genome.fa.s7961.2.7.7.80.10.50.1000.8.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: VEPZ01007961.1 Hibiscus syriacus cultivar Beakdansim tig00110388_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2700559

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

This is table  8  of  12  ( 1371 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)
1573127--1573166	21	1.9	21	89	0	62	15	27	25	32	1.95
1583958--1584474	255	2.1	246	86	8	728	26	12	19	40	1.88
1584848--1584889	18	2.4	18	92	4	68	28	33	7	30	1.84
1585157--1585200	16	2.6	16	85	10	52	59	0	0	40	0.98
1590694--1590726	12	2.8	12	90	4	50	66	0	0	33	0.92
1590995--1591046	20	2.6	20	96	0	95	38	26	13	21	1.90
1591102--1591295	20	9.6	20	76	8	76	35	25	19	19	1.95
1591098--1591295	40	5.0	39	81	4	200	35	26	19	19	1.95
1591102--1591294	60	3.2	60	83	0	251	35	25	19	19	1.95
1591676--1591746	33	2.2	33	92	0	115	11	22	18	47	1.80
1591867--1591937	33	2.2	33	92	0	115	43	25	21	9	1.83
1591933--1592030	19	5.7	19	70	22	81	10	24	22	42	1.84
1591955--1592044	14	5.7	14	74	23	81	8	25	23	42	1.83
1591938--1592052	33	3.5	33	95	0	212	9	24	20	45	1.81
1593749--1594127	93	4.1	93	97	1	726	22	12	18	46	1.83
1593749--1594129	184	2.1	186	97	1	730	22	12	18	46	1.83
1594171--1594299	19	7.3	19	75	17	125	45	28	17	8	1.77
1594207--1594299	33	2.8	32	91	4	150	46	27	18	7	1.76
1594171--1594299	52	2.5	52	74	14	140	45	28	17	8	1.77
1594295--1594429	19	7.6	19	75	16	128	11	19	23	45	1.82
1594317--1594373	14	3.7	14	77	20	60	10	21	22	45	1.82
1594300--1594392	33	2.8	33	95	0	168	10	20	21	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596332--1596367	14	2.6	14	95	0	63	33	0	22	44	1.53
1596474--1596575	19	5.6	19	84	13	151	44	17	23	14	1.86
1596604--1596877	19	15.4	19	81	15	354	14	20	18	47	1.83
1596582--1596849	52	5.0	52	92	4	437	14	21	17	46	1.83
1596604--1596844	109	2.3	102	83	11	176	14	21	17	46	1.83
1599156--1599180	12	2.1	12	100	0	50	0	28	0	72	0.86
1599355--1599401	24	2.0	24	87	8	69	38	21	14	25	1.92
1600084--1600452	20	18.5	20	86	5	451	20	18	26	34	1.96
1614358--1614400	20	2.2	20	95	0	77	62	2	9	25	1.37
1619062--1619257	90	2.2	91	86	5	272	26	25	25	23	2.00
1621837--1621910	30	2.5	30	93	4	123	29	24	27	18	1.98
1623191--1623310	35	3.3	36	89	5	181	43	20	5	31	1.73
1623242--1623302	21	3.2	21	65	29	64	42	21	4	31	1.74
1623193--1623337	35	4.1	36	83	11	142	41	19	6	33	1.76
1626863--1626894	16	2.0	16	93	0	55	34	25	6	34	1.81
1627305--1627424	35	3.3	36	89	5	181	43	20	5	31	1.73
1627356--1627416	21	3.2	21	65	29	64	42	21	4	31	1.74
1627307--1627451	35	4.1	36	83	11	142	41	19	6	33	1.76
1635924--1636013	43	2.1	43	93	0	153	24	6	20	48	1.73
1639356--1639542	95	2.0	95	97	0	356	34	22	18	23	1.96
1649871--1649929	29	2.0	29	100	0	118	23	13	13	49	1.78
1652109--1652154	23	2.0	23	100	0	92	43	4	13	39	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1655110--1655185	40	1.9	38	84	5	98	43	1	6	48	1.37
1655184--1655237	27	2.0	27	85	0	72	38	5	9	46	1.59
1655197--1655499	37	8.6	36	76	17	232	45	3	6	44	1.46
1655197--1655493	107	2.9	105	77	13	262	45	3	6	44	1.47
1655317--1655493	68	2.6	68	75	13	175	46	2	6	44	1.43
1655488--1655554	23	3.0	23	78	10	59	34	1	0	64	1.03
1655530--1655569	19	2.2	18	90	4	62	22	7	0	70	1.12
1656018--1656078	26	2.3	26	97	0	113	19	24	27	27	1.99
1660047--1660210	57	2.9	57	85	0	211	31	28	18	20	1.97
1666852--1666892	20	2.0	20	90	0	64	34	9	4	51	1.56
1667228--1667294	34	2.0	34	96	0	125	34	13	16	35	1.88
1687478--1687566	31	2.9	31	87	0	133	35	13	14	35	1.86
1687484--1687585	31	3.3	31	83	0	78	34	11	13	40	1.81
1692621--1692894	101	2.7	99	88	1	377	28	14	19	37	1.91
1698932--1699325	111	3.5	111	91	0	635	37	20	18	23	1.94
1699540--1699758	111	2.0	110	87	3	314	33	17	23	25	1.96
1701434--1701494	29	2.1	29	96	3	115	34	0	13	52	1.40
1710032--1710059	2	14.0	2	100	0	56	50	0	0	50	1.00
1717426--1717473	22	2.2	22	85	7	62	31	14	4	50	1.62
1717768--1717806	2	19.5	2	100	0	78	51	0	0	48	1.00
1717806--1717841	2	18.0	2	100	0	72	50	0	50	0	1.00
1719120--1719151	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1719931--1719962	16	2.0	16	93	0	55	34	6	25	34	1.81
1726613--1726653	21	2.0	21	95	0	73	24	24	26	24	2.00
1729186--1729215	13	2.4	13	94	5	53	66	3	0	30	1.07
1730169--1730212	20	2.1	21	83	4	54	0	20	11	68	1.20
1730695--1730774	3	26.7	3	89	0	124	62	0	3	33	1.13
1731023--1731782	113	6.7	113	89	1	1141	28	19	13	38	1.90
1731021--1731782	339	2.3	337	96	1	1393	28	19	13	38	1.90
1732315--1732679	83	4.4	82	93	2	563	34	21	13	29	1.92
1733415--1733459	18	2.6	18	89	6	67	53	8	6	31	1.58
1733797--1733865	7	10.1	7	84	12	90	2	13	0	84	0.74
1733783--1733864	13	6.3	13	82	13	98	2	14	0	82	0.76
1733783--1733865	27	3.2	26	81	13	98	2	14	0	83	0.75
1733783--1733863	34	2.5	34	84	11	107	2	14	0	82	0.77
1744467--1744508	18	2.4	17	84	11	50	69	4	0	26	1.08
1745167--1745196	13	2.4	13	94	5	53	66	3	0	30	1.07
1746680--1746798	3	39.7	3	91	0	193	63	0	2	34	1.08
1753264--1753297	9	3.7	9	92	4	50	50	14	8	26	1.72
1754784--1754834	25	2.0	25	85	7	68	29	9	29	31	1.89
1766428--1766486	20	2.8	20	82	7	64	22	32	27	18	1.97
1769039--1769082	23	2.0	23	81	4	54	50	11	2	36	1.51
1772213--1772293	24	3.5	24	70	20	75	22	24	22	30	1.99
1777561--1777648	20	4.4	19	79	11	88	27	22	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777540--1777648	40	2.7	40	82	4	139	29	22	13	34	1.92
1778577--1778647	24	3.0	24	89	0	97	29	18	16	35	1.93
1779261--1779294	17	2.1	16	88	5	50	76	0	8	14	1.01
1785850--1785883	17	2.1	16	88	5	50	76	0	8	14	1.01
1786357--1786403	24	2.0	24	83	8	60	57	12	2	27	1.47
1787558--1787955	207	1.9	207	91	3	649	41	23	8	25	1.83
1789065--1789179	21	5.5	21	80	0	104	21	19	35	23	1.96
1789065--1789187	42	2.9	42	90	0	165	22	18	35	22	1.95
1789479--1789537	21	2.8	21	97	0	109	37	28	13	20	1.91
1789479--1789619	21	6.7	22	75	11	84	34	32	12	19	1.90
1791147--1791188	20	2.1	20	90	0	66	16	14	21	47	1.82
1791667--1791704	20	1.9	20	94	0	67	23	10	31	34	1.89
1794115--1794144	14	2.1	15	93	6	53	53	0	6	40	1.27
1801166--1801209	23	1.9	23	85	0	61	27	9	0	63	1.24
1801165--1801200	16	2.3	16	90	4	56	30	8	0	61	1.26
1807899--1807932	2	17.0	2	100	0	68	50	0	0	50	1.00
1808210--1808245	17	2.1	17	100	0	72	55	16	0	27	1.42
1812637--1812661	13	1.9	13	100	0	50	40	16	20	24	1.91
1813340--1813380	22	1.9	22	90	5	66	34	9	0	56	1.32
1814784--1814839	20	2.7	20	81	13	69	30	21	26	21	1.98
1815324--1815386	21	3.1	20	84	11	83	20	20	28	30	1.98
1815328--1815420	18	4.9	18	84	8	123	18	20	32	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1815324--1815420	39	2.6	38	88	6	135	18	20	30	29	1.97
1821826--1821986	85	1.9	87	89	5	256	32	12	8	47	1.70
1823326--1823694	20	18.5	20	85	4	458	34	26	18	20	1.96
1824367--1824413	24	2.0	24	87	8	69	25	14	21	38	1.92
1826913--1827237	19	18.4	19	80	16	396	47	17	20	14	1.83
1826913--1827237	33	9.2	34	81	14	312	47	17	20	14	1.83
1826945--1827259	160	2.0	156	93	3	542	46	17	21	14	1.83
1826941--1827259	52	6.0	52	92	4	541	46	16	21	14	1.83
1827266--1827366	20	5.6	19	82	14	142	14	23	17	43	1.87
1827472--1827506	13	2.7	13	90	0	61	48	22	0	28	1.51

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