genome.fa.s5606.2.7.7.80.10.50.1000.6.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: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3509357

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  6  of  11  ( 1295 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)
1762922--1762957	16	2.2	17	90	5	56	36	2	19	41	1.66
1763407--1763534	67	1.9	67	81	9	154	28	17	14	39	1.88
1763475--1763785	102	3.1	102	84	6	409	31	16	11	39	1.85
1767740--1767792	24	2.4	21	78	12	54	39	5	5	49	1.50
1767740--1767788	22	2.1	22	85	7	62	36	4	6	53	1.45
1768401--1768430	14	2.1	15	93	6	53	50	0	6	43	1.28
1769953--1770005	19	2.7	20	76	2	54	18	3	5	71	1.21
1770670--1770715	17	2.6	18	82	6	58	45	0	2	52	1.13
1773870--1773982	44	2.6	44	74	5	111	23	16	23	36	1.94
1773958--1774064	33	3.2	32	81	7	92	22	15	20	41	1.90
1774152--1774890	44	16.8	44	65	4	214	29	20	19	30	1.97
1774023--1774902	133	6.7	133	87	1	1263	29	19	19	30	1.97
1774073--1774480	88	4.6	88	67	12	224	27	20	20	30	1.98
1774023--1774900	265	3.3	265	89	1	1320	29	19	19	30	1.97
1774057--1774896	397	2.1	397	88	1	1261	29	19	19	30	1.97
1775717--1775749	6	5.7	6	92	7	59	0	15	0	84	0.61
1775717--1775750	17	2.0	17	100	0	68	0	17	0	82	0.67
1775714--1775749	11	3.3	11	92	7	56	0	13	0	86	0.58
1789652--1789806	5	30.8	5	99	0	301	59	0	0	40	0.97
1790494--1790591	49	2.0	49	91	0	160	24	34	5	35	1.78
1799078--1799107	6	5.0	6	100	0	60	83	0	0	16	0.65
1800596--1801551	54	17.6	53	84	6	728	22	25	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800631--1801553	55	17.0	55	86	4	981	22	26	17	33	1.96
1801857--1802059	37	5.6	36	77	10	193	22	16	23	36	1.94
1807496--1807557	21	3.0	21	97	0	115	16	19	16	48	1.81
1807499--1807585	21	4.1	21	90	0	102	13	21	19	44	1.85
1815183--1815211	15	1.9	15	100	0	58	65	0	0	34	0.93
1815626--1815660	18	1.9	18	88	0	52	51	0	0	48	1.00
1818583--1818740	14	10.6	14	67	17	70	72	4	2	20	1.13
1818583--1818666	22	3.9	21	74	13	73	75	2	3	19	1.07
1818669--1818737	26	2.8	24	77	12	70	72	5	1	20	1.13
1818669--1818744	12	6.3	12	69	20	52	72	5	1	21	1.12
1819974--1820005	15	2.1	15	94	0	55	40	21	15	21	1.91
1820060--1820534	37	13.7	36	70	16	288	42	12	18	26	1.86
1820150--1820534	36	11.0	36	73	14	313	41	11	18	28	1.85
1819990--1820225	102	2.3	102	86	2	323	41	12	19	27	1.87
1820236--1820479	65	3.6	65	74	14	226	42	11	19	27	1.85
1820060--1820536	138	3.5	137	90	2	697	41	12	18	27	1.86
1820450--1820512	21	3.3	21	64	25	57	46	6	19	28	1.74
1821142--1821219	32	2.4	32	82	4	95	34	21	14	29	1.93
1822293--1822341	25	2.0	25	84	8	64	4	16	6	73	1.19
1822288--1822349	13	4.7	13	72	9	54	3	14	4	77	1.06
1824818--1824843	6	4.3	6	100	0	52	50	0	0	50	1.00
1825285--1825356	16	4.5	16	77	5	65	75	0	9	15	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1825281--1825344	33	1.9	33	84	6	85	78	0	9	12	0.97
1825290--1825368	24	3.2	24	74	15	81	75	1	6	16	1.06
1831248--1831302	19	2.8	19	91	2	83	30	14	5	49	1.66
1832636--1832685	22	2.3	22	92	0	82	26	32	4	38	1.75
1837409--1837515	44	2.4	44	89	6	153	33	23	5	37	1.78
1842316--1842355	20	2.0	21	90	5	64	40	27	0	32	1.57
1842781--1842806	3	8.7	3	100	0	52	69	30	0	0	0.89
1844372--1844417	20	2.3	20	88	3	67	36	0	26	36	1.57
1848300--1848348	24	2.1	22	85	7	62	77	2	4	16	1.01
1856755--1856897	78	1.8	77	82	4	180	39	9	4	46	1.59
1858525--1858582	26	2.2	26	87	0	80	50	5	12	32	1.62
1859493--1859525	16	2.0	17	88	5	50	51	12	9	27	1.69
1860120--1860160	21	2.0	20	85	4	55	75	4	0	19	0.98
1863954--1863992	18	2.2	18	100	0	78	20	23	0	56	1.42
1870772--1870829	26	2.2	26	87	0	80	50	5	12	32	1.62
1877760--1877835	32	2.4	31	80	10	82	31	2	6	59	1.37
1879366--1879720	179	2.0	183	97	2	682	25	12	9	52	1.69
1879616--1879659	23	1.9	23	81	9	54	18	6	0	75	1.02
1879996--1881379	697	2.0	699	97	0	2603	34	14	17	32	1.91
1881858--1881916	25	2.3	26	85	2	75	49	5	13	32	1.64
1881866--1881932	23	2.8	24	80	12	75	41	7	13	37	1.73
1884152--1884199	20	2.5	20	86	10	64	33	0	27	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1887359--1887393	13	2.7	13	90	0	52	31	17	8	42	1.79
1891190--1891226	15	2.5	15	100	0	74	10	21	45	21	1.82
1896925--1897030	53	2.0	53	100	0	212	32	35	15	16	1.90
1900689--1900721	16	2.1	16	88	5	50	30	6	6	57	1.47
1908127--1908157	5	6.2	5	92	0	53	22	0	0	77	0.77
1908129--1908163	10	3.5	10	92	0	52	25	2	0	71	1.00
1910736--1911317	162	3.6	164	82	3	669	38	16	17	27	1.91
1914054--1914373	160	2.0	160	100	0	640	46	20	10	22	1.80
1916392--1916439	24	2.0	24	100	0	96	33	4	20	41	1.72
1918670--1918722	21	2.5	21	79	14	56	26	13	18	41	1.87
1918879--1918929	20	2.5	20	96	0	93	25	29	15	29	1.96
1925056--1925100	19	2.3	19	84	3	54	28	22	15	33	1.95
1948246--1948386	58	2.5	57	87	2	201	33	8	17	41	1.79
1948643--1949509	68	12.8	68	87	0	1189	29	15	25	29	1.96
1949641--1949806	44	3.8	44	82	9	191	50	6	18	25	1.70
1949785--1949900	45	2.6	45	81	1	142	39	12	23	25	1.89
1950353--1950387	2	17.5	2	100	0	70	51	0	0	48	1.00
1952970--1953215	57	4.3	57	86	0	339	36	8	17	36	1.81
1953434--1954048	68	9.1	68	85	2	774	30	14	24	30	1.95
1954008--1954158	81	1.9	80	83	4	196	35	9	19	34	1.85
1954160--1954194	10	3.6	10	88	3	54	48	14	11	25	1.77
1954181--1954307	45	2.8	44	90	2	200	46	6	22	25	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1954191--1954415	45	5.0	44	82	5	155	42	9	22	25	1.84
1954169--1954416	90	2.7	90	78	7	225	43	9	20	25	1.83
1958735--1958866	57	2.3	57	85	1	174	41	9	13	35	1.76
1959085--1959706	68	9.1	68	86	1	800	30	13	24	31	1.94
1959825--1959963	45	3.1	44	89	2	197	47	7	20	24	1.76
1959941--1960070	45	2.9	45	81	3	154	37	13	23	24	1.92
1961061--1961128	34	2.0	34	100	0	136	29	11	11	47	1.76
1961256--1961312	28	2.0	28	83	6	71	29	12	19	38	1.88
1962523--1962560	20	1.9	20	94	0	67	31	34	15	18	1.92
1962571--1962730	66	2.5	65	86	6	209	32	22	17	27	1.96
1962571--1962751	66	2.8	65	83	6	208	31	23	17	27	1.97
1968109--1968285	90	2.0	90	94	1	311	44	6	11	38	1.66
1976416--1976479	24	2.9	21	73	13	65	31	20	18	29	1.96
1976415--1976490	21	3.5	21	69	20	57	31	21	19	27	1.97
1976416--1976513	45	2.2	44	87	8	137	28	22	21	27	1.99
1978375--1978414	14	2.9	14	100	0	80	40	0	45	15	1.46
1978797--1978904	45	2.3	46	81	6	130	30	21	18	29	1.97
1979922--1979968	23	2.0	23	83	0	58	51	19	19	10	1.75
1980148--1980187	10	3.9	10	80	6	53	62	0	37	0	0.95
1980147--1980186	21	1.9	21	94	0	71	65	0	35	0	0.93
1984879--1984951	35	2.1	36	89	2	112	26	9	24	39	1.86
1987344--1987411	20	3.3	20	66	18	59	30	26	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1987405--1987653	20	12.5	19	77	8	180	38	23	16	21	1.92
1987417--1987655	60	4.0	60	79	4	257	38	23	16	21	1.93
1987384--1987657	40	6.8	40	80	6	272	38	23	16	21	1.93
1987767--1987817	22	2.3	22	93	0	84	21	43	15	19	1.88
1988196--1988248	20	2.7	20	96	0	97	9	18	22	49	1.76
1988189--1988259	20	3.5	20	86	0	79	14	15	19	50	1.77
1990400--1990448	21	2.3	21	86	6	64	28	34	14	22	1.93
1990409--1990505	21	4.6	21	79	12	92	25	34	18	21	1.96
1991265--1991346	34	2.6	30	73	15	85	37	19	23	19	1.94
1991604--1991641	15	2.5	15	100	0	76	65	15	0	18	1.27

Tables:   1   2   3   4   5   6   7   8   9   10   11