-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_16/scaffold_16_10985838-11185480

-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.g26063.t1
Valid prediction for Augustus_model.g26061.t1
Valid prediction for GlimmerHMM_glimmerT_39022-T1
Valid prediction for GlimmerHMM_glimmerT_39018-T1
Valid prediction for snap_scaffold_16-snap.2076-T1
Valid prediction for GlimmerHMM_glimmerT_39031-T1
Valid prediction for snap_scaffold_16-snap.2043-T1
Valid prediction for snap_scaffold_16-snap.2074-T1
Valid prediction for snap_scaffold_16-snap.2047-T1
Valid prediction for snap_scaffold_16-snap.2069-T1
Valid prediction for snap_scaffold_16-snap.2079-T1
Valid prediction for GlimmerHMM_glimmerT_39017-T1
Valid prediction for GlimmerHMM_glimmerT_39026-T1
Valid prediction for snap_scaffold_16-snap.2070-T1
Valid prediction for snap_scaffold_16-snap.2048-T1
Valid prediction for Augustus_model.g26069.t1
Valid prediction for snap_scaffold_16-snap.2064-T1
Valid prediction for snap_scaffold_16-snap.2066-T1
Valid prediction for Augustus_model.g26052.t1
Valid prediction for snap_scaffold_16-snap.2056-T1
Valid prediction for GlimmerHMM_glimmerT_39019-T1
Valid prediction for snap_scaffold_16-snap.2061-T1
Valid prediction for snap_scaffold_16-snap.2035-T1
Valid prediction for Augustus_model.g26058.t1
Valid prediction for snap_scaffold_16-snap.2051-T1
Valid prediction for snap_scaffold_16-snap.2060-T1
Valid prediction for snap_scaffold_16-snap.2054-T1
Valid prediction for snap_scaffold_16-snap.2075-T1
Valid prediction for snap_scaffold_16-snap.2072-T1
Valid prediction for GlimmerHMM_glimmerT_39021-T1
Valid prediction for snap_scaffold_16-snap.2034-T1
Valid prediction for Augustus_model.g26064.t1
Valid prediction for snap_scaffold_16-snap.2062-T1
Valid prediction for GlimmerHMM_glimmerT_39015-T1
Valid prediction for Augustus_model.g26054.t1
Valid prediction for GlimmerHMM_glimmerT_39030-T1
Valid prediction for snap_scaffold_16-snap.2037-T1
Valid prediction for snap_scaffold_16-snap.2045-T1
Valid prediction for snap_scaffold_16-snap.2077-T1
Valid prediction for GlimmerHMM_glimmerT_39013-T1
Valid prediction for snap_scaffold_16-snap.2057-T1
Valid prediction for snap_scaffold_16-snap.2042-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: -)Couldn't classify 26573, 26754
Couldn't classify 30287, 30376
Sorry, prediction pasa_asmbl_17331.p1 fails validation.
(CTC)	 GC	26573-26754	GT	AGG
(TGA)	 AG	27023-27117	GT	AGG
(GAG)	 AG	29209-29291	GT	AGG
(GTG)	 AG	30287-30376	GG	TAG
-recovered pasa_asmbl_17331.p1, internal, 27023, 27117
-recovered pasa_asmbl_17331.p1, internal, 29209, 29291
Valid prediction for Augustus_model.g26062.t1
Valid prediction for snap_scaffold_16-snap.2058-T1
Valid prediction for Augustus_model.g26053.t1
Valid prediction for GlimmerHMM_glimmerT_39027-T1
Valid prediction for snap_scaffold_16-snap.2049-T1
Valid prediction for snap_scaffold_16-snap.2065-T1
Valid prediction for Augustus_model.g26056.t1
Valid prediction for Augustus_model.g26067.t1
Valid prediction for snap_scaffold_16-snap.2071-T1
Valid prediction for snap_scaffold_16-snap.2063-T1
Valid prediction for snap_scaffold_16-snap.2040-T1
Valid prediction for Augustus_model.g26055.t1
Valid prediction for Augustus_model.g26066.t1
Valid prediction for Augustus_model.g26059.t1
Valid prediction for Augustus_model.g26071.t1
Valid prediction for Augustus_model.g26065.t1
Couldn't classify 33894, 34083
Couldn't classify 38679, 38711
Sorry, prediction pasa_asmbl_17330.p1 fails validation.
(CTT)	 GG	33894-34083	GT	AGG
(AGG)	 AG	35346-35387	GT	AGG
(ACT)	 AG	36309-36406	GT	AGG
(ACC)	 AG	36760-36897	GT	TGG
(ACC)	 AG	38679-38711	GT	AGG
-recovered pasa_asmbl_17330.p1, internal, 35346, 35387
-recovered pasa_asmbl_17330.p1, internal, 36309, 36406
-recovered pasa_asmbl_17330.p1, internal, 36760, 36897
-recovered pasa_asmbl_17330.p1, internal, 38679, 38711
Valid prediction for snap_scaffold_16-snap.2046-T1
Valid prediction for Augustus_model.g26073.t1
Valid prediction for GlimmerHMM_glimmerT_39025-T1
Valid prediction for snap_scaffold_16-snap.2039-T1
Valid prediction for GlimmerHMM_glimmerT_39024-T1
Valid prediction for snap_scaffold_16-snap.2073-T1
Couldn't classify 10302, 10433
Couldn't classify 13110, 13291
Sorry, prediction pasa_asmbl_17333.p1 fails validation.
(GTG)	 CA	10302-10433	GT	AGG
(CAA)	 AG	12054-12171	GT	AGG
(AGG)	 AG	13110-13291	AA	CCA
-recovered pasa_asmbl_17333.p1, internal, 12054, 12171
Valid prediction for snap_scaffold_16-snap.2067-T1
Valid prediction for GlimmerHMM_glimmerT_39016-T1
Valid prediction for GlimmerHMM_glimmerT_39029-T1
Valid prediction for snap_scaffold_16-snap.2055-T1
Valid prediction for GlimmerHMM_glimmerT_39028-T1
Valid prediction for GlimmerHMM_glimmerT_39020-T1
Valid prediction for snap_scaffold_16-snap.2036-T1
Couldn't classify 116584, 116626
Sorry, prediction pasa_asmbl_17327.p1 fails validation.
(TCA)	 AA	116584-116626	GT	AAG
(AGG)	 AG	116737-117233	GT	AGG
(GAT)	 AG	119396-119492	GT	GTG
(GTA)	 AG	121318-121359	GT	AGG
(GCC)	 AG	122442-122449	TG	AGT
-recovered pasa_asmbl_17327.p1, terminal, 122442, 122449
-recovered pasa_asmbl_17327.p1, internal, 116737, 117233
-recovered pasa_asmbl_17327.p1, internal, 119396, 119492
-recovered pasa_asmbl_17327.p1, internal, 121318, 121359
Valid prediction for snap_scaffold_16-snap.2041-T1
Valid prediction for GlimmerHMM_glimmerT_39032-T1
Valid prediction for snap_scaffold_16-snap.2052-T1
Valid prediction for snap_scaffold_16-snap.2053-T1
Valid prediction for GlimmerHMM_glimmerT_39023-T1
Valid prediction for Augustus_model.g26068.t1
Valid prediction for GlimmerHMM_glimmerT_39014-T1
Valid prediction for snap_scaffold_16-snap.2050-T1
Valid prediction for snap_scaffold_16-snap.2059-T1
Couldn't classify 8808, 8932
Sorry, prediction pasa_asmbl_17334.p2 fails validation.
(ATG)	 TC	2622-2631	GT	CGG
(TGT)	 AG	4013-4155	GT	TGG
(ATA)	 AG	5131-5223	GT	AGG
(ATG)	 AG	6779-6927	GT	GAG
(AAC)	 AG	7076-7161	GT	AGG
(GCA)	 AG	8808-8932	CG	GGC
-recovered pasa_asmbl_17334.p2, initial, 2622, 2631
-recovered pasa_asmbl_17334.p2, initial, 6779, 6927
-recovered pasa_asmbl_17334.p2, internal, 4013, 4155
-recovered pasa_asmbl_17334.p2, internal, 5131, 5223
-recovered pasa_asmbl_17334.p2, internal, 6779, 6927
-recovered pasa_asmbl_17334.p2, internal, 7076, 7161
Couldn't classify 190166, 190397
Couldn't classify 193417, 193460
Sorry, prediction pasa_asmbl_17325.p1 fails validation.
(GGA)	 CA	190166-190397	GT	GGG
(GCT)	 AG	191631-191870	GT	AGG
(GGT)	 AG	193417-193460	CC	TCC
-recovered pasa_asmbl_17325.p1, internal, 191631, 191870
Valid prediction for snap_scaffold_16-snap.2033-T1
Valid prediction for GlimmerHMM_glimmerT_39033-T1
Valid prediction for snap_scaffold_16-snap.2068-T1
Valid prediction for Augustus_model.g26057.t1
Valid prediction for snap_scaffold_16-snap.2044-T1
Valid prediction for snap_scaffold_16-snap.2038-T1
Valid prediction for Augustus_model.g26070.t1
Valid prediction for Augustus_model.g26060.t1
Valid prediction for Augustus_model.g26072.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10745, rend_intergenic: 4309  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12987, rend_intergenic: 11002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17515, rend_intergenic: 15841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33183, rend_intergenic: 18356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40874, rend_intergenic: 36375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48668, rend_intergenic: 45620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51113, rend_intergenic: 49490  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58892, rend_intergenic: 53810  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64217, rend_intergenic: 62390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83150, rend_intergenic: 80694  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90804, rend_intergenic: 88614  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96504, rend_intergenic: 92385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115554, rend_intergenic: 101832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132117, rend_intergenic: 117510  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145723, rend_intergenic: 142573  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152463, rend_intergenic: 146468  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159198, rend_intergenic: 155565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167915, rend_intergenic: 159586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178207, rend_intergenic: 169650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 199643
-exon list size: 399


building trellis

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-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 10745, rend_intergenic: 4309  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12987, rend_intergenic: 11002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17515, rend_intergenic: 15841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33183, rend_intergenic: 18356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40874, rend_intergenic: 36375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48668, rend_intergenic: 45620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51113, rend_intergenic: 49490  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58892, rend_intergenic: 53810  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64217, rend_intergenic: 62390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83150, rend_intergenic: 80694  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90804, rend_intergenic: 88614  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96504, rend_intergenic: 92385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115554, rend_intergenic: 101832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132117, rend_intergenic: 117510  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145723, rend_intergenic: 142573  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152463, rend_intergenic: 146468  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159198, rend_intergenic: 155565  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167915, rend_intergenic: 159586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 178207, rend_intergenic: 169650  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support