genome.fa.s190.2.7.7.80.10.50.1000.23.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  23  of  62  ( 7381 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)
5611601--5611640	21	1.9	21	94	0	71	15	17	20	47	1.83
5613612--5613688	38	2.0	39	89	2	120	33	2	5	58	1.34
5613622--5613705	19	4.5	19	74	14	68	33	3	3	59	1.32
5613660--5613706	19	2.5	19	89	3	69	31	6	0	61	1.21
5613685--5613721	13	2.7	14	84	15	51	37	2	0	59	1.12
5616184--5616246	23	2.8	23	87	2	92	34	28	12	23	1.92
5616332--5616390	20	3.0	20	87	0	91	59	11	16	11	1.61
5616332--5616403	20	3.6	19	84	3	72	61	12	13	12	1.58
5618587--5618710	6	20.5	6	73	1	68	7	11	41	40	1.69
5618587--5618696	24	4.5	24	76	1	85	8	12	40	38	1.73
5618660--5618728	18	3.8	18	84	0	84	5	5	46	42	1.52
5618591--5618722	24	5.5	24	77	0	84	8	9	41	40	1.68
5618664--5618728	6	10.8	6	79	0	58	6	4	47	41	1.49
5618665--5618722	12	4.8	12	86	0	71	6	5	44	43	1.53
5618677--5618728	24	2.2	24	89	0	77	5	3	48	42	1.45
5618686--5618737	24	2.2	24	82	0	59	11	3	44	40	1.59
5618929--5619104	90	1.9	91	85	6	241	31	6	27	33	1.83
5638015--5638061	21	2.3	21	85	3	60	36	6	4	53	1.46
5640418--5640508	33	3.2	27	75	22	80	45	4	4	46	1.43
5640441--5640628	33	5.6	33	80	10	195	42	5	5	46	1.52
5640470--5640615	18	8.3	18	73	14	126	42	6	6	45	1.54
5640470--5640615	69	2.1	71	90	2	233	42	6	6	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5640444--5640628	102	1.8	101	84	6	257	41	5	5	46	1.52
5640600--5640638	13	3.0	13	84	0	51	35	5	5	53	1.45
5640750--5640784	15	2.4	15	95	4	63	48	0	5	45	1.26
5640753--5640815	27	2.3	28	76	15	69	52	3	4	39	1.38
5640872--5640938	7	9.4	7	82	9	64	49	2	4	43	1.38
5640850--5640932	43	2.0	41	83	9	105	45	3	6	44	1.45
5641031--5641065	18	1.9	18	88	0	52	45	2	5	45	1.41
5641084--5641156	22	3.4	22	77	5	78	38	4	6	50	1.48
5643242--5643297	16	3.5	15	80	9	58	26	21	10	41	1.86
5643452--5643617	21	8.0	21	70	23	79	35	7	2	54	1.41
5643460--5643597	56	2.4	56	84	12	181	35	6	2	55	1.41
5643516--5643629	38	3.1	35	79	17	126	35	7	2	53	1.44
5643460--5643679	22	10.2	22	76	15	121	36	8	1	53	1.42
5643454--5643629	36	4.9	35	81	15	152	35	7	2	54	1.41
5643447--5643617	14	11.9	14	69	24	90	35	7	2	54	1.40
5643525--5643673	14	10.2	14	73	18	78	36	10	1	51	1.44
5643777--5643823	24	2.0	24	83	8	60	48	2	14	34	1.56
5644657--5644706	2	26.0	2	84	8	68	48	0	4	48	1.20
5643690--5645261	534	2.9	530	80	11	1492	47	6	12	33	1.67
5644893--5644938	24	1.9	24	82	8	58	50	2	13	34	1.53
5644119--5645257	581	2.0	572	88	4	1707	47	6	11	34	1.66
5645328--5645707	2	189.5	2	65	20	118	49	2	5	42	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5645441--5645766	33	9.2	37	68	20	114	49	3	5	42	1.41
5645556--5645622	31	2.1	32	89	8	102	40	7	0	52	1.30
5645576--5645714	27	4.8	30	70	19	80	48	2	3	45	1.31
5645854--5646011	13	12.2	13	72	20	102	51	2	9	36	1.48
5645868--5645986	6	18.7	6	75	19	59	52	2	9	35	1.47
5645609--5645774	29	5.8	29	67	24	102	53	1	5	39	1.34
5645901--5645993	42	2.2	43	81	14	120	52	3	7	36	1.46
5646693--5646734	21	2.0	21	95	0	75	21	23	26	28	1.99
5647200--5647352	21	7.3	21	78	13	122	50	0	10	37	1.41
5647212--5647281	30	2.6	26	79	18	72	51	0	10	38	1.36
5647237--5647301	20	3.2	20	93	2	103	50	0	9	40	1.34
5647212--5647356	14	10.6	13	67	22	59	51	0	9	38	1.35
5647292--5647689	2	206.0	2	64	21	93	42	4	3	50	1.39
5647276--5647338	33	1.9	32	87	9	92	49	0	11	39	1.38
5647599--5647666	11	6.4	11	73	13	70	48	1	1	48	1.19
5647574--5647659	33	2.5	35	78	12	99	47	2	2	47	1.27
5650024--5650092	24	2.9	24	97	0	129	43	15	10	30	1.80
5651469--5651522	20	2.7	20	76	20	58	46	9	0	44	1.35
5651591--5651629	2	19.0	2	89	5	60	46	0	2	51	1.14
5651626--5651683	22	2.5	24	72	16	59	37	8	1	51	1.43
5651644--5651792	51	3.1	50	76	16	177	33	7	2	56	1.41
5651691--5651948	22	12.0	22	70	20	74	38	6	3	51	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5651593--5651793	73	2.8	72	77	12	166	36	6	2	54	1.39
5651691--5651815	66	1.9	66	80	12	150	34	8	3	54	1.46
5651616--5651863	95	2.6	96	81	8	283	37	6	2	53	1.43
5651811--5652109	2	148.5	2	64	18	104	44	4	3	48	1.36
5651814--5651953	42	3.2	44	78	16	130	42	5	3	49	1.42
5652001--5652106	13	7.5	13	77	18	79	46	2	1	49	1.27
5651889--5652029	53	2.7	53	72	16	139	43	4	4	47	1.42
5654772--5654835	23	2.7	23	83	7	67	59	10	12	17	1.61
5655141--5655181	14	2.9	14	82	13	57	60	9	14	14	1.57
5655870--5656435	284	2.0	282	97	0	1078	28	15	18	37	1.92
5661255--5661300	22	2.1	22	100	0	92	36	23	13	26	1.91
5679350--5679387	20	1.9	20	94	0	67	26	18	18	36	1.94
5681673--5681726	22	2.3	24	87	6	76	51	14	24	9	1.71
5684823--5684848	2	13.0	2	100	0	52	50	0	0	50	1.00
5685169--5685212	15	2.9	15	86	0	61	11	63	15	9	1.51
5695456--5695497	22	1.9	22	85	9	59	35	23	9	30	1.87
5696971--5697184	29	7.4	28	75	11	146	36	2	16	44	1.62
5696971--5697184	58	3.7	58	79	6	218	36	2	16	44	1.62
5696970--5697166	87	2.3	87	81	7	222	35	3	17	44	1.64
5711182--5711219	20	1.9	20	89	10	60	18	15	0	65	1.27
5712916--5712946	15	2.1	15	100	0	62	32	0	12	54	1.38
5713935--5713973	19	2.1	19	95	0	69	25	25	35	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5715794--5715832	12	3.2	12	82	7	51	15	43	25	15	1.86
5715791--5715832	13	3.3	13	83	6	59	16	42	26	14	1.86
5715840--5716076	57	4.1	56	82	7	233	35	2	16	45	1.61
5715840--5716076	29	8.1	29	84	5	221	35	2	16	45	1.61
5727259--5727301	14	3.1	14	83	12	61	20	30	20	27	1.98
5740429--5740494	21	3.2	21	76	2	80	34	16	10	37	1.83
5742688--5742721	2	17.0	2	100	0	68	50	0	0	50	1.00
5742719--5745978	4	836.8	4	92	6	5630	24	0	25	49	1.52
5748939--5748963	7	3.6	7	100	0	50	24	28	32	16	1.96
5755999--5756029	13	2.3	14	94	5	55	22	29	32	16	1.95
5755999--5756029	7	4.6	7	92	8	55	22	29	32	16	1.95
5756057--5756135	19	4.1	19	75	4	77	25	30	25	18	1.98
5756934--5757069	29	4.7	29	89	2	186	33	6	9	50	1.61
5756934--5757091	58	2.7	58	85	2	212	31	6	9	51	1.61
5756971--5757100	29	4.6	28	90	2	100	32	8	9	50	1.65
5760842--5760907	27	2.4	28	75	10	64	40	4	12	42	1.62
5764379--5764424	19	2.5	20	89	7	62	17	21	32	28	1.96
5764434--5764510	5	14.2	5	74	15	64	18	50	22	9	1.74
5764434--5764510	22	3.5	22	98	0	145	18	50	22	9	1.74
5764458--5764517	17	3.2	17	79	20	75	18	48	23	10	1.78
5771577--5771645	9	7.3	9	84	9	84	14	28	28	27	1.95
5771577--5771639	19	3.3	18	84	8	81	14	26	30	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5771578--5771645	29	2.4	29	85	9	95	13	29	29	27	1.94
5771642--5771690	5	9.8	5	82	12	57	20	53	22	4	1.63
5771660--5771696	17	2.2	17	100	0	74	18	45	24	10	1.81
5774437--5774589	65	2.4	65	83	5	186	26	18	22	32	1.97
5784238--5784280	12	3.7	12	75	6	52	53	34	9	2	1.46
5784240--5784291	23	2.3	23	93	0	86	53	34	7	3	1.48
5784731--5784774	2	21.5	2	86	4	61	43	2	0	54	1.12
5784786--5784943	5	31.6	5	69	17	57	18	6	1	74	1.10
5784774--5784860	13	6.8	12	72	13	59	17	3	1	78	0.96
5784772--5784860	26	3.2	25	77	15	79	17	3	1	77	0.97

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62