genome.fa.s8252.2.7.7.80.10.50.1000.8.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: VEPZ01008252.1 Hibiscus syriacus cultivar Beakdansim tig00110904_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2928487

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  8  of  13  ( 1474 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)
1606197--1606415	83	2.6	83	94	0	375	37	22	13	26	1.91
1607765--1607814	12	4.0	12	78	5	55	0	22	0	78	0.76
1607778--1607814	13	2.8	13	84	15	58	0	21	0	78	0.75
1607780--1607821	14	3.1	14	86	3	59	0	21	0	78	0.75
1619738--1619763	1	26.0	1	100	0	52	0	0	0	100	0.00
1620181--1620275	3	32.0	3	80	10	106	67	2	1	29	1.09
1620182--1620275	21	4.5	21	85	1	118	68	2	1	28	1.08
1625363--1625413	20	2.5	20	100	0	102	25	17	31	25	1.97
1625962--1626012	22	2.4	22	80	12	61	43	1	27	27	1.66
1631624--1631672	15	3.2	15	77	5	53	57	14	6	22	1.59
1631839--1631881	18	2.4	18	88	0	59	37	30	4	27	1.77
1633039--1633063	2	12.5	2	100	0	50	52	48	0	0	1.00
1633550--1633589	19	2.1	19	85	0	53	27	10	12	50	1.72
1644048--1644143	33	2.9	33	96	0	174	38	9	18	33	1.83
1644654--1644795	58	2.5	56	87	4	212	45	3	8	42	1.51
1644654--1644811	58	2.8	55	80	10	183	46	3	7	42	1.48
1648300--1648644	102	3.4	100	82	5	408	29	4	32	33	1.77
1648300--1648698	102	3.9	100	80	5	385	30	4	32	32	1.78
1649077--1649485	2	209.0	2	65	22	140	45	2	4	47	1.35
1649116--1649266	11	13.5	11	70	22	66	43	1	5	49	1.36
1649161--1649304	45	3.3	45	81	6	109	45	1	3	50	1.27
1652660--1652732	24	3.2	24	62	18	64	35	10	20	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652577--1652731	44	3.5	43	85	6	195	38	9	21	31	1.84
1653067--1653111	19	2.4	19	100	0	90	28	4	15	51	1.63
1653713--1653764	25	2.1	25	96	0	95	36	9	23	30	1.87
1654097--1654159	32	1.9	32	87	3	90	46	3	6	44	1.45
1656621--1656990	131	2.8	131	83	2	467	41	15	10	32	1.81
1659730--1659797	23	3.0	23	84	0	91	30	23	26	19	1.98
1661761--1661800	11	3.5	11	93	3	62	77	0	20	2	0.88
1661761--1661800	17	2.4	17	87	8	55	77	0	20	2	0.88
1661840--1661887	14	3.4	14	88	8	62	79	0	18	2	0.84
1662703--1662824	65	1.9	65	92	0	208	38	19	15	26	1.92
1663075--1663113	20	2.0	20	89	0	60	30	33	15	20	1.94
1663133--1663223	46	2.0	46	89	2	139	28	25	18	27	1.98
1669195--1669581	192	2.0	194	98	1	760	30	21	8	40	1.82
1670744--1670787	21	2.1	21	82	0	52	9	43	15	31	1.79
1674927--1674967	18	2.4	17	84	8	55	17	4	0	78	0.93
1674945--1674973	15	1.9	15	100	0	58	24	0	0	75	0.80
1674945--1674989	16	2.9	16	87	9	58	20	4	0	75	0.97
1674947--1674990	15	2.9	15	82	3	52	20	4	0	75	0.98
1675749--1675841	48	1.9	48	84	0	123	33	29	10	26	1.90
1677966--1678028	21	3.0	21	76	4	63	30	26	15	26	1.96
1683851--1683889	20	1.9	20	85	15	53	38	0	25	35	1.56
1684711--1684768	22	2.8	21	84	7	73	27	25	24	22	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1687169--1687196	2	14.0	2	100	0	56	50	0	0	50	1.00
1690075--1690132	29	2.0	29	100	0	116	37	6	10	44	1.65
1692039--1692083	21	2.1	21	91	0	72	26	31	22	20	1.98
1697586--1697634	3	16.7	3	95	4	91	34	0	0	65	0.93
1698507--1698550	2	22.0	2	88	0	61	52	4	0	43	1.22
1703403--1703854	59	7.7	59	91	1	694	34	19	11	34	1.88
1704222--1704362	74	1.9	75	88	1	212	26	20	17	36	1.94
1706270--1706330	27	2.3	27	91	0	95	37	9	21	31	1.86
1710093--1710123	16	1.9	16	93	0	53	48	25	3	22	1.66
1710792--1711149	134	2.7	131	83	1	446	25	33	17	23	1.96
1714010--1714091	41	2.0	41	95	0	146	23	12	19	45	1.84
1716002--1716039	20	2.0	20	94	5	69	47	5	15	31	1.68
1731420--1731480	28	2.1	29	96	3	115	21	21	16	40	1.91
1733212--1733253	22	1.9	22	85	9	59	40	0	4	54	1.21
1736127--1736427	153	2.0	147	95	4	449	40	6	13	39	1.72
1751969--1752015	23	2.2	23	85	11	64	40	4	19	36	1.71
1753462--1753742	54	5.2	53	80	5	305	35	18	19	26	1.95
1760237--1760679	54	8.2	54	89	2	660	34	20	18	26	1.96
1771919--1772277	131	2.7	131	83	1	432	32	10	16	41	1.82
1776208--1776238	2	15.5	2	100	0	62	48	0	0	51	1.00
1776941--1777333	54	7.3	54	87	2	538	37	15	14	32	1.88
1776994--1777303	161	1.9	161	92	1	523	37	13	13	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1783510--1784953	731	2.0	731	86	1	2041	35	15	20	28	1.94
1785574--1785609	16	2.2	16	100	0	72	77	0	22	0	0.76
1785570--1785648	7	11.0	7	75	15	63	77	2	18	1	0.96
1785567--1785653	23	3.8	22	73	15	70	77	2	19	1	0.95
1785573--1785654	29	2.8	29	80	12	80	76	2	19	1	0.96
1786941--1787168	114	2.0	114	100	0	456	35	19	14	30	1.92
1787206--1787400	97	2.0	97	98	0	381	19	25	26	28	1.99
1788797--1789494	133	5.3	133	79	3	676	32	23	15	28	1.95
1791502--1791551	25	2.1	23	88	7	73	58	2	6	34	1.34
1792135--1792247	59	1.9	59	90	0	181	30	17	23	28	1.97
1792702--1792736	13	2.6	13	90	4	52	62	2	2	31	1.24
1794710--1794735	3	8.7	3	100	0	52	69	0	0	30	0.89
1794869--1795536	135	5.0	134	79	5	629	33	19	17	30	1.94
1794886--1795536	270	2.4	268	81	5	737	33	19	17	30	1.94
1796759--1796823	10	6.5	10	79	12	71	1	13	1	83	0.80
1796740--1796790	17	2.8	19	80	16	56	1	21	0	76	0.88
1796765--1796824	21	2.9	20	78	7	66	3	13	1	81	0.89
1796759--1796823	30	2.2	30	86	5	87	1	13	1	83	0.80
1796739--1796822	7	11.9	7	72	16	57	1	17	1	79	0.86
1796783--1796820	17	2.2	18	90	4	60	0	13	2	84	0.73
1812452--1812513	7	9.0	7	78	8	56	1	16	1	80	0.87
1812439--1812514	15	4.8	15	78	12	71	1	18	1	78	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1812452--1812514	33	2.0	32	84	9	85	1	15	1	80	0.86
1824839--1824875	18	2.0	20	89	10	60	70	0	0	29	0.88
1829383--1829968	292	2.0	293	94	0	1021	28	19	16	34	1.94
1838150--1838188	2	19.5	2	100	0	78	48	0	0	51	1.00
1838841--1838874	17	2.1	16	88	5	50	76	0	8	14	1.01
1842701--1842738	20	1.9	19	89	5	58	65	0	13	21	1.26
1849093--1849126	17	2.1	16	88	5	50	76	0	8	14	1.01
1864039--1864078	21	1.9	21	89	0	62	10	25	40	25	1.86
1867926--1867965	21	1.9	21	85	10	55	35	10	2	52	1.48
1877948--1877993	20	2.2	21	88	3	67	28	13	21	36	1.91
1877948--1878000	21	2.6	20	87	3	70	28	15	20	35	1.93
1881966--1882070	35	3.0	35	94	0	192	33	20	5	40	1.77
1884064--1884113	21	2.2	23	82	13	59	64	6	0	30	1.18
1888848--1888918	28	2.5	28	75	4	72	73	0	12	14	1.11
1888974--1889008	17	2.1	17	89	10	54	71	0	5	22	1.07
1890271--1890360	3	28.3	3	78	16	85	67	2	2	27	1.14
1890277--1890360	20	4.4	19	76	15	68	67	2	2	27	1.15
1890375--1890667	35	7.9	36	87	7	333	45	6	3	45	1.44
1890375--1890629	72	3.5	72	87	5	336	46	6	2	44	1.42
1890549--1890602	27	2.0	27	85	3	72	50	5	3	40	1.44
1890589--1890613	11	2.3	11	100	0	50	44	8	8	40	1.63
1891319--1892452	84	13.7	84	79	5	1134	24	20	24	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891319--1892452	332	3.4	327	83	3	1314	24	20	24	30	1.99
1891339--1892452	248	4.5	248	85	2	1409	24	20	24	30	1.98
1896500--1896533	5	6.8	5	100	0	68	82	0	0	17	0.67
1897747--1897776	14	2.1	15	93	6	53	60	3	6	30	1.39
1897749--1897789	17	2.4	16	84	15	55	65	2	4	26	1.25
1899062--1899145	3	27.3	3	75	20	68	65	2	1	30	1.13
1899063--1899159	9	10.3	10	71	25	54	63	3	1	31	1.16
1899153--1899376	35	6.2	35	89	6	322	45	6	2	45	1.44
1899153--1899376	72	3.1	71	90	5	342	45	6	2	45	1.44
1899348--1899415	28	2.5	28	88	6	97	52	4	2	39	1.36

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13