-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_4517606-4680033

-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_14-snap.867-T1
Valid prediction for GlimmerHMM_glimmerT_33707-T1
Valid prediction for snap_scaffold_14-snap.868-T1
Valid prediction for GlimmerHMM_glimmerT_33686-T1
Valid prediction for Augustus_model.g22525.t1
Valid prediction for snap_scaffold_14-snap.862-T1
Valid prediction for snap_scaffold_14-snap.891-T1
Valid prediction for Augustus_model.g22528.t1
Valid prediction for snap_scaffold_14-snap.875-T1
Valid prediction for HiQ_model.g22532.t1
Valid prediction for GlimmerHMM_glimmerT_33698-T1
Valid prediction for snap_scaffold_14-snap.896-T1
Valid prediction for snap_scaffold_14-snap.858-T1
Valid prediction for snap_scaffold_14-snap.894-T1
Valid prediction for snap_scaffold_14-snap.859-T1
Valid prediction for GlimmerHMM_glimmerT_33705-T1
Valid prediction for CodingQuarry_transcript_15631-T1
Valid prediction for GlimmerHMM_glimmerT_33699-T1
Valid prediction for snap_scaffold_14-snap.870-T1
Valid prediction for GlimmerHMM_glimmerT_33702-T1
Valid prediction for GlimmerHMM_glimmerT_33700-T1
Valid prediction for snap_scaffold_14-snap.892-T1
Valid prediction for Augustus_model.g22530.t1
Valid prediction for Augustus_model.g22531.t1
Valid prediction for GlimmerHMM_glimmerT_33694-T1
Valid prediction for snap_scaffold_14-snap.857-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_14-snap.877-T1
Valid prediction for pasa_asmbl_12001.p1
Valid prediction for snap_scaffold_14-snap.886-T1
Valid prediction for snap_scaffold_14-snap.895-T1
Valid prediction for snap_scaffold_14-snap.884-T1
Valid prediction for GlimmerHMM_glimmerT_33697-T1
Valid prediction for snap_scaffold_14-snap.882-T1
Valid prediction for snap_scaffold_14-snap.887-T1
Valid prediction for GlimmerHMM_glimmerT_33688-T1
Valid prediction for Augustus_model.g22527.t1
Valid prediction for snap_scaffold_14-snap.880-T1
Valid prediction for snap_scaffold_14-snap.864-T1
Valid prediction for GlimmerHMM_glimmerT_33692-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 snap_scaffold_14-snap.883-T1
Valid prediction for snap_scaffold_14-snap.876-T1
Valid prediction for snap_scaffold_14-snap.889-T1
Valid prediction for snap_scaffold_14-snap.879-T1
Valid prediction for snap_scaffold_14-snap.890-T1
Couldn't classify 58321, 58446
Couldn't classify 60678, 60704
Sorry, prediction pasa_asmbl_13797.p1 fails validation.
(ACA)	 AG	58321-58446	GT	AGG
(GAA)	 AG	58556-58862	GT	AAG
(TCC)	 AG	59142-59308	GT	CCG
(GAG)	 AG	59531-59712	GT	AGG
(GAG)	 AG	59846-59910	GT	AGG
(GTG)	 AG	60011-60162	GT	AGG
(GCT)	 AG	60361-60471	GT	TGG
(GAC)	 AG	60678-60704	CT	AGC
-recovered pasa_asmbl_13797.p1, internal, 58321, 58446
-recovered pasa_asmbl_13797.p1, internal, 58556, 58862
-recovered pasa_asmbl_13797.p1, internal, 59142, 59308
-recovered pasa_asmbl_13797.p1, internal, 59531, 59712
-recovered pasa_asmbl_13797.p1, internal, 59846, 59910
-recovered pasa_asmbl_13797.p1, internal, 60011, 60162
-recovered pasa_asmbl_13797.p1, internal, 60361, 60471
Valid prediction for snap_scaffold_14-snap.865-T1
Valid prediction for Augustus_model.g22535.t1
Valid prediction for GlimmerHMM_glimmerT_33710-T1
Valid prediction for snap_scaffold_14-snap.881-T1
Valid prediction for Augustus_model.g22533.t1
Valid prediction for snap_scaffold_14-snap.861-T1
Valid prediction for snap_scaffold_14-snap.888-T1
Valid prediction for Augustus_model.g22534.t1
Valid prediction for GlimmerHMM_glimmerT_33689-T1
Valid prediction for snap_scaffold_14-snap.893-T1
Valid prediction for snap_scaffold_14-snap.860-T1
Valid prediction for snap_scaffold_14-snap.885-T1
Valid prediction for GlimmerHMM_glimmerT_33690-T1
Valid prediction for GlimmerHMM_glimmerT_33696-T1
Valid prediction for CodingQuarry_transcript_15632-T1
Valid prediction for GlimmerHMM_glimmerT_33701-T1
Valid prediction for snap_scaffold_14-snap.871-T1
Valid prediction for snap_scaffold_14-snap.869-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33711-T1
Valid prediction for snap_scaffold_14-snap.866-T1
Valid prediction for GlimmerHMM_glimmerT_33709-T1
Valid prediction for Augustus_model.g22529.t1
Valid prediction for GlimmerHMM_glimmerT_33706-T1
Valid prediction for GlimmerHMM_glimmerT_33714-T1
Couldn't classify 49300, 49365
Couldn't classify 50231, 50246
Sorry, prediction pasa_asmbl_13058.p1 fails validation.
(TCT)	 CC	49300-49365	GT	AGG
(TTC)	 AG	49519-49604	GT	AGG
(TGT)	 AG	49703-49784	GT	AGG
(ACG)	 AG	49970-50133	GT	AGG
(CTC)	 AG	50231-50246	CT	AAC
-recovered pasa_asmbl_13058.p1, internal, 49519, 49604
-recovered pasa_asmbl_13058.p1, internal, 49703, 49784
-recovered pasa_asmbl_13058.p1, internal, 49970, 50133
Valid prediction for GlimmerHMM_glimmerT_33687-T1
Couldn't classify 69039, 69101
Couldn't classify 69855, 69925
Sorry, prediction pasa_asmbl_13051.p1 fails validation.
(AAT)	 TA	69039-69101	GT	AGG
(GAG)	 AG	69464-69698	GT	GAG
(GTG)	 AG	69855-69925	AG	AAA
-recovered pasa_asmbl_13051.p1, internal, 69464, 69698
Valid prediction for GlimmerHMM_glimmerT_33712-T1
Valid prediction for GlimmerHMM_glimmerT_33691-T1
Valid prediction for GlimmerHMM_glimmerT_33713-T1
Valid prediction for GlimmerHMM_glimmerT_33693-T1
Valid prediction for snap_scaffold_14-snap.878-T1
Valid prediction for Augustus_model.g22526.t1
Couldn't classify 47950, 48058
Couldn't classify 48935, 49133
Sorry, prediction pasa_asmbl_13059.p1 fails validation.
(GGT)	 TG	47950-48058	GT	AGG
(ACT)	 AG	48165-48274	GT	GGG
(GCT)	 AG	48425-48524	GT	GAG
(CCA)	 AG	48709-48817	GT	AGG
(TAT)	 AG	48935-49133	CG	CAC
-recovered pasa_asmbl_13059.p1, internal, 48165, 48274
-recovered pasa_asmbl_13059.p1, internal, 48425, 48524
-recovered pasa_asmbl_13059.p1, internal, 48709, 48817
Valid prediction for GlimmerHMM_glimmerT_33703-T1
Valid prediction for GlimmerHMM_glimmerT_33708-T1
Valid prediction for snap_scaffold_14-snap.874-T1
Valid prediction for snap_scaffold_14-snap.873-T1
Valid prediction for GlimmerHMM_glimmerT_33685-T1
Valid prediction for snap_scaffold_14-snap.872-T1
Valid prediction for GlimmerHMM_glimmerT_33704-T1
Valid prediction for GlimmerHMM_glimmerT_33695-T1
Valid prediction for snap_scaffold_14-snap.863-T1
Valid prediction for GlimmerHMM_glimmerT_33684-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18979, rend_intergenic: 9163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25308, rend_intergenic: 22989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26819, rend_intergenic: 25902  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30495, rend_intergenic: 27000  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40979, rend_intergenic: 34326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49641, rend_intergenic: 42461  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58974, rend_intergenic: 50746  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66004, rend_intergenic: 60690  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77083, rend_intergenic: 68584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81820, rend_intergenic: 77717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98007, rend_intergenic: 91304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106402, rend_intergenic: 101864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124574, rend_intergenic: 112126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139422, rend_intergenic: 135091  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149642, rend_intergenic: 139531  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159765, rend_intergenic: 150028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 162428
-exon list size: 455


building trellis

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18.6    
18.8    
19.0    
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19.9    
20.1    
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20.6    
20.8    
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21.4    
21.7    
21.9    
22.1    
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22.5    
22.8    
23.0    
23.2    
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23.6    
23.9    
24.1    
24.3    
24.5    
24.7    
24.9    
25.2    
25.4    
25.6    
25.8    
26.0    
26.3    
26.5    
26.7    
26.9    
27.1    
27.4    
27.6    
27.8    
28.0    
28.2    
28.4    
28.7    
28.9    
29.1    
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29.8    
30.0    
30.2    
30.4    
30.6    
30.9    
31.1    
31.3    
31.5    
31.7    
31.9    
32.2    
32.4    
32.6    
32.8    
33.0    
33.3    
33.5    
33.7    
33.9    
34.1    
34.4    
34.6    
34.8    
35.0    
35.2    
35.4    
35.7    
35.9    
36.1    
36.3    
36.5    
36.8    
37.0    
37.2    
37.4    
37.6    
37.9    
38.1    
38.3    
38.5    
38.7    
38.9    
39.2    
39.4    
39.6    
39.8    
40.0    
40.3    
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40.9    
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41.4    
41.6    
41.8    
42.0    
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42.5    
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42.9    
43.1    
43.3    
43.5    
43.8    
44.0    
44.2    
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44.9    
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45.3    
45.5    
45.7    
46.0    
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46.6    
46.8    
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48.1    
48.4    
48.6    
48.8    
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49.7    
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51.6    
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64.6    
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65.0    
65.2    
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84.2    
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85.3    
85.6    
85.8    
86.0    
86.2    
86.4    
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86.9    
87.1    
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88.0    
88.2    
88.4    
88.6    
88.8    
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89.3    
89.5    
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89.9    
90.2    
90.4    
90.6    
90.8    
91.0    
91.2    
91.5    
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91.9    
92.1    
92.3    
92.6    
92.8    
93.0    
93.2    
93.4    
93.7    
93.9    
94.1    
94.3    
94.5    
94.7    
95.0    
95.2    
95.4    
95.6    
95.8    
96.1    
96.3    
96.5    
96.7    
96.9    
97.2    
97.4    
97.6    
97.8    
98.0    
98.2    
98.5    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 18979, rend_intergenic: 9163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25308, rend_intergenic: 22989  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26819, rend_intergenic: 25902  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30495, rend_intergenic: 27000  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40979, rend_intergenic: 34326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49641, rend_intergenic: 42461  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58974, rend_intergenic: 50746  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66004, rend_intergenic: 60690  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77083, rend_intergenic: 68584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81820, rend_intergenic: 77717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98007, rend_intergenic: 91304  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106402, rend_intergenic: 101864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124574, rend_intergenic: 112126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139422, rend_intergenic: 135091  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149642, rend_intergenic: 139531  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159765, rend_intergenic: 150028  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