0    
80.1    
80.2    
80.3    
80.5    
80.6    
80.7    
80.8    
80.9    
81.0    
81.1    
81.2    
81.3    
81.4    
81.5    
81.7    
81.8    
81.9    
82.0    
82.1    
82.2    
82.3    
82.4    
82.5    
82.6    
82.7    
82.8    
83.0    
83.1    
83.2    
83.3    
83.4    
83.5    
83.6    
83.7    
83.8    
83.9    
84.0    
84.1    
84.3    
84.4    
84.5    
84.6    
84.7    
84.8    
84.9    
85.0    
85.1    
85.2    
85.3    
85.5    
85.6    
85.7    
85.8    
85.9    
86.0    
86.1    
86.2    
86.3    
86.4    
86.5    
86.6    
86.8    
86.9    
87.0    
87.1    
87.2    
87.3    
87.4    
87.5    
87.6    
87.7    
87.8    
87.9    
88.1    
88.2    
88.3    
88.4    
88.5    
88.6    
88.7    
88.8    
88.9    
89.0    
89.1    
89.3    
89.4    
89.5    
89.6    
89.7    
89.8    
89.9    
90.0    
90.1    
90.2    
90.3    
90.4    
90.6    
90.7    
90.8    
90.9    
91.0    
91.1    
91.2    
91.3    
91.4    
91.5    
91.6    
91.7    
91.9    
92.0    
92.1    
92.2    
92.3    
92.4    
92.5    
92.6    
92.7    
92.8    
92.9    
93.1    
93.2    
93.3    
93.4    
93.5    
93.6    
93.7    
93.8    
93.9    
94.0    
94.1    
94.2    
94.4    
94.5    
94.6    
94.7    
94.8    
94.9    
95.0    
95.1    
95.2    
95.3    
95.4    
95.5    
95.7    
95.8    
95.9    
96.0    
96.1    
96.2    
96.3    
96.4    
96.5    
96.6    
96.7    
96.9    
97.0    
97.1    
97.2    
97.3    
97.4    
97.5    
97.6    
97.7    
97.8    
97.9    
98.0    
98.2    
98.3    
98.4    
98.5    
98.6    
98.7    
98.8    
98.9    
99.0    
99.1    
99.2    
99.3    
99.5    
99.6    
99.7    
99.8    
99.9    
-found 46 predictions from path traversal
Error with prediction: snap lend_intergenic: 41845, rend_intergenic: 19914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42175, rend_intergenic: 41872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61962, rend_intergenic: 44712  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70546, rend_intergenic: 70115  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76529, rend_intergenic: 75647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85425, rend_intergenic: 81132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103581, rend_intergenic: 86164  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104259, rend_intergenic: 104083  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131779, rend_intergenic: 104290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141268, rend_intergenic: 131981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149403, rend_intergenic: 146803  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164962, rend_intergenic: 160273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179157, rend_intergenic: 172252  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186399, rend_intergenic: 185175  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188288, rend_intergenic: 186401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195689, rend_intergenic: 188630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198428, rend_intergenic: 197470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 201849, rend_intergenic: 199510  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 204546, rend_intergenic: 203287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219290, rend_intergenic: 204677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support