genome.fa.s8418.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008418.1 Hibiscus syriacus cultivar Beakdansim tig00111198_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  855397

Tables:   1   2   3   4   

This is table  3  of  4  ( 416 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471963--471988	2	13.0	2	100	0	52	50	0	0	50	1.00
473434--473479	3	16.0	3	91	8	78	67	0	0	32	0.91
473434--473479	23	2.0	23	95	0	83	67	0	0	32	0.91
473617--473974	140	2.6	136	83	4	423	26	19	13	39	1.89
473887--474220	123	2.7	123	92	0	560	24	20	15	39	1.91
475126--475160	11	3.4	11	92	7	56	8	5	0	85	0.73
475119--475162	14	3.4	14	78	18	58	9	4	0	86	0.70
478686--478718	13	2.5	13	100	0	66	63	0	6	30	1.18
482448--482479	16	2.1	16	88	11	50	31	6	12	50	1.65
482508--482539	15	2.1	15	94	0	55	53	6	15	25	1.65
486694--486741	20	2.3	21	78	10	53	54	4	6	35	1.45
487268--487736	235	2.0	234	97	0	893	25	27	21	25	1.99
488249--488291	20	2.2	20	82	0	50	60	0	2	37	1.10
488390--488429	21	1.9	21	85	10	55	52	0	2	45	1.14
488622--488686	30	2.2	29	78	8	69	46	13	3	36	1.60
495607--495699	30	3.1	29	86	6	114	38	2	20	38	1.65
497514--497651	64	2.2	63	81	6	161	35	18	21	23	1.96
498902--498975	18	3.9	18	77	12	78	20	17	31	31	1.96
509603--509662	21	3.0	21	88	9	90	20	23	28	28	1.99
511705--511730	2	13.0	2	100	0	52	50	0	0	50	1.00
513596--514018	111	3.8	111	88	2	566	29	15	23	31	1.95
515325--515358	18	1.9	18	88	5	52	20	11	23	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521501--521527	2	13.5	2	100	0	54	51	0	0	48	1.00
525774--525805	4	8.0	4	92	0	55	21	0	0	78	0.76
526276--526311	3	12.0	3	100	0	72	33	0	0	66	0.92
538438--538642	87	2.4	87	80	4	227	28	14	24	33	1.94
539231--539279	20	2.5	20	96	3	91	16	28	0	55	1.42
543985--544031	15	3.3	15	76	11	53	72	2	0	25	0.96
544447--544584	61	2.3	60	83	1	150	34	21	7	37	1.81
544750--544932	60	3.1	57	79	11	172	39	4	23	31	1.76
554473--554564	44	2.1	45	97	2	177	34	15	21	28	1.94
561636--561665	15	2.0	15	93	0	51	33	10	6	50	1.62
561903--561948	3	15.3	3	82	17	60	32	0	0	67	0.91
561955--562001	17	2.8	17	78	12	53	78	4	10	6	1.06
563831--564332	20	22.1	26	70	21	214	21	21	12	44	1.85
563807--564318	66	7.6	64	71	20	277	21	22	12	43	1.85
563806--563982	46	3.8	46	90	0	282	22	22	11	44	1.84
563949--564318	91	4.2	87	88	4	451	21	22	12	43	1.86
563971--564332	46	8.0	46	85	4	513	21	22	12	43	1.86
563971--564332	137	2.7	137	88	5	522	21	22	12	43	1.86
566392--566424	12	2.6	13	85	9	50	42	6	9	42	1.61
568159--568197	13	2.9	13	88	3	51	43	7	10	38	1.67
568676--568742	21	3.1	21	64	8	53	29	17	19	32	1.95
568684--568754	23	3.2	23	70	8	74	30	18	19	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580528--581138	26	26.1	26	72	18	474	21	21	13	44	1.85
580468--580681	118	1.8	118	88	0	329	21	21	11	44	1.84
580482--581136	72	9.4	71	77	14	452	21	21	12	44	1.85
580554--580965	46	8.8	46	88	3	619	21	21	12	43	1.86
580953--581104	46	3.3	46	93	0	259	21	22	13	43	1.86
581731--582109	188	2.0	188	97	0	713	26	25	8	39	1.84
583235--583284	14	3.5	15	78	5	50	18	12	10	60	1.59
583229--583294	29	2.3	29	81	0	78	19	9	7	63	1.47
583253--583290	14	2.6	15	83	4	51	23	10	7	57	1.58
583727--584208	45	11.0	45	77	9	435	40	17	15	26	1.89
583734--584211	87	5.5	87	77	10	413	40	17	15	26	1.90
585106--585140	3	11.7	3	93	0	61	37	0	0	62	0.95
587674--588344	45	15.3	45	78	7	594	24	17	17	40	1.90
587674--588318	132	4.9	132	77	7	573	25	17	17	40	1.91
588192--588413	91	2.5	90	81	3	223	21	19	18	40	1.91
589092--589444	130	2.7	130	85	5	457	30	18	19	31	1.96
589947--589975	3	9.7	3	100	0	58	34	0	31	34	1.58
593591--593656	29	2.2	30	78	7	73	21	13	6	59	1.56
594098--594138	17	2.3	18	87	4	57	60	4	2	31	1.30
599878--599930	21	2.5	21	81	0	61	18	26	18	35	1.95
599920--600045	20	6.3	20	95	1	218	38	20	19	21	1.93
600893--600960	24	2.8	24	86	0	91	25	17	19	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603393--603479	20	4.3	20	83	2	113	37	21	21	18	1.94
603393--603481	40	2.2	40	88	4	126	37	21	22	19	1.95
603453--603548	33	2.8	33	85	3	111	42	17	23	15	1.88
603663--603699	14	2.6	14	86	0	56	48	21	0	29	1.50
605050--605157	42	2.6	42	75	5	103	22	18	37	21	1.94
605641--605749	20	5.4	20	93	0	182	37	23	20	18	1.94
605770--605877	20	6.1	19	70	26	85	18	19	21	40	1.91
608486--608619	20	6.7	20	85	5	189	21	18	20	39	1.92
608616--608682	21	3.2	21	91	0	98	38	19	25	16	1.92
610381--610462	30	2.7	30	84	3	103	32	9	12	45	1.74
610912--611021	19	5.6	19	87	3	130	37	21	9	31	1.85
614287--614322	18	2.0	18	94	0	63	55	25	2	16	1.55
614634--614675	20	2.1	20	95	0	75	19	19	21	40	1.92
614728--614820	37	3.0	30	69	28	77	54	16	1	27	1.48
616208--616330	21	6.0	21	80	7	137	24	21	35	18	1.95
616206--616329	41	3.0	41	84	4	135	23	20	37	18	1.94
618483--618521	20	2.0	20	94	0	69	51	17	20	10	1.74
618921--618975	22	2.5	22	96	0	101	20	14	41	23	1.89
619093--619168	20	3.8	20	91	0	125	17	13	22	47	1.81
620882--620938	3	18.7	3	89	3	87	29	1	1	66	1.12
620954--621005	22	2.4	23	81	9	56	53	34	1	9	1.45
624179--624227	24	2.0	24	96	0	89	10	14	22	53	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624185--624240	24	2.3	24	84	0	67	14	12	17	55	1.69
625263--625316	16	3.4	16	89	0	90	9	9	22	59	1.57
625893--625924	2	16.0	2	100	0	64	50	0	0	50	1.00
631079--631116	18	2.1	18	95	0	67	21	23	13	42	1.88
633890--633949	20	3.0	20	82	0	75	35	18	8	38	1.81
636025--636189	42	4.0	41	78	10	142	25	35	15	23	1.94
636296--636475	21	8.8	21	67	12	97	19	13	33	33	1.90
636810--636881	21	3.4	21	82	3	83	25	38	12	23	1.90
638540--638578	20	2.0	20	89	0	60	20	17	23	38	1.93
640968--641024	28	2.0	28	86	6	80	7	21	12	59	1.56
642161--642248	20	4.4	20	80	0	104	42	9	25	23	1.83
642150--642289	40	3.5	39	81	9	167	42	9	22	26	1.83
642213--642310	20	4.8	20	74	9	74	39	11	19	29	1.86
642307--642352	20	2.3	20	92	0	74	21	13	21	43	1.86
642393--642433	20	2.0	20	85	4	55	43	9	14	31	1.78
653429--653457	2	14.5	2	100	0	58	48	0	0	51	1.00
659149--659204	24	2.3	24	84	0	67	50	12	7	30	1.67
659139--659181	12	3.6	12	80	0	50	46	4	9	39	1.57
662108--662151	21	2.0	22	95	4	81	52	11	9	27	1.67
662114--662722	198	3.1	200	91	3	968	32	15	12	39	1.85
667659--667711	27	2.0	27	96	0	97	22	37	3	35	1.72
669896--670232	162	2.1	163	93	1	579	28	12	13	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670056--670651	183	3.3	179	88	4	788	28	14	13	43	1.83
671228--671324	31	3.1	31	80	1	104	44	8	5	42	1.56
671716--671759	22	2.0	22	100	0	88	54	4	4	36	1.41
681188--681214	13	2.1	13	100	0	54	44	0	0	55	0.99
690693--690732	18	2.3	18	87	8	57	57	2	0	40	1.12
693654--693700	19	2.4	20	85	3	60	31	12	6	48	1.66
695423--695490	24	2.9	24	93	2	111	50	19	0	30	1.48
698237--698285	12	4.2	12	78	5	55	4	20	2	73	1.10
698551--698651	42	2.5	41	80	4	114	31	21	22	23	1.98
698386--699064	259	2.6	257	85	3	918	34	17	14	32	1.90

Tables:   1   2   3   4