-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_14335325-14535932

-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: +)Couldn't classify 38771, 38797
Couldn't classify 42503, 42705
Sorry, prediction pasa_asmbl_12541.p2 fails validation.
(CAG)	 TC	38771-38797	GT	AGG
(TTG)	 AG	39246-39362	GT	TGG
(GAG)	 AG	42074-42176	GT	AGG
(GTC)	 AG	42503-42705	TG	GGT
-recovered pasa_asmbl_12541.p2, internal, 39246, 39362
-recovered pasa_asmbl_12541.p2, internal, 42074, 42176
Valid prediction for snap_scaffold_14-snap.2964-T1
Valid prediction for snap_scaffold_14-snap.2975-T1
Valid prediction for GlimmerHMM_glimmerT_35135-T1
Valid prediction for Augustus_model.g23485.t1
Valid prediction for snap_scaffold_14-snap.2971-T1
Valid prediction for snap_scaffold_14-snap.2968-T1
Valid prediction for pasa_asmbl_12540.p1
Valid prediction for snap_scaffold_14-snap.2982-T1
Couldn't classify 50529, 50728
Couldn't classify 52212, 52259
Sorry, prediction pasa_asmbl_12545.p1 fails validation.
(CAG)	 AC	50529-50728	GT	CGG
(TGT)	 AG	50971-51031	GT	AGG
(GCT)	 AG	52212-52259	AG	AGA
-recovered pasa_asmbl_12545.p1, internal, 50971, 51031
Valid prediction for snap_scaffold_14-snap.2976-T1
Valid prediction for snap_scaffold_14-snap.2947-T1
Valid prediction for GlimmerHMM_glimmerT_35131-T1
Valid prediction for snap_scaffold_14-snap.2957-T1
Couldn't classify 121059, 121201
Couldn't classify 121905, 122172
Sorry, prediction pasa_asmbl_12550.p1 fails validation.
(GGG)	 TG	121059-121201	GT	TGG
(GTA)	 AG	121905-122172	GG	ACG
Valid prediction for Augustus_model.g23493.t1
Valid prediction for CodingQuarry_transcript_15933-T1
Valid prediction for Augustus_model.g23491.t1
Valid prediction for GlimmerHMM_glimmerT_35128-T1
Valid prediction for snap_scaffold_14-snap.2969-T1
Valid prediction for Augustus_model.g23489.t1
Valid prediction for snap_scaffold_14-snap.2950-T1
Couldn't classify 67281, 67328
Sorry, prediction pasa_asmbl_12549.p1 fails validation.
(ATG)	 CC	62205-62219	GT	CAG
(GAG)	 AG	63996-64161	GT	GAG
(CGA)	 AG	64346-64520	GT	CGG
(GAC)	 AG	64795-64933	GT	AGG
(GAA)	 AG	65104-65207	GT	AAG
(GGC)	 AG	66050-66133	GT	AGG
(GTT)	 AG	66711-66810	GT	AGG
(GTG)	 AG	67281-67328	CA	ACC
-recovered pasa_asmbl_12549.p1, initial, 62205, 62219
-recovered pasa_asmbl_12549.p1, internal, 63996, 64161
-recovered pasa_asmbl_12549.p1, internal, 64346, 64520
-recovered pasa_asmbl_12549.p1, internal, 64795, 64933
-recovered pasa_asmbl_12549.p1, internal, 65104, 65207
-recovered pasa_asmbl_12549.p1, internal, 66050, 66133
-recovered pasa_asmbl_12549.p1, internal, 66711, 66810
Valid prediction for pasa_asmbl_12690.p1
Valid prediction for GlimmerHMM_glimmerT_35138-T1
Valid prediction for Augustus_model.g23484.t1
Valid prediction for snap_scaffold_14-snap.2978-T1
Valid prediction for GlimmerHMM_glimmerT_35121-T1
Valid prediction for Augustus_model.g23487.t1
Valid prediction for snap_scaffold_14-snap.2980-T1
Valid prediction for snap_scaffold_14-snap.2961-T1
Valid prediction for snap_scaffold_14-snap.2958-T1
Valid prediction for GlimmerHMM_glimmerT_35119-T1
Valid prediction for GlimmerHMM_glimmerT_35124-T1
Valid prediction for snap_scaffold_14-snap.2946-T1
Couldn't classify 17299, 17355
Couldn't classify 17888, 18044
Sorry, prediction pasa_asmbl_12714.p1 fails validation.
(CAG)	 AC	17299-17355	GT	ACG
(CTG)	 AG	17442-17542	GT	CGG
(GTT)	 AG	17888-18044	CC	AGC
-recovered pasa_asmbl_12714.p1, internal, 17442, 17542
Valid prediction for HiQ_model.g23486.t1
Valid prediction for GlimmerHMM_glimmerT_35122-T1
Valid prediction for snap_scaffold_14-snap.2952-T1
Valid prediction for snap_scaffold_14-snap.2949-T1
Valid prediction for snap_scaffold_14-snap.2948-T1
Valid prediction for GlimmerHMM_glimmerT_35120-T1
Couldn't classify 19707, 19777
Couldn't classify 22881, 22986
Sorry, prediction pasa_asmbl_12539.p1 fails validation.
(CCC)	 CT	19707-19777	GT	AGG
(TTT)	 AG	19895-20006	GT	AGG
(GAC)	 AG	20206-20425	GT	GGG
(TTG)	 AG	20819-21015	GT	AGG
(CGG)	 AG	21226-21348	GT	AGG
(AAA)	 AG	21777-21887	GT	AGG
(GGA)	 AG	21979-22224	GT	CGG
(GGC)	 AG	22320-22404	GT	CTG
(ATT)	 AG	22531-22565	GT	AGG
(TGT)	 AG	22676-22776	GT	GGG
(ACC)	 AG	22881-22986	CT	TGC
-recovered pasa_asmbl_12539.p1, internal, 19895, 20006
-recovered pasa_asmbl_12539.p1, internal, 20206, 20425
-recovered pasa_asmbl_12539.p1, internal, 20819, 21015
-recovered pasa_asmbl_12539.p1, internal, 21226, 21348
-recovered pasa_asmbl_12539.p1, internal, 21777, 21887
-recovered pasa_asmbl_12539.p1, internal, 21979, 22224
-recovered pasa_asmbl_12539.p1, internal, 22320, 22404
-recovered pasa_asmbl_12539.p1, internal, 22531, 22565
-recovered pasa_asmbl_12539.p1, internal, 22676, 22776
Valid prediction for snap_scaffold_14-snap.2951-T1
Valid prediction for snap_scaffold_14-snap.2973-T1
Valid prediction for snap_scaffold_14-snap.2965-T1
Valid prediction for Augustus_model.g23496.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 GlimmerHMM_glimmerT_35134-T1
Valid prediction for snap_scaffold_14-snap.2981-T1
Valid prediction for snap_scaffold_14-snap.2967-T1
Valid prediction for GlimmerHMM_glimmerT_35139-T1
Valid prediction for CodingQuarry_transcript_15934-T1
Valid prediction for GlimmerHMM_glimmerT_35133-T1
Valid prediction for snap_scaffold_14-snap.2970-T1
Valid prediction for GlimmerHMM_glimmerT_35126-T1
Valid prediction for GlimmerHMM_glimmerT_35132-T1
Valid prediction for Augustus_model.g23495.t1
Valid prediction for snap_scaffold_14-snap.2960-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_35129-T1
Valid prediction for snap_scaffold_14-snap.2963-T1
Valid prediction for snap_scaffold_14-snap.2977-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_35123-T1
Valid prediction for snap_scaffold_14-snap.2979-T1
Valid prediction for snap_scaffold_14-snap.2954-T1
Valid prediction for GlimmerHMM_glimmerT_35141-T1
Valid prediction for GlimmerHMM_glimmerT_35130-T1
Valid prediction for GlimmerHMM_glimmerT_35140-T1
Valid prediction for GlimmerHMM_glimmerT_35137-T1
Valid prediction for snap_scaffold_14-snap.2966-T1
Valid prediction for snap_scaffold_14-snap.2956-T1
Couldn't classify 30434, 30654
Couldn't classify 38121, 38242
Sorry, prediction pasa_asmbl_13687.p1 fails validation.
(TTC)	 TG	30434-30654	GT	CTG
(GTG)	 AG	30750-30798	GT	AGG
(CCT)	 AG	31096-31190	GT	AAG
(AGG)	 AG	31284-31407	GT	AGG
(AAA)	 AG	31501-31680	GT	AGG
(ATC)	 AG	31914-32000	GT	AGG
(GTG)	 AG	32654-32725	GT	AGG
(GAT)	 AG	33236-33362	GT	CGG
(GTG)	 AG	34372-34532	GT	AGG
(GAC)	 AG	35569-35640	GT	ACG
(ATA)	 AG	35793-35885	GT	AGG
(GAT)	 AG	36196-36312	GT	GAG
(GAC)	 AG	37692-37794	GT	CAG
(GCA)	 AG	38121-38242	TT	GCT
-recovered pasa_asmbl_13687.p1, internal, 30750, 30798
-recovered pasa_asmbl_13687.p1, internal, 31096, 31190
-recovered pasa_asmbl_13687.p1, internal, 31284, 31407
-recovered pasa_asmbl_13687.p1, internal, 31501, 31680
-recovered pasa_asmbl_13687.p1, internal, 31914, 32000
-recovered pasa_asmbl_13687.p1, internal, 32654, 32725
-recovered pasa_asmbl_13687.p1, internal, 33236, 33362
-recovered pasa_asmbl_13687.p1, internal, 34372, 34532
-recovered pasa_asmbl_13687.p1, internal, 35569, 35640
-recovered pasa_asmbl_13687.p1, internal, 35793, 35885
-recovered pasa_asmbl_13687.p1, internal, 36196, 36312
-recovered pasa_asmbl_13687.p1, internal, 37692, 37794
Valid prediction for GlimmerHMM_glimmerT_35136-T1
Valid prediction for Augustus_model.g23492.t1
Valid prediction for HiQ_model.g23488.t1
Valid prediction for snap_scaffold_14-snap.2962-T1
Valid prediction for snap_scaffold_14-snap.2974-T1
Valid prediction for GlimmerHMM_glimmerT_35127-T1
Valid prediction for Augustus_model.g23494.t1
Valid prediction for pasa_asmbl_13858.p1
Valid prediction for snap_scaffold_14-snap.2955-T1
Valid prediction for Augustus_model.g23490.t1
Valid prediction for snap_scaffold_14-snap.2972-T1
Valid prediction for GlimmerHMM_glimmerT_35125-T1
Valid prediction for snap_scaffold_14-snap.2959-T1
Valid prediction for snap_scaffold_14-snap.2953-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 52283, rend_intergenic: 37309  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67451, rend_intergenic: 65235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73353, rend_intergenic: 70559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96703, rend_intergenic: 83354  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99556, rend_intergenic: 96988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111617, rend_intergenic: 100929  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126340, rend_intergenic: 114190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153186, rend_intergenic: 141649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158843, rend_intergenic: 153908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172703, rend_intergenic: 162829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174643, rend_intergenic: 172732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182998, rend_intergenic: 177208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188970, rend_intergenic: 183535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194255, rend_intergenic: 189092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197597, rend_intergenic: 194296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 200608
-exon list size: 413


building trellis

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-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 52283, rend_intergenic: 37309  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67451, rend_intergenic: 65235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73353, rend_intergenic: 70559  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96703, rend_intergenic: 83354  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99556, rend_intergenic: 96988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111617, rend_intergenic: 100929  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126340, rend_intergenic: 114190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153186, rend_intergenic: 141649  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158843, rend_intergenic: 153908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172703, rend_intergenic: 162829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174643, rend_intergenic: 172732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 182998, rend_intergenic: 177208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188970, rend_intergenic: 183535  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194255, rend_intergenic: 189092  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197597, rend_intergenic: 194296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support