genome.fa.s8539.2.7.7.80.10.50.1000.25.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  25  of  31  ( 3630 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)
4762582--4762685	52	2.0	52	98	0	199	31	28	2	36	1.72
4763870--4764032	87	1.9	87	96	0	299	42	9	14	33	1.78
4767509--4768041	184	2.9	184	96	0	978	32	16	14	36	1.89
4769419--4769452	12	2.8	12	86	0	50	17	32	8	41	1.80
4770941--4771925	200	4.9	200	95	0	1697	30	18	14	36	1.91
4772159--4772202	19	2.3	19	96	0	79	54	9	2	34	1.44
4773767--4773821	15	3.5	15	73	22	58	3	43	0	52	1.18
4773751--4773838	33	2.7	33	92	3	142	3	44	0	52	1.18
4774026--4774091	33	2.0	33	90	0	105	22	45	0	31	1.53
4774125--4774189	21	3.1	21	90	0	94	16	29	10	43	1.82
4776442--4776488	20	2.4	19	79	10	58	19	14	10	55	1.68
4776413--4776881	181	2.6	182	93	0	787	26	18	14	41	1.88
4776623--4776669	20	2.4	19	79	10	58	19	19	10	51	1.75
4777439--4777807	20	18.5	20	84	4	449	34	26	18	20	1.96
4778478--4778524	24	2.0	24	87	8	69	25	14	21	38	1.92
4778699--4778723	12	2.1	12	100	0	50	72	0	28	0	0.86
4781024--4781348	19	18.4	19	81	15	412	47	17	20	14	1.82
4781024--4781348	33	9.2	34	79	12	306	47	17	20	14	1.82
4781052--4781370	52	6.0	52	93	3	557	47	16	21	14	1.83
4781377--4781478	19	5.6	19	84	12	142	14	22	17	45	1.85
4781585--4781621	14	2.6	14	91	0	65	45	21	0	32	1.52
4781602--4781672	37	1.9	37	97	0	133	52	16	1	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4781602--4781681	37	2.2	37	90	0	124	53	17	1	27	1.51
4783545--4783601	14	3.7	14	77	20	60	45	22	21	10	1.82
4783526--4783618	33	2.8	33	95	0	168	47	21	20	10	1.80
4783489--4783623	19	7.6	19	75	16	119	46	22	19	11	1.81
4783619--4783747	19	7.3	19	75	17	125	8	17	28	45	1.77
4783619--4783710	33	2.8	33	93	3	150	7	18	28	45	1.76
4783791--4784170	93	4.1	93	99	0	753	46	18	12	22	1.83
4783791--4784170	185	2.0	186	99	0	753	46	18	12	22	1.83
4785877--4785966	14	5.7	14	74	23	81	42	23	25	8	1.83
4785869--4785983	33	3.5	33	95	0	212	45	20	24	9	1.81
4785876--4785988	19	6.8	18	72	23	88	43	22	24	9	1.83
4786000--4786054	14	3.6	14	73	21	56	9	25	23	41	1.83
4785984--4786054	33	2.2	33	94	0	124	8	22	25	43	1.81
4785995--4786076	33	2.5	33	89	2	119	9	25	21	42	1.84
4786007--4786095	20	4.8	20	72	19	75	12	24	19	43	1.85
4786175--4786245	33	2.2	33	92	0	115	47	18	22	11	1.80
4786426--4786480	22	2.5	22	81	0	74	20	16	40	23	1.91
4786626--4786819	20	9.6	20	82	5	221	19	19	25	35	1.95
4786626--4786819	60	3.2	60	83	0	253	19	19	25	35	1.95
4786812--4786888	21	3.7	20	70	13	57	27	16	23	32	1.96
4786874--4786925	20	2.6	20	96	0	95	21	13	26	38	1.90
4792111--4792159	25	2.0	25	91	0	80	26	32	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4796073--4796117	20	2.2	20	92	0	72	26	28	17	26	1.98
4796291--4796341	22	2.3	22	93	0	84	21	45	13	19	1.85
4796745--4796783	20	2.0	20	100	0	78	10	12	20	56	1.65
4796747--4796790	20	2.2	20	91	0	70	11	13	20	54	1.69
4798689--4798748	20	3.1	19	87	4	84	35	21	23	20	1.96
4798750--4798794	19	2.3	20	92	3	74	48	17	17	15	1.81
4798750--4798802	20	2.7	20	88	2	63	47	18	20	13	1.82
4798798--4798860	19	3.3	19	84	6	83	12	15	25	46	1.82
4798865--4798933	20	3.5	20	82	7	79	20	18	24	36	1.95
4798920--4798962	19	2.2	20	91	4	70	13	13	23	48	1.79
4799452--4799545	42	2.2	42	86	3	127	22	38	19	20	1.94
4799444--4799530	21	4.1	21	77	0	93	19	37	19	22	1.94
4799476--4799545	21	3.3	21	74	4	70	22	37	20	20	1.95
4800932--4800968	14	2.6	14	100	0	74	29	0	21	48	1.50
4800965--4801076	36	3.4	36	70	21	125	26	3	16	53	1.59
4800946--4801099	63	2.4	63	94	4	263	28	2	17	51	1.59
4801151--4801228	20	3.9	20	75	6	68	42	24	17	15	1.88
4801267--4801343	20	3.8	20	92	0	127	27	20	20	31	1.98
4803586--4803622	14	2.6	14	91	4	56	5	21	21	51	1.68
4803828--4803879	24	2.2	24	82	6	61	38	19	17	25	1.93
4804679--4804807	20	6.3	20	75	10	127	24	17	27	31	1.97
4804693--4804808	41	2.8	41	93	0	196	23	16	26	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4804782--4804897	41	2.8	41	71	3	99	32	18	20	28	1.96
4804903--4804948	19	2.4	19	85	3	56	21	17	30	30	1.96
4804914--4804950	19	1.9	19	94	0	65	21	16	29	32	1.95
4806661--4806991	138	2.5	127	82	8	376	43	13	13	29	1.82
4809256--4809343	40	2.2	39	86	6	122	26	17	27	29	1.97
4809275--4809475	42	4.8	42	86	1	253	28	15	25	30	1.96
4809531--4809628	39	2.5	39	94	0	169	20	20	11	47	1.80
4809570--4810022	117	3.9	117	84	3	592	26	21	15	37	1.92
4809890--4810266	203	1.9	203	85	2	524	28	20	17	33	1.95
4811847--4813008	232	4.9	232	84	5	1417	36	16	16	30	1.91
4811853--4813008	235	4.9	234	84	5	1431	36	16	16	30	1.91
4824625--4825145	240	2.2	239	86	4	712	33	17	17	31	1.93
4825222--4825354	56	2.3	57	79	5	153	43	15	11	29	1.82
4825323--4825418	50	1.9	50	84	0	129	43	17	6	32	1.74
4826821--4826886	28	2.4	28	82	12	91	24	6	28	40	1.79
4828099--4828133	2	17.5	2	100	0	70	48	0	0	51	1.00
4832257--4832311	24	2.3	24	90	0	83	12	21	40	25	1.89
4832318--4832359	15	2.8	16	89	7	61	7	21	28	42	1.79
4832316--4832365	15	3.3	16	78	18	54	8	20	30	42	1.80
4843772--4843823	18	2.9	18	94	0	86	26	34	23	15	1.94
4849697--4849750	22	2.5	22	82	8	67	29	27	14	27	1.95
4852075--4852150	26	2.9	27	86	4	118	48	14	10	26	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4855933--4856037	27	4.0	27	82	3	124	41	12	15	30	1.84
4855933--4856037	26	4.0	27	75	10	101	41	12	15	30	1.84
4857016--4857139	66	1.9	66	83	3	160	24	17	21	36	1.95
4861364--4861406	19	2.3	19	100	0	86	32	0	20	46	1.51
4863542--4863584	19	2.3	18	84	11	52	30	20	2	46	1.63
4868158--4868209	18	2.9	18	97	0	95	25	34	25	15	1.95
4868192--4868266	38	1.9	39	81	7	91	36	28	16	20	1.93
4869095--4869164	35	2.0	36	85	2	97	21	25	20	32	1.97
4875625--4875665	21	2.0	21	95	0	73	24	24	26	24	2.00
4880066--4880104	20	2.1	19	85	9	53	28	15	28	28	1.96
4880792--4880835	23	1.9	23	95	0	79	15	29	27	27	1.96
4880917--4880952	18	2.0	18	100	0	72	16	22	33	27	1.95
4881634--4881675	21	2.0	21	95	0	75	26	23	26	23	2.00
4884613--4884646	2	17.0	2	100	0	68	50	0	0	50	1.00
4884768--4884805	16	2.4	17	82	13	53	50	5	10	34	1.59
4884968--4885074	31	3.4	31	72	18	87	31	15	17	34	1.92
4895817--4895923	45	2.3	46	90	1	162	29	19	17	32	1.95
4896767--4896806	20	1.9	21	85	10	55	37	37	10	15	1.80
4897026--4897091	34	2.0	32	85	5	87	31	16	27	24	1.96
4900361--4900482	31	3.9	31	73	15	99	29	18	19	31	1.96
4902124--4902187	23	2.8	23	79	6	76	48	7	25	18	1.75
4908204--4908372	88	1.9	88	92	0	284	35	18	13	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4911939--4911968	15	2.0	15	93	0	51	53	3	0	43	1.17
4912351--4912392	20	2.0	21	90	4	68	57	2	7	33	1.39
4912688--4912737	20	2.5	20	73	0	55	32	28	8	32	1.86
4913421--4913534	17	6.6	17	90	1	156	35	9	23	30	1.87
4913915--4914001	38	2.3	38	93	0	156	37	36	11	13	1.81
4915749--4915778	15	2.1	15	93	6	53	56	0	0	43	0.99
4933358--4933388	11	2.8	11	90	0	53	58	0	41	0	0.98
4934081--4934132	21	2.3	23	80	6	63	15	1	7	75	1.12
4934074--4934132	21	2.6	23	78	10	59	16	1	6	74	1.11
4941951--4941997	17	2.7	19	81	15	57	76	0	17	6	0.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31