genome.fa.s8209.2.7.7.80.10.50.1000.24.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  24  of  30  ( 3569 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)
5397670--5397706	18	2.1	19	85	10	51	45	0	0	54	1.00
5397925--5397970	23	2.0	24	87	12	69	34	0	2	63	1.07
5397912--5397973	28	2.2	28	82	8	72	35	0	1	62	1.05
5397925--5397970	24	2.0	24	91	4	76	34	0	2	63	1.07
5398524--5398579	28	2.1	26	87	12	78	32	5	3	58	1.37
5399067--5399157	46	1.9	49	84	6	125	35	13	20	30	1.91
5403488--5403524	13	2.8	14	88	8	51	86	0	13	0	0.57
5403470--5403523	17	3.0	18	86	5	65	85	5	9	0	0.75
5407811--5407887	22	3.5	22	80	3	93	33	15	14	36	1.88
5408581--5409229	47	14.0	47	93	1	1111	25	23	18	33	1.97
5408581--5409229	92	7.0	92	93	2	1090	25	23	18	33	1.97
5408581--5409229	139	4.7	138	93	2	1113	25	23	18	33	1.97
5409351--5409393	21	2.0	21	86	8	61	53	0	0	46	1.00
5409366--5409427	31	1.9	33	87	12	94	46	0	0	53	1.00
5411136--5411172	18	2.1	19	85	10	51	45	0	0	54	1.00
5411304--5411515	118	1.8	115	83	5	282	36	7	8	48	1.60
5422921--5422974	20	2.6	22	77	14	69	38	18	16	25	1.92
5428045--5428079	2	17.5	2	100	0	70	51	0	0	48	1.00
5433924--5433981	21	2.8	21	97	0	107	24	31	17	27	1.97
5434569--5434720	60	2.5	60	78	3	164	40	21	17	21	1.92
5434525--5434721	20	9.9	20	78	8	143	38	22	15	23	1.93
5435612--5435679	24	2.8	24	77	0	73	26	16	17	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5437940--5437975	18	2.0	18	94	0	63	55	25	2	16	1.55
5438265--5438375	20	5.3	20	80	10	114	36	21	21	19	1.95
5438261--5438375	45	2.8	40	82	12	149	37	22	20	19	1.94
5438428--5438471	20	2.1	22	87	8	65	18	20	20	40	1.91
5438532--5438581	25	2.0	25	96	0	91	26	8	22	44	1.80
5438755--5438803	25	2.0	25	95	0	89	32	22	10	34	1.88
5438974--5439028	24	2.3	25	84	9	78	32	5	16	45	1.70
5438985--5439037	24	2.2	24	86	0	70	35	3	15	45	1.64
5439339--5439425	39	2.2	39	95	0	156	47	19	14	18	1.83
5441205--5441308	21	4.9	21	70	15	72	23	17	32	26	1.96
5441210--5441308	42	2.4	41	77	13	103	23	18	31	27	1.97
5441452--5441501	4	12.5	4	86	0	73	70	2	0	28	0.99
5443461--5443518	20	3.0	20	89	2	82	50	17	18	13	1.79
5443807--5443857	22	2.3	22	86	0	66	25	11	39	23	1.89
5443985--5444069	20	4.2	20	78	14	86	20	17	22	40	1.92
5455499--5455541	2	21.0	2	86	13	61	46	0	4	48	1.22
5459604--5459818	113	1.9	112	91	2	351	29	13	20	37	1.90
5462620--5462664	21	2.1	21	87	0	63	31	28	24	15	1.96
5463496--5463590	32	3.0	32	80	11	115	30	17	17	33	1.94
5463495--5463592	31	3.2	30	80	11	117	29	19	17	33	1.95
5463581--5463703	30	4.1	30	95	1	212	21	21	26	30	1.98
5463974--5464045	6	12.0	6	96	0	117	45	2	1	50	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5463974--5464045	8	9.0	8	93	0	117	45	2	1	50	1.25
5467575--5467619	21	2.1	21	87	0	63	31	28	24	15	1.96
5468450--5468545	32	3.0	32	78	14	117	30	16	18	34	1.93
5468451--5468548	31	3.2	30	79	13	101	30	18	18	32	1.95
5468537--5468659	30	4.1	30	95	1	212	21	21	26	30	1.98
5468932--5468995	2	32.0	2	93	0	110	46	1	1	50	1.20
5471350--5471409	31	1.9	31	96	0	111	35	8	28	28	1.86
5473543--5473571	12	2.4	12	100	0	58	68	0	0	31	0.89
5473528--5473590	12	5.2	11	81	14	54	73	1	1	23	1.01
5475230--5475267	10	3.5	11	86	13	53	50	0	0	50	1.00
5475223--5475265	17	2.5	17	85	7	52	48	0	0	51	1.00
5477322--5477356	7	4.9	7	86	6	52	0	11	2	85	0.69
5477321--5477358	15	2.5	15	83	8	51	0	13	2	84	0.73
5480835--5480876	20	2.1	20	100	0	84	40	0	35	23	1.55
5480899--5481015	60	2.0	60	91	0	189	55	3	20	20	1.58
5488050--5488105	3	18.0	3	83	10	60	66	1	3	28	1.19
5488240--5488318	31	2.6	30	82	7	97	65	1	1	31	1.08
5489397--5489459	7	8.0	8	79	13	53	49	0	0	50	1.00
5489406--5489457	2	29.0	2	78	21	62	50	0	0	50	1.00
5489395--5489459	24	2.8	23	80	19	73	49	0	0	50	1.00
5489410--5489457	14	3.6	14	91	8	82	50	0	0	50	1.00
5489651--5489681	14	2.1	15	94	5	55	61	0	3	35	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5493576--5493617	22	2.0	21	90	4	66	28	0	2	69	1.01
5500645--5500715	20	3.4	21	76	9	74	33	32	9	23	1.88
5500642--5500741	42	2.4	41	83	3	112	34	28	12	26	1.92
5500729--5500795	20	3.3	20	80	0	80	37	19	16	26	1.93
5500667--5500798	40	3.2	40	76	6	106	35	23	13	27	1.92
5500965--5501012	22	2.2	22	88	0	69	18	45	16	18	1.85
5501352--5501390	20	2.0	20	100	0	78	53	20	10	15	1.70
5501371--5501404	14	2.3	15	90	5	52	55	17	11	14	1.68
5501433--5501503	20	3.5	20	80	0	88	15	9	19	54	1.68
5503000--5503098	42	2.4	42	87	0	144	28	35	18	18	1.94
5503213--5503265	21	2.5	21	78	0	61	20	11	32	35	1.88
5503251--5503391	63	2.2	63	80	7	153	21	11	30	36	1.89
5503337--5503395	21	2.8	21	97	0	109	20	13	28	37	1.91
5503698--5503767	21	3.3	21	80	11	81	22	34	20	22	1.97
5505323--5505457	20	6.8	20	90	0	198	25	20	19	34	1.96
5505306--5505457	60	2.5	60	86	0	214	24	20	18	36	1.94
5505294--5505468	20	8.8	20	86	0	136	22	20	20	37	1.94
5509007--5509050	20	2.1	21	84	12	56	43	9	25	22	1.82
5509117--5509169	21	2.5	22	75	9	56	30	7	24	37	1.83
5510831--5510874	19	2.3	19	84	0	52	36	29	11	22	1.89
5510955--5511103	40	3.7	38	74	12	104	30	23	11	34	1.90
5511037--5511104	20	3.4	20	75	15	68	30	20	11	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5512040--5512095	24	2.3	24	93	0	94	25	16	19	39	1.91
5514365--5514400	18	2.0	18	88	0	54	58	22	2	16	1.51
5516084--5516160	21	3.7	21	92	0	127	23	19	36	20	1.95
5516487--5516602	21	5.5	21	66	8	65	32	35	12	19	1.89
5516717--5516815	42	2.4	42	87	0	144	17	17	36	29	1.92
5518729--5518775	22	2.1	22	84	7	60	19	17	42	21	1.89
5523953--5524009	28	2.0	29	82	6	71	21	21	12	45	1.83
5525868--5525909	22	1.9	22	85	9	59	30	4	0	64	1.14
5526788--5526860	30	2.5	31	80	13	82	38	9	20	31	1.85
5531732--5531795	32	2.0	31	90	3	101	40	1	9	48	1.45
5533495--5533560	24	2.5	28	78	21	95	46	7	3	42	1.47
5533508--5533559	24	2.2	24	100	0	104	48	5	3	42	1.45
5533907--5534120	85	2.5	85	84	4	254	33	18	19	28	1.95
5534100--5534154	13	4.2	13	83	0	74	34	20	18	27	1.95
5534092--5534146	26	2.1	26	86	0	74	38	16	18	27	1.92
5535009--5535062	9	6.0	9	77	0	63	27	7	18	46	1.76
5535005--5535061	27	2.1	27	86	0	78	29	7	17	45	1.75
5535010--5535062	18	2.9	18	91	0	88	28	5	18	47	1.72
5535859--5535923	33	2.0	33	96	0	121	43	13	15	27	1.85
5536153--5536198	20	2.3	20	88	7	67	26	6	23	43	1.78
5536589--5536688	18	5.6	18	67	9	78	39	4	20	37	1.71
5536586--5536688	36	2.9	36	88	0	152	38	4	19	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5538901--5538941	10	4.1	10	84	9	57	75	0	17	7	1.02
5538904--5538938	11	3.4	11	92	7	56	80	0	14	5	0.89
5539883--5539933	17	2.9	17	72	13	50	37	9	9	43	1.71
5540947--5541014	30	2.3	31	82	5	77	41	5	17	35	1.74
5541222--5541271	9	5.6	9	82	0	64	24	8	18	50	1.73
5541222--5541271	18	2.8	18	87	0	73	24	8	18	50	1.73
5542270--5542317	20	2.4	20	96	0	87	27	8	20	43	1.80
5542694--5542793	18	5.6	18	67	9	78	39	3	21	37	1.69
5542691--5542793	36	2.9	36	86	0	152	38	3	20	36	1.71
5544514--5544538	12	2.1	12	100	0	50	40	8	28	24	1.83

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