-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_11/scaffold_11_8474545-8595733

-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_28119-T1
Valid prediction for GeneMark_model.48601_t
Valid prediction for snap_scaffold_11-snap.1936-T1
Valid prediction for snap_scaffold_11-snap.1953-T1
Valid prediction for GlimmerHMM_glimmerT_28118-T1
Valid prediction for GeneMark_model.48611_t
Valid prediction for GlimmerHMM_glimmerT_28117-T1
Valid prediction for GeneMark_model.48625_t
Valid prediction for GlimmerHMM_glimmerT_28116-T1
Sorry, intron length (9) is less than minimum required (10)
Couldn't classify 20381, 20923
Sorry, prediction pasa_asmbl_5755.p1 fails validation.
(ATG)	 GG	20381-20923	CT	GCC
Valid prediction for GeneMark_model.48593_t
Valid prediction for Augustus_model.g18756.t1
Valid prediction for CodingQuarry_transcript_8140-T1
Valid prediction for GeneMark_model.48629_t
Valid prediction for GeneMark_model.48591_t
Valid prediction for GlimmerHMM_glimmerT_28128-T1
Valid prediction for GeneMark_model.48621_t
Valid prediction for GlimmerHMM_glimmerT_28123-T1
Valid prediction for snap_scaffold_11-snap.1934-T1
Valid prediction for HiQ_model.g18755.t1
Couldn't classify 92177, 92213
Sorry, prediction pasa_asmbl_5762.p1 fails validation.
(ACC)	 CG	92177-92213	GT	AGG
(ACA)	 AG	92451-92610	GT	AAG
(TCA)	 AG	92730-92821	GT	AGG
(TGA)	 AG	93062-93144	GT	TGG
(CTG)	 AG	93958-94066	GT	AGG
(AGA)	 AG	94175-94290	GT	AGG
(CCC)	 AG	94598-94625	GT	AGG
(TGG)	 AG	94730-94860	TG	GAT
-recovered pasa_asmbl_5762.p1, terminal, 94730, 94860
-recovered pasa_asmbl_5762.p1, internal, 92451, 92610
-recovered pasa_asmbl_5762.p1, internal, 92730, 92821
-recovered pasa_asmbl_5762.p1, internal, 93062, 93144
-recovered pasa_asmbl_5762.p1, internal, 93958, 94066
-recovered pasa_asmbl_5762.p1, internal, 94175, 94290
-recovered pasa_asmbl_5762.p1, internal, 94598, 94625
Valid prediction for GeneMark_model.48626_t
Valid prediction for GlimmerHMM_glimmerT_28114-T1
Couldn't classify 118940, 119125
Sorry, prediction pasa_asmbl_5767.p2 fails validation.
(ATT)	 AT	118940-119125	GT	ATG
(GTT)	 AG	119468-119608	CT	GAC
-recovered pasa_asmbl_5767.p2, terminal, 119468, 119608
Valid prediction for GlimmerHMM_glimmerT_28125-T1
Valid prediction for snap_scaffold_11-snap.1954-T1
Valid prediction for pasa_asmbl_5752.p1
Valid prediction for GeneMark_model.48623_t
Valid prediction for CodingQuarry_transcript_8139-T1
Valid prediction for snap_scaffold_11-snap.1951-T1
Valid prediction for snap_scaffold_11-snap.1948-T1
Valid prediction for GeneMark_model.48597_t
Valid prediction for GeneMark_model.48619_t
Valid prediction for CodingQuarry_transcript_8138-T1
Couldn't classify 21311, 22156
Sorry, prediction pasa_asmbl_5756.p2 fails validation.
(GAA)	 AG	21311-22156	AC	AGA
Valid prediction for snap_scaffold_11-snap.1938-T1
Valid prediction for GeneMark_model.48609_t
Valid prediction for GeneMark_model.48604_t
Valid prediction for GlimmerHMM_glimmerT_28133-T1
Valid prediction for Augustus_model.g18758.t1
Couldn't classify 107321, 107525
Couldn't classify 108770, 108778
Sorry, prediction pasa_asmbl_6212.p1 fails validation.
(TCC)	 CC	107321-107525	GT	TGG
(GGA)	 AG	107999-108092	GT	TGG
(GGA)	 AG	108226-108283	GT	TGG
(ATC)	 AG	108770-108778	AA	TGA
-recovered pasa_asmbl_6212.p1, internal, 107999, 108092
-recovered pasa_asmbl_6212.p1, internal, 108226, 108283
Valid prediction for snap_scaffold_11-snap.1952-T1
Valid prediction for Augustus_model.g18760.t1
Valid prediction for Augustus_model.g18765.t1
Valid prediction for snap_scaffold_11-snap.1932-T1
Couldn't classify 114615, 114675
Sorry, prediction pasa_asmbl_5765.p1 fails validation.
(AGC)	 TC	114615-114675	GT	AGG
(GCT)	 AG	114832-115047	GT	GGG
(GTA)	 AG	115227-115480	GT	AGG
(GGC)	 AG	115603-115863	TG	GAT
-recovered pasa_asmbl_5765.p1, terminal, 115603, 115863
-recovered pasa_asmbl_5765.p1, internal, 114832, 115047
-recovered pasa_asmbl_5765.p1, internal, 115227, 115480
Valid prediction for snap_scaffold_11-snap.1955-T1
Couldn't classify 116320, 116454
Couldn't classify 118411, 118580
Sorry, prediction pasa_asmbl_5766.p1 fails validation.
(CTG)	 TC	116320-116454	GT	AGG
(GAT)	 AG	116736-116966	GT	AGG
(GTA)	 AG	117448-117722	GT	AGG
(GCT)	 AG	118044-118225	GT	GGG
(GCA)	 AG	118411-118580	CT	AGC
-recovered pasa_asmbl_5766.p1, internal, 116736, 116966
-recovered pasa_asmbl_5766.p1, internal, 117448, 117722
-recovered pasa_asmbl_5766.p1, internal, 118044, 118225
Valid prediction for GeneMark_model.48594_t
Valid prediction for HiQ_model.g18761.t1
Valid prediction for GlimmerHMM_glimmerT_28129-T1
Valid prediction for GeneMark_model.48595_t
Valid prediction for pasa_asmbl_5760.p1
Valid prediction for GeneMark_model.48600_t
Valid prediction for GeneMark_model.48606_t
Valid prediction for snap_scaffold_11-snap.1931-T1
Valid prediction for Augustus_model.g18757.t1
Valid prediction for HiQ_model.g18764.t1
Valid prediction for GeneMark_model.48617_t
Valid prediction for GeneMark_model.48613_t
Valid prediction for snap_scaffold_11-snap.1947-T1
Valid prediction for GeneMark_model.48603_t
Valid prediction for GlimmerHMM_glimmerT_28132-T1
Valid prediction for GeneMark_model.48589_t
Valid prediction for Augustus_model.g18759.t1
Valid prediction for snap_scaffold_11-snap.1940-T1
Valid prediction for snap_scaffold_11-snap.1945-T1
Valid prediction for GlimmerHMM_glimmerT_28131-T1
Valid prediction for Augustus_model.g18762.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 GeneMark_model.48628_t
Valid prediction for GlimmerHMM_glimmerT_28120-T1
Valid prediction for GlimmerHMM_glimmerT_28115-T1
Valid prediction for GeneMark_model.48588_t
Valid prediction for snap_scaffold_11-snap.1942-T1
Valid prediction for GeneMark_model.48622_t
Valid prediction for GeneMark_model.48590_t
Valid prediction for GeneMark_model.48624_t
Valid prediction for GeneMark_model.48605_t
Valid prediction for snap_scaffold_11-snap.1944-T1
Valid prediction for GeneMark_model.48614_t
Valid prediction for GlimmerHMM_glimmerT_28127-T1
Valid prediction for GeneMark_model.48618_t
Valid prediction for GeneMark_model.48596_t
Valid prediction for snap_scaffold_11-snap.1943-T1
Valid prediction for GlimmerHMM_glimmerT_28122-T1
Valid prediction for snap_scaffold_11-snap.1939-T1
Valid prediction for GlimmerHMM_glimmerT_28124-T1
Valid prediction for GeneMark_model.48592_t
Valid prediction for GeneMark_model.48607_t
Valid prediction for GlimmerHMM_glimmerT_28121-T1
Valid prediction for snap_scaffold_11-snap.1950-T1
Valid prediction for GlimmerHMM_glimmerT_28130-T1
Valid prediction for GeneMark_model.48599_t
Valid prediction for snap_scaffold_11-snap.1937-T1
Valid prediction for snap_scaffold_11-snap.1946-T1
Valid prediction for GeneMark_model.48602_t
Valid prediction for GeneMark_model.48616_t
Valid prediction for GeneMark_model.48620_t
Valid prediction for GeneMark_model.48627_t
Valid prediction for snap_scaffold_11-snap.1941-T1
Valid prediction for GlimmerHMM_glimmerT_28126-T1
Valid prediction for GeneMark_model.48608_t
Valid prediction for GeneMark_model.48598_t
Valid prediction for snap_scaffold_11-snap.1935-T1
Valid prediction for snap_scaffold_11-snap.1949-T1
Valid prediction for snap_scaffold_11-snap.1933-T1
Valid prediction for GeneMark_model.48612_t
Valid prediction for GeneMark_model.48615_t
Valid prediction for GeneMark_model.48610_t
Valid prediction for Augustus_model.g18763.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9220, rend_intergenic: 7768  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22165, rend_intergenic: 18273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29847, rend_intergenic: 25865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58939, rend_intergenic: 32404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62985, rend_intergenic: 60093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67848, rend_intergenic: 64242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85682, rend_intergenic: 80152  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 121189
-exon list size: 498


building trellis

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-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 9220, rend_intergenic: 7768  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22165, rend_intergenic: 18273  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29847, rend_intergenic: 25865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58939, rend_intergenic: 32404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62985, rend_intergenic: 60093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67848, rend_intergenic: 64242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85682, rend_intergenic: 80152  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support