-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_13271876-13565929

-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 Augustus_model.g10598.t1
Couldn't classify 88590, 89060
Sorry, prediction pasa_asmbl_47528.p1 fails validation.
(GTT)	 AT	88590-89060	GG	CCG
Valid prediction for snap_scaffold_6-snap.2798-T1
Valid prediction for snap_scaffold_6-snap.2784-T1
Valid prediction for GlimmerHMM_glimmerT_15768-T1
Valid prediction for snap_scaffold_6-snap.2776-T1
Valid prediction for GlimmerHMM_glimmerT_15786-T1
Valid prediction for GlimmerHMM_glimmerT_15755-T1
Valid prediction for snap_scaffold_6-snap.2797-T1
Valid prediction for Augustus_model.g10586.t1
Valid prediction for GlimmerHMM_glimmerT_15751-T1
Valid prediction for GlimmerHMM_glimmerT_15774-T1
Valid prediction for snap_scaffold_6-snap.2788-T1
Valid prediction for Augustus_model.g10584.t1
Couldn't classify 18039, 18087
Sorry, prediction pasa_asmbl_47994.p1 fails validation.
(GTA)	 AT	18039-18087	GT	TGG
(GTA)	 AG	18241-18364	GT	ACG
(ATA)	 AG	18493-18617	GT	GGG
(TGG)	 AG	18848-18972	GT	AGG
(ATG)	 AG	19117-19266	AA	GAA
-recovered pasa_asmbl_47994.p1, terminal, 19117, 19266
-recovered pasa_asmbl_47994.p1, internal, 18241, 18364
-recovered pasa_asmbl_47994.p1, internal, 18493, 18617
-recovered pasa_asmbl_47994.p1, internal, 18848, 18972
Valid prediction for GlimmerHMM_glimmerT_15764-T1
Valid prediction for snap_scaffold_6-snap.2799-T1
Valid prediction for snap_scaffold_6-snap.2810-T1
Valid prediction for CodingQuarry_transcript_55299-T1
Valid prediction for GlimmerHMM_glimmerT_15765-T1
Valid prediction for snap_scaffold_6-snap.2815-T1
Valid prediction for GlimmerHMM_glimmerT_15766-T1
Valid prediction for snap_scaffold_6-snap.2816-T1
Valid prediction for GlimmerHMM_glimmerT_15754-T1
Valid prediction for GlimmerHMM_glimmerT_15756-T1
Valid prediction for snap_scaffold_6-snap.2777-T1
Valid prediction for Augustus_model.g10594.t1
Valid prediction for Augustus_model.g10587.t1
Valid prediction for GlimmerHMM_glimmerT_15760-T1
Valid prediction for GlimmerHMM_glimmerT_15770-T1
Valid prediction for GlimmerHMM_glimmerT_15776-T1
Valid prediction for snap_scaffold_6-snap.2800-T1
Couldn't classify 78680, 78784
Sorry, prediction pasa_asmbl_47526.p1 fails validation.
(GTT)	 GG	78680-78784	GT	ATG
(GCA)	 AG	78904-79012	GT	AGG
(CCT)	 AG	79100-79240	GT	TGG
(CTC)	 AG	79531-79700	GC	AGG
-recovered pasa_asmbl_47526.p1, terminal, 79531, 79700
-recovered pasa_asmbl_47526.p1, internal, 78904, 79012
-recovered pasa_asmbl_47526.p1, internal, 79100, 79240
-recovered pasa_asmbl_47526.p1, internal, 79531, 79700
Valid prediction for Augustus_model.g10596.t1
Valid prediction for Augustus_model.g10582.t1
Valid prediction for CodingQuarry_transcript_55300-T1
Valid prediction for GlimmerHMM_glimmerT_15782-T1
Valid prediction for GlimmerHMM_glimmerT_15758-T1
Valid prediction for snap_scaffold_6-snap.2811-T1
Valid prediction for GlimmerHMM_glimmerT_15753-T1
Valid prediction for snap_scaffold_6-snap.2793-T1
Valid prediction for Augustus_model.g10585.t1
Valid prediction for GlimmerHMM_glimmerT_15789-T1
Valid prediction for GlimmerHMM_glimmerT_15780-T1
Valid prediction for snap_scaffold_6-snap.2802-T1
Valid prediction for HiQ_model.g10580.t1
Valid prediction for snap_scaffold_6-snap.2809-T1
Valid prediction for GlimmerHMM_glimmerT_15769-T1
Valid prediction for snap_scaffold_6-snap.2780-T1
Valid prediction for pasa_asmbl_47514.p1
Valid prediction for snap_scaffold_6-snap.2806-T1
Valid prediction for snap_scaffold_6-snap.2790-T1
Valid prediction for snap_scaffold_6-snap.2808-T1
Valid prediction for GlimmerHMM_glimmerT_15790-T1
Valid prediction for snap_scaffold_6-snap.2805-T1
Valid prediction for Augustus_model.g10590.t1
Valid prediction for snap_scaffold_6-snap.2814-T1
Valid prediction for snap_scaffold_6-snap.2794-T1
Valid prediction for snap_scaffold_6-snap.2792-T1
Valid prediction for Augustus_model.g10602.t1
Couldn't classify 45911, 46639
Sorry, prediction pasa_asmbl_47524.p1 fails validation.
(TGT)	 AA	45911-46639	GT	GAG
Valid prediction for HiQ_model.g10581.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_15781-T1
Valid prediction for snap_scaffold_6-snap.2781-T1
Valid prediction for GlimmerHMM_glimmerT_15778-T1
Valid prediction for Augustus_model.g10593.t1
Valid prediction for GlimmerHMM_glimmerT_15775-T1
Valid prediction for Augustus_model.g10592.t1
Valid prediction for snap_scaffold_6-snap.2818-T1
Valid prediction for snap_scaffold_6-snap.2812-T1
Valid prediction for GlimmerHMM_glimmerT_15784-T1
Valid prediction for GlimmerHMM_glimmerT_15767-T1
Valid prediction for snap_scaffold_6-snap.2791-T1
Valid prediction for GlimmerHMM_glimmerT_15777-T1
Valid prediction for snap_scaffold_6-snap.2783-T1
Valid prediction for GlimmerHMM_glimmerT_15762-T1
Valid prediction for snap_scaffold_6-snap.2804-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_15757-T1
Valid prediction for Augustus_model.g10603.t1
Valid prediction for snap_scaffold_6-snap.2778-T1
Valid prediction for Augustus_model.g10604.t1
Valid prediction for Augustus_model.g10583.t1
Valid prediction for snap_scaffold_6-snap.2786-T1
Valid prediction for snap_scaffold_6-snap.2817-T1
Valid prediction for snap_scaffold_6-snap.2801-T1
Valid prediction for snap_scaffold_6-snap.2787-T1
Valid prediction for Augustus_model.g10601.t1
Valid prediction for snap_scaffold_6-snap.2779-T1
Valid prediction for snap_scaffold_6-snap.2782-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for HiQ_model.g10595.t1
Valid prediction for snap_scaffold_6-snap.2785-T1
Valid prediction for GlimmerHMM_glimmerT_15761-T1
Valid prediction for snap_scaffold_6-snap.2807-T1
Valid prediction for GlimmerHMM_glimmerT_15779-T1
Valid prediction for GlimmerHMM_glimmerT_15759-T1
Valid prediction for pasa_asmbl_48910.p1
Valid prediction for GlimmerHMM_glimmerT_15791-T1
Valid prediction for snap_scaffold_6-snap.2803-T1
Valid prediction for GlimmerHMM_glimmerT_15793-T1
Valid prediction for GlimmerHMM_glimmerT_15773-T1
Valid prediction for snap_scaffold_6-snap.2796-T1
Valid prediction for Augustus_model.g10597.t1
Valid prediction for GlimmerHMM_glimmerT_15783-T1
Valid prediction for GlimmerHMM_glimmerT_15788-T1
Valid prediction for snap_scaffold_6-snap.2789-T1
Valid prediction for GlimmerHMM_glimmerT_15787-T1
Valid prediction for GlimmerHMM_glimmerT_15785-T1
Valid prediction for GlimmerHMM_glimmerT_15772-T1
Valid prediction for Augustus_model.g10591.t1
Valid prediction for Augustus_model.g10588.t1
Valid prediction for GlimmerHMM_glimmerT_15792-T1
Valid prediction for GlimmerHMM_glimmerT_15763-T1
Valid prediction for Augustus_model.g10589.t1
Valid prediction for snap_scaffold_6-snap.2795-T1
Valid prediction for snap_scaffold_6-snap.2813-T1
Valid prediction for GlimmerHMM_glimmerT_15771-T1
Valid prediction for Augustus_model.g10599.t1
Valid prediction for GlimmerHMM_glimmerT_15752-T1
Valid prediction for Augustus_model.g10600.t1
Valid prediction for CodingQuarry_transcript_55302-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 72935, rend_intergenic: 65582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78756, rend_intergenic: 78192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121768, rend_intergenic: 92587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149164, rend_intergenic: 126499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167662, rend_intergenic: 159089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172919, rend_intergenic: 167981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194882, rend_intergenic: 177484  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 241669, rend_intergenic: 203664  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245883, rend_intergenic: 241969  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 267393, rend_intergenic: 255113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 288418, rend_intergenic: 271290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 294054
-exon list size: 446


building trellis

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23.4    
23.7    
23.9    
24.1    
24.3    
24.6    
24.8    
25.0    
25.2    
25.4    
25.7    
25.9    
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26.3    
26.6    
26.8    
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27.9    
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28.3    
28.6    
28.8    
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29.5    
29.7    
29.9    
30.1    
30.4    
30.6    
30.8    
31.0    
31.2    
31.5    
31.7    
31.9    
32.1    
32.4    
32.6    
32.8    
33.0    
33.3    
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33.7    
33.9    
34.2    
34.4    
34.6    
34.8    
35.0    
35.3    
35.5    
35.7    
35.9    
36.2    
36.4    
36.6    
36.8    
37.1    
37.3    
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38.2    
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38.6    
38.8    
39.1    
39.3    
39.5    
39.7    
40.0    
40.2    
40.4    
40.6    
40.8    
41.1    
41.3    
41.5    
41.7    
42.0    
42.2    
42.4    
42.6    
42.9    
43.1    
43.3    
43.5    
43.8    
44.0    
44.2    
44.4    
44.6    
44.9    
45.1    
45.3    
45.5    
45.8    
46.0    
46.2    
46.4    
46.7    
46.9    
47.1    
47.3    
47.5    
47.8    
48.0    
48.2    
48.4    
48.7    
48.9    
49.1    
49.3    
49.6    
49.8    
50.0    
50.2    
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50.7    
50.9    
51.1    
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52.0    
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52.9    
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53.8    
54.0    
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54.9    
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56.0    
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56.9    
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58.0    
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58.9    
59.2    
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61.2    
61.4    
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61.8    
62.1    
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62.5    
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62.9    
63.2    
63.4    
63.6    
63.8    
64.1    
64.3    
64.5    
64.7    
65.0    
65.2    
65.4    
65.6    
65.8    
66.1    
66.3    
66.5    
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67.0    
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67.4    
67.6    
67.9    
68.1    
68.3    
68.5    
68.8    
69.0    
69.2    
69.4    
69.6    
69.9    
70.1    
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70.5    
70.8    
71.0    
71.2    
71.4    
71.7    
71.9    
72.1    
72.3    
72.5    
72.8    
73.0    
73.2    
73.4    
73.7    
73.9    
74.1    
74.3    
74.6    
74.8    
75.0    
75.2    
75.4    
75.7    
75.9    
76.1    
76.3    
76.6    
76.8    
77.0    
77.2    
77.5    
77.7    
77.9    
78.1    
78.3    
78.6    
78.8    
79.0    
79.2    
79.5    
79.7    
79.9    
80.1    
80.4    
80.6    
80.8    
81.0    
81.2    
81.5    
81.7    
81.9    
82.1    
82.4    
82.6    
82.8    
83.0    
83.3    
83.5    
83.7    
83.9    
84.2    
84.4    
84.6    
84.8    
85.0    
85.3    
85.5    
85.7    
85.9    
86.2    
86.4    
86.6    
86.8    
87.1    
87.3    
87.5    
87.7    
87.9    
88.2    
88.4    
88.6    
88.8    
89.1    
89.3    
89.5    
89.7    
90.0    
90.2    
90.4    
90.6    
90.8    
91.1    
91.3    
91.5    
91.7    
92.0    
92.2    
92.4    
92.6    
92.9    
93.1    
93.3    
93.5    
93.8    
94.0    
94.2    
94.4    
94.6    
94.9    
95.1    
95.3    
95.5    
95.8    
96.0    
96.2    
96.4    
96.7    
96.9    
97.1    
97.3    
97.5    
97.8    
98.0    
98.2    
98.4    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 39 predictions from path traversal
Error with prediction: snap lend_intergenic: 72935, rend_intergenic: 65582  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78756, rend_intergenic: 78192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121768, rend_intergenic: 92587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149164, rend_intergenic: 126499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167662, rend_intergenic: 159089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172919, rend_intergenic: 167981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194882, rend_intergenic: 177484  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 241669, rend_intergenic: 203664  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 245883, rend_intergenic: 241969  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 267393, rend_intergenic: 255113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 288418, rend_intergenic: 271290  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support