-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_6055627-6297091

-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_17-snap.1245-T1
Valid prediction for CodingQuarry_transcript_21998-T1
Valid prediction for snap_scaffold_17-snap.1266-T1
Valid prediction for Augustus_model.g26924.t1
Couldn't classify 168704, 168878
Couldn't classify 171779, 171900
Sorry, prediction pasa_asmbl_19444.p1 fails validation.
(GAG)	 CC	168704-168878	GT	GGG
(GGA)	 AG	171779-171900	CT	TGC
Valid prediction for Augustus_model.g26929.t1
Valid prediction for snap_scaffold_17-snap.1247-T1
Valid prediction for Augustus_model.g26925.t1
Valid prediction for Augustus_model.g26906.t1
Valid prediction for snap_scaffold_17-snap.1233-T1
Valid prediction for snap_scaffold_17-snap.1257-T1
Valid prediction for GlimmerHMM_glimmerT_40402-T1
Valid prediction for snap_scaffold_17-snap.1264-T1
Valid prediction for GlimmerHMM_glimmerT_40403-T1
Valid prediction for snap_scaffold_17-snap.1259-T1
Valid prediction for snap_scaffold_17-snap.1246-T1
Valid prediction for snap_scaffold_17-snap.1223-T1
Valid prediction for HiQ_model.g26918.t1
Valid prediction for snap_scaffold_17-snap.1263-T1
Valid prediction for pasa_asmbl_18840.p1
Valid prediction for Augustus_model.g26919.t1
Valid prediction for GlimmerHMM_glimmerT_40401-T1
Valid prediction for GlimmerHMM_glimmerT_40397-T1
Valid prediction for snap_scaffold_17-snap.1243-T1
Valid prediction for GlimmerHMM_glimmerT_40410-T1
Valid prediction for GlimmerHMM_glimmerT_40395-T1
Valid prediction for snap_scaffold_17-snap.1273-T1
Valid prediction for snap_scaffold_17-snap.1250-T1
Valid prediction for GlimmerHMM_glimmerT_40407-T1
Valid prediction for HiQ_model.g26912.t1
Valid prediction for GlimmerHMM_glimmerT_40406-T1
Valid prediction for snap_scaffold_17-snap.1256-T1
Valid prediction for Augustus_model.g26922.t1
Valid prediction for GlimmerHMM_glimmerT_40392-T1
Valid prediction for Augustus_model.g26917.t1
Couldn't classify 162325, 162716
Couldn't classify 164487, 164572
Sorry, prediction pasa_asmbl_18844.p1 fails validation.
(AAC)	 AG	162325-162716	GT	AGG
(GCA)	 AG	164160-164305	GT	GGG
(CTG)	 AG	164487-164572	AT	GCA
-recovered pasa_asmbl_18844.p1, internal, 162325, 162716
-recovered pasa_asmbl_18844.p1, internal, 164160, 164305
Valid prediction for Augustus_model.g26928.t1
Valid prediction for snap_scaffold_17-snap.1270-T1
Valid prediction for Augustus_model.g26926.t1
Couldn't classify 189476, 189518
Couldn't classify 192187, 192307
Sorry, prediction pasa_asmbl_18845.p2 fails validation.
(CTG)	 CC	189476-189518	GT	TGG
(GGT)	 AG	190174-190306	GT	CGG
(GTC)	 AG	192187-192307	AT	ACA
-recovered pasa_asmbl_18845.p2, internal, 190174, 190306
Valid prediction for Augustus_model.g26920.t1
Couldn't classify 157583, 157696
Sorry, prediction pasa_asmbl_18842.p1 fails validation.
(GCG)	 GG	157583-157696	GT	AGG
(GTG)	 AG	158789-158956	GT	GGG
(AAC)	 AG	159116-159181	AC	GAA
-recovered pasa_asmbl_18842.p1, terminal, 159116, 159181
-recovered pasa_asmbl_18842.p1, internal, 158789, 158956
Valid prediction for HiQ_model.g26910.t1
Valid prediction for GlimmerHMM_glimmerT_40404-T1
Couldn't classify 154220, 155059
Sorry, prediction pasa_asmbl_18841.p1 fails validation.
(GTC)	 CA	154220-155059	AT	AAA
Valid prediction for Augustus_model.g26923.t1
Valid prediction for snap_scaffold_17-snap.1271-T1
Valid prediction for snap_scaffold_17-snap.1252-T1
Valid prediction for snap_scaffold_17-snap.1237-T1
Valid prediction for snap_scaffold_17-snap.1262-T1
Valid prediction for snap_scaffold_17-snap.1222-T1
Valid prediction for snap_scaffold_17-snap.1260-T1
Valid prediction for snap_scaffold_17-snap.1235-T1
Valid prediction for snap_scaffold_17-snap.1268-T1
Valid prediction for GlimmerHMM_glimmerT_40405-T1
Valid prediction for Augustus_model.g26914.t1
Valid prediction for snap_scaffold_17-snap.1255-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_17-snap.1253-T1
Valid prediction for GlimmerHMM_glimmerT_40391-T1
Valid prediction for GlimmerHMM_glimmerT_40399-T1
Valid prediction for snap_scaffold_17-snap.1272-T1
Valid prediction for GlimmerHMM_glimmerT_40393-T1
Valid prediction for Augustus_model.g26900.t1
Valid prediction for snap_scaffold_17-snap.1261-T1
Valid prediction for Augustus_model.g26905.t1
Couldn't classify 217047, 217466
Sorry, prediction pasa_asmbl_17957.p1 fails validation.
(CGC)	 TC	217047-217466	GC	GAG
Valid prediction for Augustus_model.g26927.t1
Valid prediction for snap_scaffold_17-snap.1230-T1
Valid prediction for snap_scaffold_17-snap.1249-T1
Couldn't classify 195416, 195467
Couldn't classify 195601, 195703
Sorry, prediction pasa_asmbl_17960.p1 fails validation.
(ATG)	 GT	192720-192979	GT	GAG
(CTG)	 AG	193303-193463	GT	TGG
(ATA)	 AG	194384-194536	GT	GGG
(AGC)	 AG	195095-195232	GT	GCG
(GGT)	 AG	195416-195467	AT	AGA
(TGC)	 AC	195601-195703	GT	ATG
(ATC)	 AG	195805-195917	GT	AGG
(TTT)	 AG	196134-196245	GG	GAG
-recovered pasa_asmbl_17960.p1, initial, 192720, 192979
-recovered pasa_asmbl_17960.p1, terminal, 196134, 196245
-recovered pasa_asmbl_17960.p1, internal, 193303, 193463
-recovered pasa_asmbl_17960.p1, internal, 194384, 194536
-recovered pasa_asmbl_17960.p1, internal, 195095, 195232
-recovered pasa_asmbl_17960.p1, internal, 195805, 195917
Valid prediction for Augustus_model.g26899.t1
Valid prediction for Augustus_model.g26913.t1
Valid prediction for snap_scaffold_17-snap.1232-T1
Valid prediction for snap_scaffold_17-snap.1239-T1
Valid prediction for snap_scaffold_17-snap.1240-T1
Valid prediction for GlimmerHMM_glimmerT_40411-T1
Couldn't classify 180459, 180596
Couldn't classify 180729, 181700
Sorry, prediction pasa_asmbl_17962.p1 fails validation.
(CCC)	 CC	180459-180596	GT	AGG
(CTT)	 AG	180729-181700	GA	ACG
Valid prediction for GlimmerHMM_glimmerT_40387-T1
Valid prediction for snap_scaffold_17-snap.1227-T1
Valid prediction for Augustus_model.g26907.t1
Valid prediction for Augustus_model.g26908.t1
Valid prediction for snap_scaffold_17-snap.1231-T1
Valid prediction for snap_scaffold_17-snap.1258-T1
Valid prediction for snap_scaffold_17-snap.1244-T1
Couldn't classify 177991, 178091
Sorry, prediction pasa_asmbl_17964.p1 fails validation.
(ATG)	 GC	175096-175204	GT	TGG
(GCA)	 AG	175331-175431	GT	AGG
(AAG)	 AG	175528-175737	GT	AGG
(GTG)	 AG	175953-176157	GT	AGG
(CTG)	 AG	177991-178091	CA	CCC
-recovered pasa_asmbl_17964.p1, initial, 175096, 175204
-recovered pasa_asmbl_17964.p1, internal, 175331, 175431
-recovered pasa_asmbl_17964.p1, internal, 175528, 175737
-recovered pasa_asmbl_17964.p1, internal, 175953, 176157
Valid prediction for HiQ_model.g26911.t1
Valid prediction for snap_scaffold_17-snap.1238-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for CodingQuarry_transcript_21999-T1
Valid prediction for snap_scaffold_17-snap.1228-T1
Valid prediction for Augustus_model.g26921.t1
Valid prediction for GlimmerHMM_glimmerT_40398-T1
Valid prediction for GlimmerHMM_glimmerT_40394-T1
Valid prediction for GlimmerHMM_glimmerT_40389-T1
Valid prediction for snap_scaffold_17-snap.1241-T1
Valid prediction for Augustus_model.g26903.t1
Couldn't classify 195416, 195467
Couldn't classify 195601, 195703
Sorry, prediction CodingQuarry_transcript_21995-T1 fails validation.
(ATG)	 CC	192732-192979	GT	GAG
(CTG)	 AG	193303-193463	GT	TGG
(ATA)	 AG	194384-194536	GT	GGG
(AGC)	 AG	195095-195232	GT	GCG
(GGT)	 AG	195416-195467	AT	AGA
(TGC)	 AC	195601-195703	GT	ATG
(ATC)	 AG	195805-195917	GT	AGG
(TTT)	 AG	196134-196245	GG	GAG
-recovered CodingQuarry_transcript_21995-T1, initial, 192732, 192979
-recovered CodingQuarry_transcript_21995-T1, terminal, 196134, 196245
-recovered CodingQuarry_transcript_21995-T1, internal, 193303, 193463
-recovered CodingQuarry_transcript_21995-T1, internal, 194384, 194536
-recovered CodingQuarry_transcript_21995-T1, internal, 195095, 195232
-recovered CodingQuarry_transcript_21995-T1, internal, 195805, 195917
Valid prediction for HiQ_model.g26916.t1
Valid prediction for Augustus_model.g26902.t1
Valid prediction for snap_scaffold_17-snap.1226-T1
Valid prediction for GlimmerHMM_glimmerT_40408-T1
Valid prediction for CodingQuarry_transcript_21996-T1
Valid prediction for snap_scaffold_17-snap.1265-T1
Valid prediction for snap_scaffold_17-snap.1234-T1
Valid prediction for Augustus_model.g26909.t1
Valid prediction for GlimmerHMM_glimmerT_40390-T1
Valid prediction for snap_scaffold_17-snap.1236-T1
Valid prediction for Augustus_model.g26898.t1
Valid prediction for snap_scaffold_17-snap.1269-T1
Valid prediction for snap_scaffold_17-snap.1242-T1
Valid prediction for CodingQuarry_transcript_21997-T1
Valid prediction for Augustus_model.g26901.t1
Valid prediction for GlimmerHMM_glimmerT_40396-T1
Valid prediction for Augustus_model.g26915.t1
Valid prediction for GlimmerHMM_glimmerT_40400-T1
Valid prediction for snap_scaffold_17-snap.1251-T1
Valid prediction for snap_scaffold_17-snap.1224-T1
Valid prediction for snap_scaffold_17-snap.1254-T1
Valid prediction for GlimmerHMM_glimmerT_40388-T1
Valid prediction for Augustus_model.g26904.t1
Valid prediction for pasa_asmbl_17969.p1
Valid prediction for snap_scaffold_17-snap.1248-T1
Valid prediction for pasa_asmbl_17961.p1
Valid prediction for pasa_asmbl_17974.p1
Valid prediction for snap_scaffold_17-snap.1229-T1
Valid prediction for GlimmerHMM_glimmerT_40409-T1
Valid prediction for snap_scaffold_17-snap.1267-T1
Valid prediction for snap_scaffold_17-snap.1225-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12282, rend_intergenic: 11364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68081, rend_intergenic: 68080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72404, rend_intergenic: 68613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73722, rend_intergenic: 72764  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75443, rend_intergenic: 73885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83059, rend_intergenic: 77229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113969, rend_intergenic: 110251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121177, rend_intergenic: 120160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173985, rend_intergenic: 168635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207152, rend_intergenic: 203749  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214827, rend_intergenic: 210580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223955, rend_intergenic: 215932  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 241465
-exon list size: 420


building trellis

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19.2    
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20.1    
20.4    
20.6    
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21.6    
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22.7    
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23.2    
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23.9    
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24.6    
24.9    
25.1    
25.4    
25.6    
25.8    
26.1    
26.3    
26.5    
26.8    
27.0    
27.3    
27.5    
27.7    
28.0    
28.2    
28.4    
28.7    
28.9    
29.1    
29.4    
29.6    
29.9    
30.1    
30.3    
30.6    
30.8    
31.0    
31.3    
31.5    
31.8    
32.0    
32.2    
32.5    
32.7    
32.9    
33.2    
33.4    
33.6    
33.9    
34.1    
34.4    
34.6    
34.8    
35.1    
35.3    
35.5    
35.8    
36.0    
36.3    
36.5    
36.7    
37.0    
37.2    
37.4    
37.7    
37.9    
38.2    
38.4    
38.6    
38.9    
39.1    
39.3    
39.6    
39.8    
40.0    
40.3    
40.5    
40.8    
41.0    
41.2    
41.5    
41.7    
41.9    
42.2    
42.4    
42.7    
42.9    
43.1    
43.4    
43.6    
43.8    
44.1    
44.3    
44.5    
44.8    
45.0    
45.3    
45.5    
45.7    
46.0    
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46.4    
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46.9    
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47.9    
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69.0    
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71.1    
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75.4    
75.6    
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76.8    
77.0    
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77.5    
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78.0    
78.2    
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78.9    
79.1    
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84.4    
84.6    
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87.0    
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87.4    
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87.9    
88.2    
88.4    
88.6    
88.9    
89.1    
89.3    
89.6    
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90.0    
90.3    
90.5    
90.8    
91.0    
91.2    
91.5    
91.7    
91.9    
92.2    
92.4    
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92.9    
93.1    
93.4    
93.6    
93.8    
94.1    
94.3    
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95.3    
95.5    
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96.4    
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 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 12282, rend_intergenic: 11364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68081, rend_intergenic: 68080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72404, rend_intergenic: 68613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73722, rend_intergenic: 72764  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75443, rend_intergenic: 73885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83059, rend_intergenic: 77229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113969, rend_intergenic: 110251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121177, rend_intergenic: 120160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 173985, rend_intergenic: 168635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207152, rend_intergenic: 203749  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 214827, rend_intergenic: 210580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 223955, rend_intergenic: 215932  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 32 predictions persist after filtering for low support