genome.fa.s8364.2.7.7.80.10.50.1000.23.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  23  of  27  ( 3136 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)
5168421--5168647	79	2.9	78	89	1	339	27	12	21	38	1.89
5168574--5168748	57	3.1	57	86	0	251	27	15	21	36	1.93
5169726--5169758	16	2.1	16	100	0	66	24	33	24	18	1.97
5172071--5172138	30	2.3	30	97	0	127	36	27	4	30	1.77
5172202--5172268	34	1.9	34	82	14	84	20	8	19	50	1.74
5173933--5174013	22	3.6	22	89	1	126	24	28	25	20	1.99
5173947--5174009	10	5.5	13	65	27	52	26	25	25	22	2.00
5174666--5174691	2	13.0	2	100	0	52	50	0	0	50	1.00
5175707--5175751	21	2.1	21	87	0	63	15	24	28	31	1.96
5178924--5179004	22	3.6	22	96	1	144	24	29	27	18	1.98
5178938--5179000	10	5.5	13	65	27	52	26	26	26	19	1.99
5180287--5180334	18	2.7	18	81	12	55	37	20	6	35	1.78
5180693--5180737	21	2.1	21	91	0	72	15	26	28	28	1.96
5185713--5185768	2	28.0	2	100	0	112	50	0	0	50	1.00
5188567--5188605	18	2.3	17	91	8	62	66	10	0	23	1.22
5188450--5188625	90	2.0	90	89	0	271	56	11	3	28	1.51
5188808--5188905	44	2.3	43	80	8	110	24	14	7	54	1.65
5190739--5190791	3	18.0	3	84	11	74	33	0	0	66	0.92
5198389--5198436	4	13.0	4	83	16	68	50	27	0	22	1.50
5198385--5198436	18	2.9	18	100	0	104	50	26	0	23	1.50
5198393--5198435	14	3.1	14	93	0	68	51	27	0	20	1.48
5198889--5199128	105	2.3	103	84	7	299	30	19	12	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5199090--5199193	36	3.0	35	80	6	115	32	20	11	35	1.88
5199431--5199534	29	3.7	29	87	7	153	29	9	15	45	1.78
5199597--5199786	64	2.9	65	82	4	206	30	11	12	45	1.78
5200145--5200205	31	2.0	30	81	12	70	34	14	9	40	1.79
5200198--5200241	15	2.9	15	93	0	70	31	20	4	43	1.72
5200493--5200572	36	2.3	35	80	6	90	32	16	11	40	1.84
5200493--5200593	36	2.8	35	80	8	89	35	17	9	36	1.83
5200772--5201007	43	5.5	44	72	11	170	25	32	19	22	1.97
5200772--5201039	43	6.2	45	70	14	154	26	32	18	23	1.97
5200759--5201048	130	2.2	129	91	0	454	26	30	19	23	1.98
5201215--5201258	3	14.0	3	86	9	61	36	0	0	63	0.95
5201222--5201271	23	2.2	23	82	7	57	36	4	0	60	1.16
5208021--5208056	19	1.9	19	88	5	56	50	13	22	13	1.77
5209816--5209913	24	4.2	24	71	8	85	23	14	17	44	1.85
5212643--5212684	22	2.0	21	90	4	66	30	7	2	59	1.37
5218069--5218224	50	3.1	50	83	5	174	17	32	28	21	1.96
5219711--5219748	12	3.3	12	82	14	53	34	2	50	13	1.55
5230001--5230038	9	4.1	9	83	16	51	76	2	2	18	1.02
5229992--5230030	15	2.6	14	84	11	51	76	2	0	20	0.90
5230083--5230125	10	4.4	9	80	13	50	81	0	6	11	0.87
5230082--5230125	19	2.3	19	85	11	63	79	0	6	13	0.92
5230232--5230319	18	5.1	17	70	19	56	70	0	4	25	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5230353--5230411	2	30.0	2	81	10	68	49	1	3	45	1.28
5230403--5230473	23	3.1	22	73	11	63	69	0	4	26	1.07
5230396--5230435	14	2.7	14	84	7	53	65	0	2	32	1.06
5230400--5230479	41	1.9	42	82	7	101	70	0	5	25	1.08
5232787--5232969	65	2.8	65	85	3	224	38	9	20	31	1.85
5232918--5233036	36	3.3	36	84	2	157	38	14	20	26	1.91
5232930--5233021	37	2.5	36	87	1	121	42	16	20	20	1.89
5233927--5234022	32	2.9	33	84	3	131	37	20	10	31	1.87
5234939--5235076	69	2.0	69	95	0	249	24	15	23	36	1.93
5235152--5235216	13	4.9	14	87	7	75	1	18	4	75	1.05
5235144--5235216	26	2.8	26	84	11	89	1	19	4	75	1.04
5238287--5238353	25	2.8	24	75	8	64	74	5	4	14	1.17
5238323--5238353	14	2.2	14	94	0	53	77	0	0	22	0.77
5238558--5238613	16	3.2	17	77	10	60	73	0	3	23	0.99
5238714--5238762	25	2.0	25	88	8	73	57	0	4	38	1.18
5238732--5238771	14	2.7	14	92	7	62	62	0	2	35	1.09
5238791--5238821	14	2.2	14	100	0	62	64	0	0	35	0.94
5239896--5239955	21	2.7	22	72	12	61	45	3	3	48	1.35
5243795--5243891	3	33.3	3	74	6	74	69	7	19	4	1.29
5243803--5243888	14	6.4	14	89	6	90	69	8	17	4	1.30
5243859--5243897	11	3.4	12	82	10	55	71	0	15	12	1.14
5246835--5246869	15	2.3	15	95	0	61	17	20	34	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5256762--5256787	9	2.9	9	100	0	52	53	46	0	0	1.00
5259144--5259199	22	2.6	22	94	2	96	17	44	21	16	1.86
5260483--5261436	271	3.5	273	80	5	953	33	17	12	36	1.88
5270404--5270510	20	5.3	19	74	12	72	40	19	18	21	1.92
5270383--5270532	41	3.7	41	84	3	196	39	21	17	22	1.92
5270368--5270539	81	2.1	82	86	3	240	38	22	18	20	1.93
5271147--5271218	33	2.2	33	89	0	108	44	23	20	11	1.84
5271243--5271305	20	3.2	20	84	6	83	14	23	17	44	1.85
5273962--5273997	14	2.6	14	90	0	54	30	0	22	47	1.52
5274137--5274310	19	9.8	19	76	19	189	14	22	17	44	1.85
5274137--5274310	53	3.3	52	87	7	219	14	22	17	44	1.85
5274196--5274291	34	2.9	33	92	3	165	15	22	16	44	1.86
5274143--5274341	86	2.3	86	93	0	344	14	23	18	43	1.87
5274177--5274341	52	3.1	52	82	7	192	14	23	18	43	1.87
5274321--5274368	20	2.5	20	82	3	62	22	22	22	31	1.99
5276779--5276832	24	2.2	24	93	0	90	40	20	18	20	1.91
5276779--5276846	24	2.8	24	84	0	64	38	20	17	23	1.93
5277684--5277962	20	13.9	20	76	9	151	20	18	21	38	1.93
5277692--5277962	40	6.8	40	78	6	235	20	18	22	39	1.93
5280743--5280790	19	2.5	20	82	3	62	29	12	6	52	1.63
5282037--5282080	18	2.4	18	96	0	79	20	25	38	15	1.92
5284185--5284324	21	6.8	21	72	20	91	43	0	2	53	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5284174--5284242	22	2.7	27	72	27	78	42	0	2	55	1.15
5284207--5284278	36	2.0	36	84	13	94	47	0	1	51	1.09
5284141--5284334	86	2.3	86	85	7	254	44	0	1	53	1.13
5284813--5284872	31	1.9	31	96	0	111	43	8	6	41	1.61
5285436--5285598	84	1.9	85	94	1	292	35	9	9	45	1.69
5291896--5291977	40	2.0	40	97	0	155	45	15	0	39	1.47
5298059--5298224	65	2.6	63	79	9	174	25	17	23	33	1.96
5298883--5298911	14	2.0	15	93	6	51	62	27	3	6	1.37
5299722--5299754	15	2.2	15	100	0	66	36	36	0	27	1.57
5300542--5300625	21	4.0	21	85	3	116	14	26	40	19	1.89
5304037--5304079	21	2.0	21	90	0	68	16	25	41	16	1.88
5305328--5305399	21	3.4	21	75	9	67	23	20	25	30	1.99
5305281--5305399	43	2.8	43	76	11	118	23	21	25	29	1.99
5305313--5305399	42	2.0	44	84	8	117	24	21	25	28	1.99
5311191--5311351	65	2.5	65	87	5	220	26	18	23	31	1.98
5311191--5311400	65	3.2	65	80	7	180	28	18	22	31	1.97
5312232--5312272	16	2.6	16	84	11	57	53	2	2	41	1.27
5313730--5313758	4	7.2	4	100	0	58	24	0	24	51	1.48
5315728--5315752	12	2.1	12	100	0	50	52	0	0	48	1.00
5319817--5319913	44	2.2	44	86	0	131	24	10	19	45	1.81
5321393--5321494	44	2.3	44	89	3	152	26	8	23	41	1.83
5321650--5321753	42	2.5	42	90	0	154	21	12	15	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5321953--5322095	28	5.5	23	72	21	81	49	0	1	48	1.15
5322095--5322156	23	2.6	23	82	10	63	51	0	1	46	1.10
5324466--5324543	31	2.5	32	82	2	95	28	29	26	15	1.96
5333296--5333348	18	2.9	18	88	0	88	16	18	33	30	1.94
5339412--5339456	22	2.0	22	86	0	63	35	8	2	53	1.45
5339465--5339552	32	2.8	32	84	6	101	39	4	1	54	1.28
5339465--5339571	32	3.4	32	79	14	100	43	5	0	49	1.32
5339486--5339578	32	2.9	32	80	13	104	44	5	0	50	1.25
5348276--5348606	165	2.0	165	99	0	653	29	12	19	37	1.89
5350252--5350292	9	4.1	10	80	20	50	29	9	0	60	1.28

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