-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_16933529-17154677

-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_10-snap.3436-T1
Valid prediction for CodingQuarry_transcript_5682-T1
Valid prediction for snap_scaffold_10-snap.3455-T1
Valid prediction for snap_scaffold_10-snap.3431-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 177959, 178076
Sorry, prediction pasa_asmbl_3741.p1 fails validation.
(ATG)	 CG	172771-173215	GT	AAG
(TTC)	 AG	173530-173643	GT	CTG
(TGA)	 AG	174290-174423	GT	AGG
(TTC)	 AG	174626-174876	GT	GCG
(GTG)	 AG	175111-175335	GT	AGG
(GCT)	 AG	175519-175747	GT	TGG
(CTG)	 AG	176014-176184	GT	AGG
(CTG)	 AG	176858-177039	GT	ATG
(CTT)	 AG	177959-178076	AT	TCA
-recovered pasa_asmbl_3741.p1, initial, 172771, 173215
-recovered pasa_asmbl_3741.p1, internal, 173530, 173643
-recovered pasa_asmbl_3741.p1, internal, 174290, 174423
-recovered pasa_asmbl_3741.p1, internal, 174626, 174876
-recovered pasa_asmbl_3741.p1, internal, 175111, 175335
-recovered pasa_asmbl_3741.p1, internal, 175519, 175747
-recovered pasa_asmbl_3741.p1, internal, 176014, 176184
-recovered pasa_asmbl_3741.p1, internal, 176858, 177039
Valid prediction for snap_scaffold_10-snap.3463-T1
Valid prediction for snap_scaffold_10-snap.3444-T1
Valid prediction for snap_scaffold_10-snap.3456-T1
Valid prediction for GlimmerHMM_glimmerT_26190-T1
Valid prediction for snap_scaffold_10-snap.3472-T1
Valid prediction for Augustus_model.g17410.t1
Valid prediction for HiQ_model.g17402.t1
Couldn't classify 183101, 183222
Sorry, prediction pasa_asmbl_3742.p1 fails validation.
(GGC)	 AG	183101-183222	GT	GGG
(GAA)	 AG	183545-183656	GT	GGG
(GAG)	 AG	184188-184351	GT	GTG
(GCT)	 AG	184961-185108	GT	AGG
(GAT)	 AG	186002-186232	AA	GAA
-recovered pasa_asmbl_3742.p1, terminal, 186002, 186232
-recovered pasa_asmbl_3742.p1, internal, 183101, 183222
-recovered pasa_asmbl_3742.p1, internal, 183545, 183656
-recovered pasa_asmbl_3742.p1, internal, 184188, 184351
-recovered pasa_asmbl_3742.p1, internal, 184961, 185108
Valid prediction for snap_scaffold_10-snap.3467-T1
Valid prediction for GlimmerHMM_glimmerT_26207-T1
Valid prediction for snap_scaffold_10-snap.3465-T1
Valid prediction for snap_scaffold_10-snap.3459-T1
Valid prediction for snap_scaffold_10-snap.3442-T1
Valid prediction for pasa_asmbl_3736.p1
Valid prediction for snap_scaffold_10-snap.3461-T1
Valid prediction for snap_scaffold_10-snap.3441-T1
Valid prediction for Augustus_model.g17395.t1
Valid prediction for snap_scaffold_10-snap.3451-T1
Valid prediction for snap_scaffold_10-snap.3471-T1
Valid prediction for GlimmerHMM_glimmerT_26199-T1
Valid prediction for GlimmerHMM_glimmerT_26205-T1
Valid prediction for GlimmerHMM_glimmerT_26193-T1
Couldn't classify 36261, 36689
Couldn't classify 36811, 37284
Sorry, prediction pasa_asmbl_3735.p1 fails validation.
(AAG)	 TG	36261-36689	GT	AGG
(GGC)	 AG	36811-37284	CG	CAC
Valid prediction for GlimmerHMM_glimmerT_26192-T1
Valid prediction for snap_scaffold_10-snap.3430-T1
Valid prediction for snap_scaffold_10-snap.3452-T1
Valid prediction for snap_scaffold_10-snap.3434-T1
Valid prediction for GlimmerHMM_glimmerT_26198-T1
Valid prediction for Augustus_model.g17397.t1
Valid prediction for snap_scaffold_10-snap.3470-T1
Valid prediction for snap_scaffold_10-snap.3454-T1
Valid prediction for GlimmerHMM_glimmerT_26194-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_26197-T1
Valid prediction for GlimmerHMM_glimmerT_26208-T1
Valid prediction for GlimmerHMM_glimmerT_26202-T1
Valid prediction for snap_scaffold_10-snap.3450-T1
Valid prediction for snap_scaffold_10-snap.3438-T1
Valid prediction for snap_scaffold_10-snap.3468-T1
Valid prediction for Augustus_model.g17396.t1
Valid prediction for pasa_asmbl_5032.p1
Valid prediction for GlimmerHMM_glimmerT_26191-T1
Valid prediction for Augustus_model.g17394.t1
Valid prediction for snap_scaffold_10-snap.3445-T1
Valid prediction for GlimmerHMM_glimmerT_26189-T1
Valid prediction for Augustus_model.g17408.t1
Valid prediction for Augustus_model.g17412.t1
Couldn't classify 103111, 103224
Couldn't classify 103267, 103386
Sorry, prediction CodingQuarry_transcript_5684-T1 fails validation.
(ATG)	 AG	103111-103224	AC	ACA
(GCC)	 AT	103267-103386	TT	AGT
Valid prediction for snap_scaffold_10-snap.3447-T1
Valid prediction for GlimmerHMM_glimmerT_26195-T1
Valid prediction for snap_scaffold_10-snap.3437-T1
Valid prediction for GlimmerHMM_glimmerT_26206-T1
Couldn't classify 101964, 102053
Sorry, prediction pasa_asmbl_5025.p1 fails validation.
(GCC)	 AG	101964-102053	GT	AGG
(GAG)	 AG	102139-102354	GT	CGG
(ATC)	 AG	102816-102878	AG	AGA
-recovered pasa_asmbl_5025.p1, terminal, 102816, 102878
-recovered pasa_asmbl_5025.p1, internal, 101964, 102053
-recovered pasa_asmbl_5025.p1, internal, 102139, 102354
Valid prediction for GlimmerHMM_glimmerT_26212-T1
Valid prediction for GlimmerHMM_glimmerT_26196-T1
Valid prediction for snap_scaffold_10-snap.3443-T1
Couldn't classify 158346, 158604
Sorry, prediction pasa_asmbl_5021.p1 fails validation.
(ATG)	 AA	155759-155807	GT	AGG
(GTG)	 AG	156680-156758	GT	CAG
(GAT)	 AG	158346-158604	CC	CCC
-recovered pasa_asmbl_5021.p1, initial, 155759, 155807
-recovered pasa_asmbl_5021.p1, internal, 156680, 156758
Valid prediction for GlimmerHMM_glimmerT_26200-T1
Valid prediction for snap_scaffold_10-snap.3453-T1
Valid prediction for GlimmerHMM_glimmerT_26209-T1
Valid prediction for Augustus_model.g17409.t1
Valid prediction for snap_scaffold_10-snap.3439-T1
Valid prediction for GlimmerHMM_glimmerT_26203-T1
Valid prediction for snap_scaffold_10-snap.3432-T1
Couldn't classify 162390, 162633
Couldn't classify 162706, 163346
Sorry, prediction CodingQuarry_transcript_5681-T1 fails validation.
(ATG)	 TC	160134-160159	GT	CGG
(GCA)	 AG	160260-160405	GT	AGG
(GGT)	 AG	160693-160867	GT	TGG
(GGT)	 AG	161234-161391	GT	TGG
(GTG)	 AG	162390-162633	CT	ACC
(CTA)	 AC	162706-163346	GT	AGG
(AAC)	 AG	163617-163837	CA	AAC
-recovered CodingQuarry_transcript_5681-T1, initial, 160134, 160159
-recovered CodingQuarry_transcript_5681-T1, terminal, 163617, 163837
-recovered CodingQuarry_transcript_5681-T1, internal, 160260, 160405
-recovered CodingQuarry_transcript_5681-T1, internal, 160693, 160867
-recovered CodingQuarry_transcript_5681-T1, internal, 161234, 161391
Valid prediction for snap_scaffold_10-snap.3446-T1
Couldn't classify 158851, 159094
Sorry, prediction pasa_asmbl_5020.p1 fails validation.
(GCC)	 TT	158851-159094	GT	AGG
(GAC)	 AG	159394-159506	TC	GAT
-recovered pasa_asmbl_5020.p1, terminal, 159394, 159506
Valid prediction for Augustus_model.g17403.t1
Valid prediction for Augustus_model.g17407.t1
Valid prediction for snap_scaffold_10-snap.3462-T1
Valid prediction for snap_scaffold_10-snap.3473-T1
Valid prediction for HiQ_model.g17400.t1
Valid prediction for snap_scaffold_10-snap.3457-T1
Couldn't classify 94610, 94790
Couldn't classify 95789, 95929
Sorry, prediction pasa_asmbl_5026.p1 fails validation.
(GAG)	 GG	94610-94790	GT	GGG
(GTG)	 AG	95163-95284	GT	AGG
(GAC)	 AG	95789-95929	AG	GTA
-recovered pasa_asmbl_5026.p1, internal, 95163, 95284
Valid prediction for snap_scaffold_10-snap.3429-T1
Valid prediction for Augustus_model.g17399.t1
Valid prediction for snap_scaffold_10-snap.3433-T1
Valid prediction for Augustus_model.g17404.t1
Valid prediction for pasa_asmbl_5019.p1
Valid prediction for GlimmerHMM_glimmerT_26210-T1
Valid prediction for Augustus_model.g17406.t1
Valid prediction for Augustus_model.g17405.t1
Valid prediction for GlimmerHMM_glimmerT_26211-T1
Valid prediction for snap_scaffold_10-snap.3435-T1
Valid prediction for pasa_asmbl_5185.p1
Valid prediction for snap_scaffold_10-snap.3440-T1
Valid prediction for snap_scaffold_10-snap.3464-T1
Valid prediction for snap_scaffold_10-snap.3460-T1
Couldn't classify 217153, 217653
Sorry, prediction pasa_asmbl_5018.p1 fails validation.
(CTC)	 AC	217153-217653	CA	GAC
Valid prediction for snap_scaffold_10-snap.3458-T1
Couldn't classify 82747, 82852
Couldn't classify 85610, 85760
Sorry, prediction pasa_asmbl_5123.p1 fails validation.
(CAG)	 TA	82747-82852	GT	AGG
(GTA)	 AG	83688-83866	GT	AGG
(CTG)	 AG	84717-84857	GT	AGG
(ACC)	 AG	85288-85376	GT	AGG
(GCC)	 AG	85610-85760	TC	TCT
-recovered pasa_asmbl_5123.p1, internal, 83688, 83866
-recovered pasa_asmbl_5123.p1, internal, 84717, 84857
-recovered pasa_asmbl_5123.p1, internal, 85288, 85376
Valid prediction for Augustus_model.g17401.t1
Valid prediction for snap_scaffold_10-snap.3466-T1
Valid prediction for GlimmerHMM_glimmerT_26204-T1
Valid prediction for snap_scaffold_10-snap.3449-T1
Couldn't classify 162390, 162511
Sorry, prediction pasa_asmbl_5080.p1 fails validation.
(ATG)	 AG	160071-160159	GT	CGG
(GCA)	 AG	160260-160405	GT	AGG
(GGT)	 AG	160693-160867	GT	TGG
(GGT)	 AG	161234-161391	GT	TGG
(GTG)	 AG	162390-162511	CC	ACC
-recovered pasa_asmbl_5080.p1, initial, 160071, 160159
-recovered pasa_asmbl_5080.p1, internal, 160071, 160159
-recovered pasa_asmbl_5080.p1, internal, 160260, 160405
-recovered pasa_asmbl_5080.p1, internal, 160693, 160867
-recovered pasa_asmbl_5080.p1, internal, 161234, 161391
Valid prediction for Augustus_model.g17398.t1
Valid prediction for snap_scaffold_10-snap.3448-T1
Valid prediction for GlimmerHMM_glimmerT_26201-T1
Valid prediction for CodingQuarry_transcript_5680-T1
Valid prediction for Augustus_model.g17411.t1
Valid prediction for snap_scaffold_10-snap.3469-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 22543, rend_intergenic: 12367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29355, rend_intergenic: 27382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42802, rend_intergenic: 39396  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49217, rend_intergenic: 43550  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65391, rend_intergenic: 64310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85153, rend_intergenic: 83599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101240, rend_intergenic: 85504  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143721, rend_intergenic: 122678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149061, rend_intergenic: 144200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163175, rend_intergenic: 160120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177043, rend_intergenic: 172902  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184295, rend_intergenic: 183119  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186226, rend_intergenic: 184983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192022, rend_intergenic: 188869  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198593, rend_intergenic: 192183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210079, rend_intergenic: 203369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 221149
-exon list size: 404


building trellis

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-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 22543, rend_intergenic: 12367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29355, rend_intergenic: 27382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42802, rend_intergenic: 39396  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49217, rend_intergenic: 43550  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65391, rend_intergenic: 64310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85153, rend_intergenic: 83599  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101240, rend_intergenic: 85504  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143721, rend_intergenic: 122678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149061, rend_intergenic: 144200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163175, rend_intergenic: 160120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177043, rend_intergenic: 172902  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184295, rend_intergenic: 183119  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 186226, rend_intergenic: 184983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 192022, rend_intergenic: 188869  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198593, rend_intergenic: 192183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210079, rend_intergenic: 203369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support