genome.fa.s8087.2.7.7.80.10.50.1000.8.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  8  of  37  ( 4336 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)
1608035--1608096	23	2.7	23	76	16	67	27	1	0	70	0.96
1608035--1608101	22	3.3	20	75	18	68	26	1	0	71	0.94
1608040--1608126	27	3.3	26	80	7	86	24	2	1	72	1.03
1608076--1608135	21	3.0	20	74	16	52	20	3	1	75	1.04
1608174--1608221	18	2.7	18	79	17	55	20	8	0	70	1.12
1608181--1608227	22	2.0	24	84	8	62	21	12	0	65	1.25
1609864--1609909	17	2.7	18	73	10	51	30	2	2	65	1.16
1609889--1609930	22	1.9	22	90	9	68	30	0	2	66	1.04
1610520--1610669	75	2.0	75	96	1	275	19	13	12	54	1.70
1616214--1616296	30	2.8	30	80	5	89	60	25	10	3	1.46
1626370--1626419	22	2.3	22	82	0	64	42	4	0	54	1.19
1630165--1630220	28	2.0	28	100	0	112	32	10	17	39	1.84
1631832--1631892	20	3.2	19	75	6	61	49	3	4	42	1.40
1632063--1632148	38	2.3	38	86	8	129	38	24	9	27	1.86
1632152--1632195	20	2.2	20	83	0	52	29	22	11	36	1.89
1634326--1634382	20	2.8	20	76	10	53	47	0	10	42	1.38
1647927--1647999	32	2.3	32	79	15	89	38	0	4	57	1.18
1647932--1647975	23	1.9	23	90	0	70	40	0	2	56	1.11
1648979--1649073	35	2.8	32	76	16	111	54	8	2	34	1.42
1649616--1649833	119	1.8	120	80	8	266	28	13	15	41	1.86
1653364--1653393	15	2.0	15	93	0	51	43	0	0	56	0.99
1657629--1657695	30	2.2	30	97	0	125	23	17	14	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1659806--1659838	16	2.1	16	100	0	66	42	24	12	21	1.86
1664907--1664987	29	2.7	30	80	3	101	16	3	17	62	1.46
1665057--1665105	23	2.1	23	88	0	71	28	18	22	30	1.97
1671610--1671674	31	2.1	31	88	0	94	27	23	9	40	1.85
1685359--1685442	31	2.8	30	81	5	89	41	2	8	47	1.46
1685359--1685443	29	2.8	29	79	10	82	41	2	8	48	1.46
1686339--1686407	16	4.1	16	74	18	52	75	1	2	20	1.01
1686339--1686384	5	9.4	5	77	13	51	76	0	2	21	0.90
1686480--1686535	13	4.4	13	80	10	62	71	0	1	26	0.96
1686471--1686589	26	4.7	25	70	21	81	66	0	3	29	1.13
1686505--1686561	20	2.8	20	82	12	71	66	0	1	31	1.02
1686502--1686612	21	5.3	21	70	15	77	65	1	2	29	1.16
1686732--1686782	25	2.0	25	85	7	68	62	0	3	33	1.13
1687250--1687343	37	2.5	37	89	0	134	32	11	14	40	1.83
1687793--1687873	23	3.5	23	70	12	58	27	12	13	46	1.79
1689110--1689153	11	3.8	11	82	8	52	22	4	0	72	1.02
1689105--1689169	24	2.6	25	76	14	62	24	3	1	70	1.10
1689137--1689185	20	2.5	20	84	12	66	20	2	0	77	0.87
1689393--1689448	12	4.7	12	73	6	51	46	10	14	28	1.78
1696585--1696641	10	5.7	10	87	8	80	33	14	1	50	1.52
1696584--1696641	30	1.9	30	92	0	98	34	13	1	50	1.52
1697932--1697966	18	2.0	18	88	5	54	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701542--1701584	21	2.1	21	86	4	61	46	9	4	39	1.57
1701664--1701777	7	16.3	7	100	0	228	42	0	57	0	0.98
1707664--1707702	20	1.9	21	84	5	53	76	2	10	10	1.10
1707921--1707961	2	20.5	2	100	0	82	51	0	0	48	1.00
1707983--1708095	35	3.4	32	73	16	97	67	0	5	26	1.18
1708600--1708670	35	2.0	35	86	0	97	29	18	11	40	1.85
1710183--1710222	17	2.2	19	86	8	57	35	0	0	65	0.93
1713918--1713978	23	2.7	23	86	0	95	27	26	26	19	1.99
1723864--1723905	21	2.0	21	100	0	84	14	9	19	57	1.64
1724737--1725128	193	2.0	196	96	3	729	32	18	25	22	1.97
1732895--1732928	16	2.0	18	88	11	54	29	0	14	55	1.40
1739043--1739113	18	3.8	18	83	7	97	18	19	32	29	1.96
1739034--1739113	18	4.2	19	79	9	92	18	18	32	30	1.95
1754965--1754996	2	16.0	2	100	0	64	50	0	0	50	1.00
1755874--1755903	3	10.0	3	100	0	60	33	0	0	66	0.92
1758062--1758086	3	8.3	3	100	0	50	68	32	0	0	0.90
1777707--1777757	21	2.4	21	93	0	84	17	23	29	29	1.97
1780109--1780156	26	1.9	24	83	8	60	18	8	31	41	1.80
1780524--1780584	31	2.0	31	86	0	86	36	13	22	27	1.92
1780988--1781043	26	2.2	26	80	6	60	37	7	3	51	1.47
1781744--1781775	10	3.3	10	95	4	57	18	40	0	40	1.51
1782648--1782707	31	2.0	31	96	3	113	23	26	16	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1783048--1783083	16	2.2	17	90	5	56	50	2	0	47	1.15
1785697--1785748	23	2.3	23	89	0	86	42	25	5	26	1.77
1785697--1785761	23	2.9	23	84	6	71	41	26	4	27	1.75
1788931--1788998	23	3.0	23	84	0	91	17	26	27	27	1.98
1792565--1792605	21	2.0	21	85	0	55	29	29	24	17	1.97
1794023--1794091	23	3.0	23	76	0	75	20	24	23	31	1.98
1795747--1795812	27	2.4	27	87	5	89	18	28	25	27	1.98
1796885--1796935	23	2.2	23	83	16	61	41	7	15	35	1.76
1799416--1799469	27	1.9	29	85	7	76	38	5	1	53	1.35
1799447--1799513	34	2.0	34	82	5	82	44	4	2	47	1.38
1820119--1820145	10	2.7	10	100	0	54	22	0	33	44	1.53
1824594--1824917	163	2.0	162	92	3	544	37	11	19	30	1.88
1825333--1826115	259	3.0	259	96	1	1417	32	16	13	37	1.88
1837403--1837462	30	2.0	30	90	6	95	31	6	16	45	1.74
1837542--1837639	20	4.7	21	78	16	89	23	33	20	22	1.97
1837660--1837714	20	2.8	20	97	0	101	16	30	20	32	1.94
1839174--1839233	29	2.0	31	90	6	97	33	5	16	45	1.69
1839310--1839354	21	2.1	21	91	0	72	22	37	20	20	1.94
1840836--1841005	84	2.0	84	96	2	315	44	8	27	20	1.80
1842796--1842854	30	2.0	31	86	6	86	32	8	16	42	1.79
1842934--1843053	21	5.7	21	84	9	156	22	37	19	20	1.94
1843240--1843279	20	1.9	22	90	10	66	37	40	10	12	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1843801--1843923	30	4.1	30	81	7	115	35	8	12	43	1.74
1843803--1843891	30	2.9	31	86	3	117	31	8	13	46	1.74
1846898--1847038	74	1.9	72	88	2	210	40	18	17	24	1.91
1873402--1873427	11	2.4	11	100	0	52	92	7	0	0	0.39
1883517--1883555	20	2.0	20	84	0	51	43	15	0	41	1.46
1887458--1887495	18	2.1	18	85	9	51	15	28	0	55	1.41
1889907--1889976	32	2.3	30	90	5	104	58	5	15	20	1.57
1890340--1890373	16	2.1	17	88	5	52	17	11	29	41	1.85
1892256--1892334	16	5.0	16	78	1	88	10	13	31	44	1.78
1892246--1892338	48	2.0	47	91	2	150	11	11	31	45	1.77
1893082--1893114	13	2.8	12	86	13	50	45	0	0	54	0.99
1894702--1894771	34	2.1	34	91	0	113	17	18	17	47	1.83
1895903--1895928	12	2.2	12	100	0	52	30	11	0	57	1.34
1907658--1907686	11	2.6	11	100	0	58	44	31	10	13	1.78
1912893--1913629	370	2.0	375	96	2	1369	46	12	10	31	1.75
1913891--1913924	3	11.3	3	100	0	68	67	0	0	32	0.91
1914400--1914504	37	2.8	37	83	0	138	33	11	14	40	1.81
1915234--1916698	106	14.0	106	88	4	1916	23	18	24	33	1.96
1917515--1917557	22	2.0	22	90	0	68	25	9	25	39	1.85
1921447--1921484	19	2.0	20	89	5	60	68	0	23	7	1.16
1922595--1922690	37	2.6	37	88	0	138	32	12	13	41	1.82
1927305--1927353	25	1.9	26	83	4	64	51	14	4	30	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1931876--1932038	80	2.0	81	91	1	265	23	28	19	28	1.98
1938241--1938303	26	2.4	26	91	0	99	42	25	14	17	1.87
1938472--1938537	27	2.4	27	90	5	98	42	33	9	15	1.78
1938472--1938527	28	2.0	27	93	3	94	46	32	7	14	1.71
1940402--1940428	11	2.5	11	100	0	54	81	0	0	18	0.69
1940792--1940821	13	2.4	13	94	5	53	56	0	0	43	0.99
1943759--1944063	167	1.8	167	99	0	601	48	4	7	39	1.53
1945923--1945978	19	2.9	19	86	5	69	28	14	19	37	1.91
1948111--1948181	18	3.9	18	90	0	115	23	32	23	19	1.98
1951286--1951386	35	2.9	34	94	2	168	39	0	14	45	1.45

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