genome.fa.s2890.2.7.7.80.10.50.1000.20.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  20  of  21  ( 2516 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)
4642489--4642519	10	3.1	10	95	0	53	32	32	0	35	1.58
4642560--4642600	18	2.3	18	91	4	66	29	4	2	63	1.28
4644794--4644865	26	3.0	24	68	27	62	26	6	4	62	1.39
4646353--4646391	13	2.9	14	81	11	55	56	0	0	43	0.99
4646350--4646457	38	3.0	38	74	20	106	47	0	0	52	1.00
4652994--4653022	12	2.3	13	94	5	51	17	17	17	48	1.82
4658775--4659417	234	2.8	234	88	0	930	33	15	17	33	1.92
4659335--4659408	20	3.6	20	70	13	69	21	24	22	31	1.99
4659356--4659422	22	3.1	22	67	16	68	26	20	19	32	1.97
4659336--4659454	42	2.8	42	93	0	193	24	24	20	31	1.98
4659103--4659648	274	2.0	275	86	1	772	31	17	17	32	1.94
4662195--4662233	17	2.4	17	95	4	71	43	0	5	51	1.24
4662701--4662736	15	2.5	15	90	4	56	27	8	0	63	1.23
4667914--4667950	11	3.5	11	82	17	51	40	0	0	59	0.97
4668425--4668451	11	2.5	11	100	0	54	25	7	0	66	1.17
4669342--4669427	2	43.5	2	97	2	165	50	0	0	50	1.00
4669656--4669701	19	2.4	19	100	0	92	30	4	10	54	1.55
4670324--4670367	19	2.3	18	81	11	52	43	0	2	54	1.12
4678782--4679544	52	14.7	52	95	0	1330	30	25	15	28	1.96
4678813--4678893	24	3.2	24	63	13	63	25	29	13	30	1.94
4678917--4679049	24	5.2	24	62	13	68	28	26	13	31	1.94
4679177--4679309	24	5.2	24	62	13	59	27	27	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4680707--4680743	2	18.5	2	100	0	74	51	0	0	48	1.00
4682279--4682366	3	29.7	3	83	11	92	60	1	0	38	1.04
4682279--4682344	19	3.3	19	87	6	87	63	1	0	34	1.04
4685829--4685886	25	2.3	26	81	3	73	29	0	6	63	1.20
4685839--4685893	25	2.2	25	83	3	65	27	1	7	63	1.31
4686928--4686996	25	2.8	25	100	0	138	42	2	8	46	1.49
4687687--4687727	10	4.1	10	93	0	73	9	12	19	58	1.61
4687791--4687821	16	1.9	16	93	0	53	9	12	19	58	1.62
4693683--4693745	2	32.0	2	96	3	119	50	49	0	0	1.00
4695640--4695666	12	2.2	12	100	0	54	29	11	0	59	1.32
4703256--4703286	2	15.5	2	93	0	53	48	0	0	51	1.00
4704739--4704795	3	21.0	3	77	16	54	66	0	0	33	0.92
4704745--4704794	19	2.6	19	90	0	82	66	0	0	34	0.92
4704740--4704795	22	2.7	22	81	13	75	67	0	0	32	0.91
4705048--4705417	110	3.3	113	86	6	542	27	21	15	35	1.93
4705320--4705484	72	2.3	73	93	1	278	32	18	17	30	1.94
4705634--4705688	22	2.5	22	93	0	101	38	14	10	36	1.81
4706055--4706210	54	2.9	54	88	0	231	21	23	17	37	1.94
4708279--4708495	114	1.9	114	91	0	353	29	20	16	33	1.95
4715928--4715985	24	2.5	23	80	8	64	0	17	13	68	1.20
4716497--4716553	3	21.0	3	77	16	54	66	0	0	33	0.92
4716503--4716552	19	2.6	19	90	0	82	66	0	0	34	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4716498--4716553	22	2.7	22	81	13	75	67	0	0	32	0.91
4721445--4721487	22	2.0	22	95	0	77	18	20	37	23	1.94
4721445--4721501	22	2.6	21	86	2	69	22	19	36	21	1.95
4729905--4729951	21	2.2	21	88	0	67	42	19	14	23	1.88
4731185--4731248	27	2.4	27	76	12	69	68	6	9	15	1.36
4731311--4731355	23	2.0	23	82	8	56	53	0	8	37	1.32
4731987--4732020	17	2.0	17	88	0	50	82	5	0	11	0.83
4732864--4732924	23	2.7	23	84	2	88	37	18	9	34	1.83
4736996--4737033	20	1.9	20	94	0	67	18	15	34	31	1.92
4736889--4737033	65	2.2	64	83	9	170	26	16	24	32	1.96
4748915--4749232	50	6.5	49	78	4	164	28	16	14	41	1.86
4749039--4749451	50	8.4	49	73	11	219	30	16	14	38	1.89
4748912--4749459	49	11.2	50	74	9	348	29	16	14	39	1.88
4753742--4753775	11	3.1	11	91	0	50	20	5	32	41	1.76
4753767--4753862	20	4.8	21	76	12	94	30	16	19	33	1.94
4753784--4753860	40	1.9	41	89	7	122	29	18	19	32	1.95
4753845--4753964	61	2.0	60	82	12	147	31	23	14	30	1.94
4756456--4756494	17	2.3	17	86	8	53	61	12	5	20	1.50
4759435--4759462	6	4.7	6	100	0	56	85	0	0	14	0.59
4760120--4760257	39	3.6	39	85	1	181	30	23	29	15	1.96
4773657--4773972	105	2.9	107	85	3	429	22	20	18	38	1.93
4774872--4774986	8	13.9	8	85	10	144	12	13	0	73	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4774859--4774985	24	5.5	23	79	10	109	11	13	0	75	1.04
4774859--4774961	8	11.4	10	87	11	88	9	12	0	77	0.99
4780579--4780625	23	2.1	23	96	4	87	19	25	34	21	1.96
4780587--4780641	22	2.4	23	84	6	67	16	32	23	27	1.96
4788137--4788170	7	5.0	7	89	3	52	61	0	23	14	1.33
4788135--4788163	14	2.1	14	100	0	58	62	0	20	17	1.33
4794836--4794875	21	1.9	21	89	0	62	10	25	40	25	1.86
4794858--4794918	20	2.9	21	87	7	79	18	26	34	21	1.96
4800442--4800485	23	2.0	22	86	4	61	36	4	9	50	1.55
4806188--4806218	2	15.5	2	100	0	62	51	0	0	48	1.00
4808372--4808453	23	3.6	22	78	8	94	24	24	26	24	2.00
4808372--4808472	44	2.3	44	81	10	118	24	22	26	25	2.00
4814267--4814472	65	3.2	64	75	13	181	27	16	23	32	1.96
4815906--4816003	37	2.3	43	75	24	127	28	19	19	32	1.96
4815923--4816002	37	2.2	37	100	0	160	27	18	18	35	1.95
4821386--4821606	113	2.0	109	94	3	388	25	38	18	17	1.92
4826911--4827098	95	2.0	94	87	3	270	31	18	18	30	1.95
4828440--4828964	101	5.2	101	92	2	811	30	18	11	40	1.86
4828440--4829205	202	3.8	203	82	8	833	29	18	11	40	1.86
4828847--4829173	65	4.9	65	76	11	304	28	19	11	40	1.86
4828979--4829089	37	3.1	35	82	11	134	24	18	12	45	1.84
4828912--4829185	138	2.0	137	89	0	413	27	19	12	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4829120--4829206	37	2.4	37	76	1	95	28	21	14	34	1.94
4829670--4829870	96	2.1	98	97	2	381	28	27	19	23	1.98
4832090--4832121	13	2.5	13	94	0	55	62	0	6	31	1.20
4833419--4833457	17	2.3	18	87	12	57	41	5	0	53	1.23
4834183--4834242	2	30.0	2	100	0	120	50	0	0	50	1.00
4838864--4838919	18	3.2	17	78	14	60	53	0	0	46	1.00
4839070--4839317	82	3.1	81	87	4	349	24	17	20	37	1.94
4840113--4840582	80	5.9	78	81	8	445	36	16	20	26	1.93
4840100--4840547	118	3.8	117	82	5	517	38	16	19	26	1.92
4840113--4840582	198	2.4	198	90	2	732	36	16	20	26	1.93
4841014--4841755	250	3.0	249	87	2	1033	32	17	16	32	1.93
4841412--4841508	42	2.3	41	82	1	113	29	21	23	24	1.99
4841662--4841762	42	2.4	41	79	6	105	31	21	20	25	1.98
4842539--4842598	24	2.5	23	84	10	75	55	3	6	35	1.43
4845152--4845193	11	3.8	11	83	0	57	78	2	16	2	0.96
4848446--4848486	16	2.6	16	100	0	82	31	17	4	46	1.69
4848948--4849277	164	2.0	166	98	1	646	32	22	10	34	1.89
4849590--4849643	27	2.0	27	100	0	108	14	25	0	59	1.36
4849973--4850080	9	11.3	9	70	17	67	2	20	0	75	0.98
4849970--4850080	30	3.7	31	79	12	108	3	19	0	75	1.00
4850046--4850079	14	2.4	14	90	5	50	2	20	0	76	0.92
4851647--4851702	28	2.0	28	96	0	103	35	23	14	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4857220--4857263	23	1.9	23	85	0	61	43	20	11	25	1.85
4864312--4864379	31	2.2	32	79	12	79	42	1	5	50	1.35
4864849--4864884	18	2.1	17	89	5	54	41	0	2	55	1.14
4865108--4865175	28	2.4	28	95	0	118	26	22	19	32	1.97
4866155--4866334	39	4.8	38	91	4	253	45	3	7	43	1.50
4866298--4866356	25	2.4	25	91	2	93	42	6	8	42	1.61
4866262--4866394	61	2.2	61	87	4	189	42	6	8	42	1.59
4866323--4866451	36	3.9	35	79	16	152	46	4	6	42	1.49
4866235--4866451	96	2.2	96	83	9	264	45	4	7	42	1.52
4866323--4866471	30	4.7	31	79	12	128	46	4	5	43	1.45

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21