-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_8874332-9152481

-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_49975-T1
Valid prediction for snap_scaffold_22-snap.1834-T1
Couldn't classify 265894, 265975
Sorry, prediction pasa_asmbl_30293.p1 fails validation.
(GCT)	 CA	265894-265975	GT	AGG
(ATA)	 AG	266460-266510	GT	AGG
(GTG)	 AG	267648-267719	GT	AGG
(GTG)	 AG	268106-268153	GT	TAG
(ACA)	 AG	268633-268752	GT	GCG
(AGA)	 AG	269297-269362	GT	AGG
(TCC)	 AG	271080-271141	CC	AAC
-recovered pasa_asmbl_30293.p1, terminal, 271080, 271141
-recovered pasa_asmbl_30293.p1, internal, 266460, 266510
-recovered pasa_asmbl_30293.p1, internal, 267648, 267719
-recovered pasa_asmbl_30293.p1, internal, 268106, 268153
-recovered pasa_asmbl_30293.p1, internal, 268633, 268752
-recovered pasa_asmbl_30293.p1, internal, 269297, 269362
Valid prediction for snap_scaffold_22-snap.1841-T1
Valid prediction for Augustus_model.g33340.t1
Valid prediction for Augustus_model.g33341.t1
Valid prediction for snap_scaffold_22-snap.1843-T1
Valid prediction for snap_scaffold_22-snap.1839-T1
Valid prediction for snap_scaffold_22-snap.1850-T1
Valid prediction for snap_scaffold_22-snap.1823-T1
Valid prediction for Augustus_model.g33329.t1
Valid prediction for GlimmerHMM_glimmerT_49991-T1
Valid prediction for GlimmerHMM_glimmerT_49990-T1
Valid prediction for snap_scaffold_22-snap.1853-T1
Valid prediction for GlimmerHMM_glimmerT_49965-T1
Valid prediction for snap_scaffold_22-snap.1837-T1
Valid prediction for snap_scaffold_22-snap.1816-T1
Valid prediction for Augustus_model.g33328.t1
Valid prediction for snap_scaffold_22-snap.1845-T1
Valid prediction for GlimmerHMM_glimmerT_49974-T1
Valid prediction for snap_scaffold_22-snap.1828-T1
Valid prediction for Augustus_model.g33343.t1
Valid prediction for GlimmerHMM_glimmerT_49968-T1
Valid prediction for snap_scaffold_22-snap.1831-T1
Valid prediction for GlimmerHMM_glimmerT_49970-T1
Valid prediction for GlimmerHMM_glimmerT_49966-T1
Valid prediction for GlimmerHMM_glimmerT_49987-T1
Valid prediction for Augustus_model.g33327.t1
Valid prediction for GlimmerHMM_glimmerT_49967-T1
Valid prediction for snap_scaffold_22-snap.1819-T1
Valid prediction for snap_scaffold_22-snap.1847-T1
Valid prediction for snap_scaffold_22-snap.1838-T1
Valid prediction for snap_scaffold_22-snap.1840-T1
Valid prediction for GlimmerHMM_glimmerT_49971-T1
Valid prediction for snap_scaffold_22-snap.1822-T1
Valid prediction for GlimmerHMM_glimmerT_49980-T1
Valid prediction for snap_scaffold_22-snap.1825-T1
Valid prediction for Augustus_model.g33336.t1
Valid prediction for GlimmerHMM_glimmerT_49983-T1
Valid prediction for snap_scaffold_22-snap.1856-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_22-snap.1827-T1
Valid prediction for snap_scaffold_22-snap.1855-T1
Valid prediction for Augustus_model.g33342.t1
Valid prediction for GlimmerHMM_glimmerT_49969-T1
Valid prediction for Augustus_model.g33333.t1
Couldn't classify 66212, 66310
Sorry, prediction pasa_asmbl_29711.p1 fails validation.
(GAG)	 AG	66212-66310	GT	GGG
(GCT)	 AG	66682-66820	GT	CAG
(ACA)	 AG	67580-67659	TG	AAT
-recovered pasa_asmbl_29711.p1, terminal, 67580, 67659
-recovered pasa_asmbl_29711.p1, internal, 66212, 66310
-recovered pasa_asmbl_29711.p1, internal, 66682, 66820
Valid prediction for snap_scaffold_22-snap.1842-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_49964-T1
Valid prediction for GlimmerHMM_glimmerT_49988-T1
Valid prediction for Augustus_model.g33337.t1
Valid prediction for HiQ_model.g33339.t1
Valid prediction for snap_scaffold_22-snap.1848-T1
Valid prediction for snap_scaffold_22-snap.1835-T1
Valid prediction for GlimmerHMM_glimmerT_49973-T1
Valid prediction for HiQ_model.g33338.t1
Valid prediction for snap_scaffold_22-snap.1846-T1
Valid prediction for Augustus_model.g33330.t1
Valid prediction for GlimmerHMM_glimmerT_49962-T1
Valid prediction for GlimmerHMM_glimmerT_49981-T1
Valid prediction for Augustus_model.g33334.t1
Valid prediction for snap_scaffold_22-snap.1854-T1
Valid prediction for Augustus_model.g33332.t1
Valid prediction for snap_scaffold_22-snap.1818-T1
Valid prediction for GlimmerHMM_glimmerT_49978-T1
Valid prediction for snap_scaffold_22-snap.1826-T1
Valid prediction for GlimmerHMM_glimmerT_49963-T1
Valid prediction for snap_scaffold_22-snap.1815-T1
Valid prediction for GlimmerHMM_glimmerT_49984-T1
Valid prediction for GlimmerHMM_glimmerT_49986-T1
Valid prediction for Augustus_model.g33335.t1
Valid prediction for snap_scaffold_22-snap.1817-T1
Couldn't classify 110893, 110970
Couldn't classify 115091, 115214
Sorry, prediction pasa_asmbl_29511.p1 fails validation.
(TGT)	 AG	110893-110970	GT	AGG
(CAA)	 AG	112095-112136	GT	AGG
(GCT)	 AG	114649-114734	GT	AGG
(GGC)	 AG	115091-115214	GT	AGG
-recovered pasa_asmbl_29511.p1, internal, 110893, 110970
-recovered pasa_asmbl_29511.p1, internal, 112095, 112136
-recovered pasa_asmbl_29511.p1, internal, 114649, 114734
-recovered pasa_asmbl_29511.p1, internal, 115091, 115214
Valid prediction for snap_scaffold_22-snap.1849-T1
Valid prediction for snap_scaffold_22-snap.1832-T1
Valid prediction for snap_scaffold_22-snap.1830-T1
Valid prediction for snap_scaffold_22-snap.1836-T1
Valid prediction for Augustus_model.g33331.t1
Valid prediction for GlimmerHMM_glimmerT_49985-T1
Valid prediction for GlimmerHMM_glimmerT_49976-T1
Valid prediction for snap_scaffold_22-snap.1844-T1
Valid prediction for GlimmerHMM_glimmerT_49989-T1
Valid prediction for snap_scaffold_22-snap.1824-T1
Valid prediction for GlimmerHMM_glimmerT_49979-T1
Valid prediction for snap_scaffold_22-snap.1820-T1
Valid prediction for snap_scaffold_22-snap.1821-T1
Valid prediction for GlimmerHMM_glimmerT_49982-T1
Valid prediction for snap_scaffold_22-snap.1851-T1
Valid prediction for GlimmerHMM_glimmerT_49977-T1
Valid prediction for snap_scaffold_22-snap.1852-T1
Valid prediction for GlimmerHMM_glimmerT_49972-T1
Valid prediction for Augustus_model.g33326.t1
Valid prediction for snap_scaffold_22-snap.1833-T1
Valid prediction for GlimmerHMM_glimmerT_49961-T1
Valid prediction for snap_scaffold_22-snap.1857-T1
Valid prediction for snap_scaffold_22-snap.1829-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14311, rend_intergenic: 13714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23940, rend_intergenic: 14637  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28145, rend_intergenic: 24580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32211, rend_intergenic: 28279  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68389, rend_intergenic: 32441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69636, rend_intergenic: 68933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78770, rend_intergenic: 69806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79516, rend_intergenic: 79091  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90832, rend_intergenic: 85300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98272, rend_intergenic: 91383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113489, rend_intergenic: 111885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141733, rend_intergenic: 131114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166931, rend_intergenic: 143246  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188068, rend_intergenic: 167303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200003, rend_intergenic: 195251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208402, rend_intergenic: 205958  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224288, rend_intergenic: 221213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 244590, rend_intergenic: 232739  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251999, rend_intergenic: 247096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 268769, rend_intergenic: 259289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 269312, rend_intergenic: 268790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 278150
-exon list size: 357


building trellis

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11.7    
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27.6    
27.9    
28.1    
28.4    
28.7    
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29.2    
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30.1    
30.4    
30.6    
30.9    
31.2    
31.5    
31.8    
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32.6    
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33.4    
33.7    
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34.8    
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35.4    
35.7    
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36.2    
36.5    
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39.6    
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40.9    
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41.8    
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42.6    
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88.3    
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88.9    
89.1    
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90.3    
90.5    
90.8    
91.1    
91.4    
91.6    
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92.2    
92.5    
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93.0    
93.3    
93.6    
93.9    
94.2    
94.4    
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95.0    
95.3    
95.5    
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96.1    
96.4    
96.7    
96.9    
97.2    
97.5    
97.8    
98.1    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 14311, rend_intergenic: 13714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23940, rend_intergenic: 14637  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28145, rend_intergenic: 24580  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32211, rend_intergenic: 28279  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68389, rend_intergenic: 32441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69636, rend_intergenic: 68933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78770, rend_intergenic: 69806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79516, rend_intergenic: 79091  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90832, rend_intergenic: 85300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98272, rend_intergenic: 91383  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113489, rend_intergenic: 111885  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141733, rend_intergenic: 131114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166931, rend_intergenic: 143246  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188068, rend_intergenic: 167303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200003, rend_intergenic: 195251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208402, rend_intergenic: 205958  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 224288, rend_intergenic: 221213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 244590, rend_intergenic: 232739  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251999, rend_intergenic: 247096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 268769, rend_intergenic: 259289  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 269312, rend_intergenic: 268790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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