-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_16262559-16518339

-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_21106-T1
Valid prediction for CodingQuarry_transcript_59922-T1
Valid prediction for snap_scaffold_8-snap.2983-T1
Valid prediction for GlimmerHMM_glimmerT_21085-T1
Valid prediction for GlimmerHMM_glimmerT_21084-T1
Valid prediction for pasa_asmbl_53454.p1
Valid prediction for GlimmerHMM_glimmerT_21104-T1
Valid prediction for Augustus_model.g14041.t1
Valid prediction for snap_scaffold_8-snap.2986-T1
Valid prediction for GlimmerHMM_glimmerT_21097-T1
Valid prediction for snap_scaffold_8-snap.2973-T1
Valid prediction for GlimmerHMM_glimmerT_21101-T1
Valid prediction for snap_scaffold_8-snap.2989-T1
Valid prediction for snap_scaffold_8-snap.2970-T1
Valid prediction for snap_scaffold_8-snap.2956-T1
Valid prediction for Augustus_model.g14042.t1
Valid prediction for HiQ_model.g14034.t1
Valid prediction for HiQ_model.g14023.t1
Valid prediction for Augustus_model.g14033.t1
Valid prediction for GlimmerHMM_glimmerT_21086-T1
Valid prediction for snap_scaffold_8-snap.2996-T1
Valid prediction for GlimmerHMM_glimmerT_21109-T1
Valid prediction for snap_scaffold_8-snap.2968-T1
Valid prediction for snap_scaffold_8-snap.2963-T1
Valid prediction for GlimmerHMM_glimmerT_21096-T1
Valid prediction for snap_scaffold_8-snap.2978-T1
Valid prediction for GlimmerHMM_glimmerT_21095-T1
Couldn't classify 2231, 2377
Couldn't classify 3399, 3491
Sorry, prediction pasa_asmbl_53441.p1 fails validation.
(CCG)	 CA	2231-2377	GT	AGG
(GTC)	 AG	2798-2896	GT	CGG
(CTC)	 AG	3047-3286	GT	AGG
(AAC)	 AG	3399-3491	AC	CCA
-recovered pasa_asmbl_53441.p1, internal, 2798, 2896
-recovered pasa_asmbl_53441.p1, internal, 3047, 3286
Couldn't classify 5378, 5497
Sorry, prediction pasa_asmbl_53443.p1 fails validation.
(TTG)	 CC	5378-5497	GT	AGG
(GAC)	 AG	5631-5816	GT	AGG
(GAG)	 AG	5926-6013	GT	AGG
(GCG)	 AG	6129-6277	GT	TGG
(TAT)	 AG	6390-6506	GT	AGG
(GCT)	 AG	6662-6807	GT	CGG
(GTA)	 AG	6911-6982	GT	AGG
(GCA)	 AG	7206-7341	GT	AGG
(GAG)	 AG	7616-7756	GT	GGG
(CGT)	 AG	8127-8281	GT	AGG
(ACC)	 AG	8390-8486	GT	AGG
(GCC)	 AG	8600-8709	GT	AGG
(GAA)	 AG	8800-9208	TG	GAT
-recovered pasa_asmbl_53443.p1, terminal, 5926, 6013
-recovered pasa_asmbl_53443.p1, terminal, 8800, 9208
-recovered pasa_asmbl_53443.p1, internal, 5631, 5816
-recovered pasa_asmbl_53443.p1, internal, 5926, 6013
-recovered pasa_asmbl_53443.p1, internal, 6129, 6277
-recovered pasa_asmbl_53443.p1, internal, 6390, 6506
-recovered pasa_asmbl_53443.p1, internal, 6662, 6807
-recovered pasa_asmbl_53443.p1, internal, 6911, 6982
-recovered pasa_asmbl_53443.p1, internal, 7206, 7341
-recovered pasa_asmbl_53443.p1, internal, 7616, 7756
-recovered pasa_asmbl_53443.p1, internal, 8127, 8281
-recovered pasa_asmbl_53443.p1, internal, 8390, 8486
-recovered pasa_asmbl_53443.p1, internal, 8600, 8709
Valid prediction for snap_scaffold_8-snap.2958-T1
Valid prediction for Augustus_model.g14032.t1
Valid prediction for snap_scaffold_8-snap.2991-T1
Valid prediction for Augustus_model.g14030.t1
Valid prediction for Augustus_model.g14025.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 HiQ_model.g14035.t1
Valid prediction for snap_scaffold_8-snap.2981-T1
Valid prediction for snap_scaffold_8-snap.2980-T1
Valid prediction for GlimmerHMM_glimmerT_21093-T1
Valid prediction for GlimmerHMM_glimmerT_21103-T1
Valid prediction for CodingQuarry_transcript_59925-T1
Valid prediction for Augustus_model.g14028.t1
Valid prediction for snap_scaffold_8-snap.2959-T1
Valid prediction for snap_scaffold_8-snap.2985-T1
Valid prediction for snap_scaffold_8-snap.2994-T1
Valid prediction for GlimmerHMM_glimmerT_21088-T1
Valid prediction for snap_scaffold_8-snap.2977-T1
Valid prediction for Augustus_model.g14043.t1
Valid prediction for snap_scaffold_8-snap.2974-T1
Valid prediction for GlimmerHMM_glimmerT_21105-T1
Valid prediction for GlimmerHMM_glimmerT_21090-T1
Valid prediction for GlimmerHMM_glimmerT_21098-T1
Valid prediction for GlimmerHMM_glimmerT_21100-T1
Valid prediction for snap_scaffold_8-snap.2955-T1
Valid prediction for CodingQuarry_transcript_59924-T1
Valid prediction for Augustus_model.g14026.t1
Couldn't classify 76744, 76886
Sorry, prediction pasa_asmbl_52399.p1 fails validation.
(ATG)	 GT	74768-74770	GT	TGG
(GAT)	 AG	75770-75904	GT	GGG
(TTT)	 AG	76211-76257	GT	GAG
(TAT)	 AG	76517-76578	GT	AAG
(GCT)	 AG	76744-76886	CA	ACC
-recovered pasa_asmbl_52399.p1, initial, 74768, 74770
-recovered pasa_asmbl_52399.p1, internal, 75770, 75904
-recovered pasa_asmbl_52399.p1, internal, 76211, 76257
-recovered pasa_asmbl_52399.p1, internal, 76517, 76578
Couldn't classify 212117, 212302
Couldn't classify 215560, 215646
Sorry, prediction pasa_asmbl_52584.p1 fails validation.
(GTG)	 AG	212117-212302	GT	AGG
(GAC)	 AG	213450-213587	GT	TGG
(CTG)	 AG	215560-215646	AC	TGA
-recovered pasa_asmbl_52584.p1, internal, 212117, 212302
-recovered pasa_asmbl_52584.p1, internal, 213450, 213587
Valid prediction for snap_scaffold_8-snap.2979-T1
Valid prediction for snap_scaffold_8-snap.2966-T1
Valid prediction for snap_scaffold_8-snap.2976-T1
Valid prediction for snap_scaffold_8-snap.2982-T1
Valid prediction for snap_scaffold_8-snap.2965-T1
Valid prediction for GlimmerHMM_glimmerT_21108-T1
Valid prediction for HiQ_model.g14044.t1
Valid prediction for snap_scaffold_8-snap.2990-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for HiQ_model.g14024.t1
Valid prediction for snap_scaffold_8-snap.2962-T1
Valid prediction for snap_scaffold_8-snap.2993-T1
Valid prediction for snap_scaffold_8-snap.2961-T1
Valid prediction for GlimmerHMM_glimmerT_21089-T1
Valid prediction for Augustus_model.g14037.t1
Valid prediction for snap_scaffold_8-snap.2975-T1
Valid prediction for snap_scaffold_8-snap.2971-T1
Valid prediction for snap_scaffold_8-snap.2987-T1
Valid prediction for snap_scaffold_8-snap.2995-T1
Valid prediction for pasa_asmbl_52381.p1
Valid prediction for CodingQuarry_transcript_59921-T1
Valid prediction for snap_scaffold_8-snap.2969-T1
Valid prediction for Augustus_model.g14027.t1
Valid prediction for GlimmerHMM_glimmerT_21110-T1
Valid prediction for GlimmerHMM_glimmerT_21091-T1
Valid prediction for Augustus_model.g14040.t1
Valid prediction for GlimmerHMM_glimmerT_21092-T1
Couldn't classify 416, 623
Sorry, prediction pasa_asmbl_52411.p1 fails validation.
(TGC)	 AG	416-623	GT	CAG
(GTA)	 AG	1135-1251	GT	AGG
(GGC)	 AG	3344-3445	GT	AGG
(GCT)	 AG	5446-5601	GT	AGG
(GTG)	 AG	5837-5937	GT	ATG
(GAC)	 AG	6449-6706	GT	AAG
(CCT)	 AG	6848-6963	GT	AGG
(GGA)	 AG	7065-7191	GT	AGG
(GTG)	 AG	7357-7447	GT	AGG
(AGT)	 AG	8531-8678	GT	ATG
(AGA)	 AG	9590-9789	GT	AGG
(ATT)	 AG	10663-10766	GT	AGG
(GAT)	 AG	11011-11079	GT	AGG
(GCC)	 AG	11186-11320	GT	AGG
(TGT)	 AG	11651-11770	GT	AGG
(GGT)	 AG	12079-12486	GT	AGG
(AAG)	 AG	13285-13392	GT	AGG
(GCC)	 AG	14244-14411	GT	AGG
(TCA)	 AG	14576-14659	GT	TGG
(AGG)	 AG	15596-15730	GT	CGG
(GGT)	 AG	16146-16323	GT	GGG
(GCA)	 AG	16413-16489	GT	CGG
(AGT)	 AG	16576-16669	GT	AGG
(CTT)	 AG	18594-18652	AG	GAA
-recovered pasa_asmbl_52411.p1, terminal, 18594, 18652
-recovered pasa_asmbl_52411.p1, internal, 416, 623
-recovered pasa_asmbl_52411.p1, internal, 1135, 1251
-recovered pasa_asmbl_52411.p1, internal, 3344, 3445
-recovered pasa_asmbl_52411.p1, internal, 5446, 5601
-recovered pasa_asmbl_52411.p1, internal, 5837, 5937
-recovered pasa_asmbl_52411.p1, internal, 6449, 6706
-recovered pasa_asmbl_52411.p1, internal, 6848, 6963
-recovered pasa_asmbl_52411.p1, internal, 7065, 7191
-recovered pasa_asmbl_52411.p1, internal, 7357, 7447
-recovered pasa_asmbl_52411.p1, internal, 8531, 8678
-recovered pasa_asmbl_52411.p1, internal, 9590, 9789
-recovered pasa_asmbl_52411.p1, internal, 10663, 10766
-recovered pasa_asmbl_52411.p1, internal, 11011, 11079
-recovered pasa_asmbl_52411.p1, internal, 11186, 11320
-recovered pasa_asmbl_52411.p1, internal, 11651, 11770
-recovered pasa_asmbl_52411.p1, internal, 12079, 12486
-recovered pasa_asmbl_52411.p1, internal, 13285, 13392
-recovered pasa_asmbl_52411.p1, internal, 14244, 14411
-recovered pasa_asmbl_52411.p1, internal, 14576, 14659
-recovered pasa_asmbl_52411.p1, internal, 15596, 15730
-recovered pasa_asmbl_52411.p1, internal, 16146, 16323
-recovered pasa_asmbl_52411.p1, internal, 16413, 16489
-recovered pasa_asmbl_52411.p1, internal, 16576, 16669
Valid prediction for snap_scaffold_8-snap.2988-T1
Valid prediction for GlimmerHMM_glimmerT_21102-T1
Valid prediction for snap_scaffold_8-snap.2984-T1
Valid prediction for Augustus_model.g14038.t1
Valid prediction for GlimmerHMM_glimmerT_21087-T1
Valid prediction for snap_scaffold_8-snap.2972-T1
Valid prediction for Augustus_model.g14029.t1
Valid prediction for Augustus_model.g14036.t1
Valid prediction for pasa_asmbl_52400.p1
Valid prediction for Augustus_model.g14031.t1
Valid prediction for CodingQuarry_transcript_59923-T1
Valid prediction for GlimmerHMM_glimmerT_21107-T1
Valid prediction for snap_scaffold_8-snap.2960-T1
Valid prediction for GlimmerHMM_glimmerT_21099-T1
Couldn't classify 13285, 13392
Sorry, prediction pasa_asmbl_52419.p1 fails validation.
(AAG)	 AG	13285-13392	GT	AGG
(TCA)	 AG	14576-14659	GT	TGG
(TGC)	 AG	14889-14981	GT	AGG
(AGG)	 AG	15596-15730	GT	CGG
(GGT)	 AG	16146-16323	GT	GGG
(GCA)	 AG	16413-16489	GT	CGG
(AGT)	 AG	16576-16669	GT	AGG
(CTT)	 AG	18594-18652	AG	GAA
-recovered pasa_asmbl_52419.p1, terminal, 18594, 18652
-recovered pasa_asmbl_52419.p1, internal, 13285, 13392
-recovered pasa_asmbl_52419.p1, internal, 14576, 14659
-recovered pasa_asmbl_52419.p1, internal, 14889, 14981
-recovered pasa_asmbl_52419.p1, internal, 15596, 15730
-recovered pasa_asmbl_52419.p1, internal, 16146, 16323
-recovered pasa_asmbl_52419.p1, internal, 16413, 16489
-recovered pasa_asmbl_52419.p1, internal, 16576, 16669
Valid prediction for snap_scaffold_8-snap.2964-T1
Valid prediction for Augustus_model.g14039.t1
Valid prediction for snap_scaffold_8-snap.2957-T1
Valid prediction for snap_scaffold_8-snap.2992-T1
Valid prediction for pasa_asmbl_52392.p1
Valid prediction for GlimmerHMM_glimmerT_21094-T1
Valid prediction for snap_scaffold_8-snap.2967-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 45657, rend_intergenic: 43350  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48597, rend_intergenic: 46867  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202168, rend_intergenic: 197452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 250682, rend_intergenic: 247104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 255781
-exon list size: 422


building trellis

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11.1    
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11.6    
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12.3    
12.5    
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15.6    
15.8    
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17.0    
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17.9    
18.2    
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18.6    
18.9    
19.1    
19.3    
19.6    
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20.0    
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20.5    
20.8    
21.0    
21.2    
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21.9    
22.2    
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22.6    
22.9    
23.1    
23.3    
23.6    
23.8    
24.1    
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24.5    
24.8    
25.0    
25.2    
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25.7    
25.9    
26.2    
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27.1    
27.4    
27.6    
27.8    
28.1    
28.3    
28.5    
28.8    
29.0    
29.2    
29.5    
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30.0    
30.2    
30.4    
30.7    
30.9    
31.1    
31.4    
31.6    
31.8    
32.1    
32.3    
32.5    
32.8    
33.0    
33.3    
33.5    
33.7    
34.0    
34.2    
34.4    
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34.9    
35.1    
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35.6    
35.8    
36.1    
36.3    
36.6    
36.8    
37.0    
37.3    
37.5    
37.7    
38.0    
38.2    
38.4    
38.7    
38.9    
39.2    
39.4    
39.6    
39.9    
40.1    
40.3    
40.6    
40.8    
41.0    
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41.5    
41.7    
42.0    
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42.5    
42.7    
42.9    
43.2    
43.4    
43.6    
43.9    
44.1    
44.3    
44.6    
44.8    
45.0    
45.3    
45.5    
45.8    
46.0    
46.2    
46.5    
46.7    
46.9    
47.2    
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47.6    
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48.6    
48.8    
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49.3    
49.5    
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50.0    
50.2    
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50.9    
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51.4    
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52.4    
52.6    
52.8    
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53.3    
53.5    
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56.1    
56.4    
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58.7    
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59.9    
60.1    
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60.6    
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61.6    
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65.8    
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66.7    
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68.6    
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69.6    
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70.0    
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75.9    
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76.9    
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77.6    
77.8    
78.1    
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78.8    
79.0    
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80.0    
80.2    
80.4    
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81.1    
81.4    
81.6    
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88.0    
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88.9    
89.2    
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89.6    
89.9    
90.1    
90.3    
90.6    
90.8    
91.0    
91.3    
91.5    
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92.0    
92.2    
92.5    
92.7    
92.9    
93.2    
93.4    
93.6    
93.9    
94.1    
94.3    
94.6    
94.8    
95.0    
95.3    
95.5    
95.8    
96.0    
96.2    
96.5    
96.7    
96.9    
97.2    
97.4    
97.6    
97.9    
98.1    
98.3    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 45657, rend_intergenic: 43350  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48597, rend_intergenic: 46867  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202168, rend_intergenic: 197452  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 250682, rend_intergenic: 247104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 26 predictions persist after filtering for low support