-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_1844788-2045591

-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_56740-T1
Valid prediction for GlimmerHMM_glimmerT_56746-T1
Valid prediction for GlimmerHMM_glimmerT_56744-T1
Valid prediction for snap_scaffold_27-snap.442-T1
Valid prediction for snap_scaffold_27-snap.464-T1
Valid prediction for snap_scaffold_27-snap.443-T1
Valid prediction for CodingQuarry_transcript_41792-T1
Valid prediction for snap_scaffold_27-snap.456-T1
Valid prediction for GlimmerHMM_glimmerT_56760-T1
Valid prediction for GlimmerHMM_glimmerT_56745-T1
Valid prediction for snap_scaffold_27-snap.463-T1
Valid prediction for GlimmerHMM_glimmerT_56757-T1
Valid prediction for snap_scaffold_27-snap.439-T1
Valid prediction for snap_scaffold_27-snap.425-T1
Valid prediction for snap_scaffold_27-snap.446-T1
Sorry, intron length (7) is less than minimum required (10)
Couldn't classify 96116, 96183
Couldn't classify 102931, 103154
Sorry, prediction pasa_asmbl_36043.p1 fails validation.
(GGG)	 CA	96116-96183	GT	AGG
(GAG)	 AG	96471-96543	GT	GGG
(ACA)	 AG	97674-97852	GT	AGG
(TCA)	 AG	98091-98484	GT	AGG
(CTC)	 AG	98718-98834	GT	AGG
(GTT)	 AG	101346-101466	GT	GGG
(AAT)	 AG	102931-103154	TC	GGT
-recovered pasa_asmbl_36043.p1, internal, 96471, 96543
-recovered pasa_asmbl_36043.p1, internal, 97674, 97852
-recovered pasa_asmbl_36043.p1, internal, 98091, 98484
-recovered pasa_asmbl_36043.p1, internal, 98718, 98834
-recovered pasa_asmbl_36043.p1, internal, 101346, 101466
Valid prediction for snap_scaffold_27-snap.459-T1
Valid prediction for snap_scaffold_27-snap.435-T1
Valid prediction for snap_scaffold_27-snap.457-T1
Valid prediction for snap_scaffold_27-snap.466-T1
Valid prediction for GlimmerHMM_glimmerT_56750-T1
Valid prediction for snap_scaffold_27-snap.428-T1
Valid prediction for snap_scaffold_27-snap.445-T1
Valid prediction for snap_scaffold_27-snap.465-T1
Valid prediction for snap_scaffold_27-snap.458-T1
Valid prediction for Augustus_model.g37591.t1
Valid prediction for Augustus_model.g37596.t1
Couldn't classify 108436, 108518
Sorry, prediction pasa_asmbl_36048.p1 fails validation.
(TGC)	 CA	108436-108518	GT	AAG
(GTG)	 AG	110659-110763	GT	AAG
(GCA)	 AG	111071-111134	GT	AGG
(GTG)	 AG	112499-112595	GT	ATG
(ACC)	 AG	114074-114187	GT	AGG
(ACC)	 AG	116971-117116	GT	TGG
(GCG)	 AG	117243-117482	CT	AAC
-recovered pasa_asmbl_36048.p1, terminal, 117243, 117482
-recovered pasa_asmbl_36048.p1, internal, 110659, 110763
-recovered pasa_asmbl_36048.p1, internal, 111071, 111134
-recovered pasa_asmbl_36048.p1, internal, 112499, 112595
-recovered pasa_asmbl_36048.p1, internal, 114074, 114187
-recovered pasa_asmbl_36048.p1, internal, 116971, 117116
Valid prediction for GlimmerHMM_glimmerT_56733-T1
Valid prediction for snap_scaffold_27-snap.421-T1
Valid prediction for Augustus_model.g37608.t1
Valid prediction for GlimmerHMM_glimmerT_56738-T1
Valid prediction for CodingQuarry_transcript_41797-T1
Valid prediction for HiQ_model.g37602.t1
Valid prediction for snap_scaffold_27-snap.427-T1
Valid prediction for snap_scaffold_27-snap.424-T1
Valid prediction for CodingQuarry_transcript_41798-T1
Valid prediction for Augustus_model.g37605.t1
Valid prediction for GlimmerHMM_glimmerT_56758-T1
Valid prediction for GlimmerHMM_glimmerT_56735-T1
Valid prediction for snap_scaffold_27-snap.449-T1
Valid prediction for Augustus_model.g37606.t1
Valid prediction for pasa_asmbl_36059.p1
Valid prediction for Augustus_model.g37598.t1
Valid prediction for GlimmerHMM_glimmerT_56754-T1
Valid prediction for Augustus_model.g37604.t1
Valid prediction for GlimmerHMM_glimmerT_56752-T1
Valid prediction for snap_scaffold_27-snap.455-T1
Valid prediction for GlimmerHMM_glimmerT_56742-T1
Valid prediction for HiQ_model.g37597.t1
Valid prediction for snap_scaffold_27-snap.452-T1
Valid prediction for snap_scaffold_27-snap.431-T1
Valid prediction for snap_scaffold_27-snap.448-T1
Valid prediction for GlimmerHMM_glimmerT_56739-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 Augustus_model.g37607.t1
Valid prediction for GlimmerHMM_glimmerT_56737-T1
Valid prediction for GlimmerHMM_glimmerT_56751-T1
Valid prediction for snap_scaffold_27-snap.451-T1
Valid prediction for GlimmerHMM_glimmerT_56736-T1
Valid prediction for CodingQuarry_transcript_41794-T1
Valid prediction for GlimmerHMM_glimmerT_56741-T1
Valid prediction for snap_scaffold_27-snap.462-T1
Valid prediction for snap_scaffold_27-snap.461-T1
Valid prediction for snap_scaffold_27-snap.426-T1
Valid prediction for HiQ_model.g37599.t1
Valid prediction for HiQ_model.g37601.t1
Valid prediction for snap_scaffold_27-snap.429-T1
Valid prediction for snap_scaffold_27-snap.436-T1
Valid prediction for snap_scaffold_27-snap.440-T1
Valid prediction for Augustus_model.g37592.t1
Valid prediction for Augustus_model.g37603.t1
Valid prediction for snap_scaffold_27-snap.467-T1
Valid prediction for snap_scaffold_27-snap.432-T1
Valid prediction for snap_scaffold_27-snap.422-T1
Couldn't classify 180178, 180279
Couldn't classify 182087, 182151
Sorry, prediction pasa_asmbl_36793.p1 fails validation.
(GAG)	 TT	180178-180279	GT	AGG
(GGT)	 AG	180879-181026	GT	AGG
(CCA)	 AG	181267-181413	GT	TGG
(AAG)	 AG	182087-182151	GG	AGG
-recovered pasa_asmbl_36793.p1, internal, 180879, 181026
-recovered pasa_asmbl_36793.p1, internal, 181267, 181413
Valid prediction for snap_scaffold_27-snap.453-T1
Valid prediction for GlimmerHMM_glimmerT_56755-T1
Valid prediction for GlimmerHMM_glimmerT_56748-T1
Valid prediction for CodingQuarry_transcript_41795-T1
Valid prediction for GlimmerHMM_glimmerT_56747-T1
Valid prediction for CodingQuarry_transcript_41793-T1
Valid prediction for pasa_asmbl_36796.p1
Valid prediction for snap_scaffold_27-snap.460-T1
Couldn't classify 185851, 186192
Sorry, prediction pasa_asmbl_36792.p2 fails validation.
(TTG)	 GT	185851-186192	TT	GAT
Valid prediction for GlimmerHMM_glimmerT_56759-T1
Valid prediction for snap_scaffold_27-snap.423-T1
Valid prediction for GlimmerHMM_glimmerT_56756-T1
Valid prediction for GlimmerHMM_glimmerT_56753-T1
Valid prediction for snap_scaffold_27-snap.447-T1
Valid prediction for Augustus_model.g37593.t1
Valid prediction for snap_scaffold_27-snap.454-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g37594.t1
Valid prediction for CodingQuarry_transcript_41796-T1
Valid prediction for snap_scaffold_27-snap.438-T1
Valid prediction for snap_scaffold_27-snap.441-T1
Valid prediction for snap_scaffold_27-snap.434-T1
Valid prediction for GlimmerHMM_glimmerT_56761-T1
Valid prediction for snap_scaffold_27-snap.450-T1
Valid prediction for snap_scaffold_27-snap.437-T1
Valid prediction for snap_scaffold_27-snap.444-T1
Valid prediction for snap_scaffold_27-snap.430-T1
Valid prediction for Augustus_model.g37609.t1
Valid prediction for HiQ_model.g37600.t1
Valid prediction for GlimmerHMM_glimmerT_56749-T1
Valid prediction for snap_scaffold_27-snap.433-T1
Valid prediction for pasa_asmbl_36799.p1
Valid prediction for GlimmerHMM_glimmerT_56743-T1
Valid prediction for GlimmerHMM_glimmerT_56734-T1
Valid prediction for Augustus_model.g37595.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13785, rend_intergenic: 5575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19703, rend_intergenic: 18609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26296, rend_intergenic: 19738  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45496, rend_intergenic: 26445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50964, rend_intergenic: 45534  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76216, rend_intergenic: 52080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82038, rend_intergenic: 77145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94028, rend_intergenic: 92323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99445, rend_intergenic: 94071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114100, rend_intergenic: 101172  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115312, rend_intergenic: 114100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118685, rend_intergenic: 115363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125464, rend_intergenic: 120086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133234, rend_intergenic: 126601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148385, rend_intergenic: 140888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152550, rend_intergenic: 148731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172042, rend_intergenic: 165741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180555, rend_intergenic: 174907  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193198, rend_intergenic: 188297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 200804
-exon list size: 456


building trellis

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25.8    
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27.7    
27.9    
28.2    
28.4    
28.6    
28.8    
29.0    
29.3    
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29.7    
29.9    
30.1    
30.3    
30.6    
30.8    
31.0    
31.2    
31.4    
31.7    
31.9    
32.1    
32.3    
32.5    
32.8    
33.0    
33.2    
33.4    
33.6    
33.8    
34.1    
34.3    
34.5    
34.7    
34.9    
35.2    
35.4    
35.6    
35.8    
36.0    
36.2    
36.5    
36.7    
36.9    
37.1    
37.3    
37.6    
37.8    
38.0    
38.2    
38.4    
38.6    
38.9    
39.1    
39.3    
39.5    
39.7    
40.0    
40.2    
40.4    
40.6    
40.8    
41.0    
41.3    
41.5    
41.7    
41.9    
42.1    
42.4    
42.6    
42.8    
43.0    
43.2    
43.4    
43.7    
43.9    
44.1    
44.3    
44.5    
44.8    
45.0    
45.2    
45.4    
45.6    
45.9    
46.1    
46.3    
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46.9    
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47.6    
47.8    
48.0    
48.3    
48.5    
48.7    
48.9    
49.1    
49.3    
49.6    
49.8    
50.0    
50.2    
50.4    
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50.9    
51.1    
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51.5    
51.7    
52.0    
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52.6    
52.8    
53.1    
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53.9    
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54.6    
54.8    
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55.2    
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55.9    
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56.8    
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57.9    
58.1    
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59.0    
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59.6    
59.8    
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60.3    
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60.9    
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61.6    
61.8    
62.0    
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62.9    
63.1    
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63.8    
64.0    
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64.8    
65.1    
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80.6    
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81.4    
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82.8    
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83.6    
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84.7    
84.9    
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85.6    
85.8    
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86.9    
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87.6    
87.8    
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88.4    
88.6    
88.9    
89.1    
89.3    
89.5    
89.7    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.3    
91.5    
91.7    
91.9    
92.1    
92.4    
92.6    
92.8    
93.0    
93.2    
93.4    
93.7    
93.9    
94.1    
94.3    
94.5    
94.8    
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95.4    
95.6    
95.9    
96.1    
96.3    
96.5    
96.7    
96.9    
97.2    
97.4    
97.6    
97.8    
98.0    
98.3    
98.5    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 13785, rend_intergenic: 5575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19703, rend_intergenic: 18609  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26296, rend_intergenic: 19738  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45496, rend_intergenic: 26445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50964, rend_intergenic: 45534  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76216, rend_intergenic: 52080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82038, rend_intergenic: 77145  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94028, rend_intergenic: 92323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99445, rend_intergenic: 94071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114100, rend_intergenic: 101172  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115312, rend_intergenic: 114100  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118685, rend_intergenic: 115363  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125464, rend_intergenic: 120086  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133234, rend_intergenic: 126601  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148385, rend_intergenic: 140888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152550, rend_intergenic: 148731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172042, rend_intergenic: 165741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180555, rend_intergenic: 174907  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193198, rend_intergenic: 188297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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