genome.fa.s7816.2.7.7.80.10.50.1000.5.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: VEPZ01007816.1 Hibiscus syriacus cultivar Beakdansim tig00110151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3994936

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  5  of  14  ( 1594 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)
1551481--1551551	23	3.2	23	62	34	55	33	22	2	40	1.69
1551191--1551814	266	2.3	266	88	2	914	32	23	6	37	1.81
1551947--1552058	59	1.9	59	83	7	147	33	19	10	35	1.87
1552091--1552602	59	8.8	59	73	8	438	31	23	9	35	1.87
1552091--1552602	117	4.4	117	92	0	837	31	23	9	35	1.87
1561751--1561797	22	2.1	22	100	0	94	36	25	8	29	1.86
1563323--1563502	45	4.0	45	86	2	256	33	20	6	40	1.77
1563323--1563502	89	2.0	90	88	5	267	33	20	6	40	1.77
1565450--1565514	30	2.2	30	88	5	96	33	21	9	35	1.85
1566145--1566169	13	1.9	13	100	0	50	24	12	8	56	1.62
1570303--1570332	11	2.7	11	100	0	60	40	0	10	50	1.36
1573322--1573360	20	2.0	20	90	10	62	41	30	12	15	1.85
1581565--1581633	31	2.5	26	77	20	84	18	20	23	37	1.94
1581573--1581645	31	2.3	32	88	6	114	21	21	24	31	1.98
1585788--1586162	185	2.0	183	92	2	626	40	2	9	46	1.52
1591659--1591731	24	3.2	24	64	18	64	45	13	20	20	1.85
1591653--1591804	45	3.4	45	90	2	243	42	13	23	20	1.87
1598040--1598188	45	3.3	45	90	2	228	44	12	21	20	1.85
1602287--1602401	49	2.4	46	82	4	131	25	21	8	44	1.81
1602453--1603077	81	7.7	81	80	3	609	29	23	11	35	1.89
1602503--1603051	242	2.3	243	84	1	717	29	23	11	35	1.90
1602453--1603077	162	3.9	162	81	2	693	29	23	11	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603027--1603281	68	3.8	68	89	0	375	28	26	14	30	1.95
1603476--1603796	55	5.9	55	84	3	290	33	16	13	36	1.88
1603511--1603796	55	5.2	55	88	2	396	33	16	14	36	1.89
1604138--1604195	22	2.8	20	80	10	62	29	27	13	29	1.94
1604218--1604268	20	2.5	20	87	6	68	19	31	17	31	1.95
1608228--1608342	49	2.4	46	78	15	119	26	19	6	48	1.71
1608404--1608931	81	6.6	81	79	8	539	28	24	11	35	1.90
1608404--1608931	162	3.3	160	81	6	617	28	24	11	35	1.90
1608778--1608923	72	2.0	72	85	2	195	30	24	8	36	1.85
1608881--1609134	68	3.8	68	89	3	370	31	25	14	28	1.95
1608881--1609134	135	1.9	136	90	2	404	31	25	14	28	1.95
1609352--1609600	55	4.6	55	86	2	324	34	20	12	32	1.90
1613220--1613293	22	3.2	22	75	16	69	55	16	0	28	1.41
1613265--1613650	32	13.7	32	70	29	301	52	13	0	34	1.41
1613248--1613661	54	7.5	54	81	13	479	52	13	0	34	1.41
1613297--1613339	22	2.0	22	100	0	86	51	13	0	34	1.42
1613299--1613352	22	2.5	22	84	6	65	57	12	0	29	1.36
1613265--1613661	90	4.7	86	81	13	456	52	13	0	34	1.40
1613387--1613429	22	2.0	22	95	0	77	48	13	0	37	1.43
1613389--1613437	22	2.2	22	85	3	62	53	14	0	32	1.41
1613265--1613661	80	4.7	83	82	13	414	52	13	0	34	1.40
1613443--1613517	22	3.2	23	75	17	82	54	17	0	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1613160--1613595	224	2.0	216	94	4	761	52	13	0	33	1.41
1613594--1613677	33	2.4	34	88	7	116	50	8	0	41	1.33
1613620--1613693	15	4.5	15	69	21	58	51	5	0	43	1.24
1613486--1613677	22	6.4	33	70	28	144	51	10	0	38	1.37
1613159--1613716	134	4.1	134	81	11	512	52	12	0	35	1.39
1614276--1614590	156	2.0	158	98	1	616	42	5	18	33	1.72
1615207--1615244	20	1.9	20	94	0	67	31	7	36	23	1.84
1615288--1615352	22	3.2	20	81	10	78	32	15	24	27	1.95
1620958--1620984	12	2.2	12	100	0	54	29	33	14	22	1.94
1625169--1625202	18	1.9	17	88	5	50	44	0	20	35	1.52
1626051--1626179	59	2.2	59	85	0	177	27	17	24	29	1.98
1626280--1626409	44	2.9	44	95	3	226	37	6	23	32	1.81
1627361--1627509	45	3.3	45	83	3	176	36	12	23	26	1.91
1634447--1634551	45	2.3	45	90	0	156	24	31	20	23	1.98
1637378--1637415	18	2.1	18	85	9	51	36	2	5	55	1.37
1638247--1638283	15	2.4	16	90	9	67	27	10	29	32	1.90
1641370--1641409	18	2.1	18	86	9	53	40	0	2	57	1.12
1641378--1641421	17	2.4	18	85	14	56	36	2	4	56	1.32
1641752--1641828	24	3.4	23	71	20	72	35	16	14	33	1.89
1646533--1646718	91	2.0	94	95	3	342	36	15	25	23	1.93
1647152--1647180	14	2.0	15	93	6	51	34	27	31	6	1.83
1673839--1673878	19	2.0	20	95	4	73	30	17	5	47	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673842--1673889	19	2.5	19	86	6	62	33	20	4	41	1.72
1682854--1682930	21	3.7	21	94	0	136	37	10	25	25	1.88
1682986--1683200	41	5.2	41	94	0	367	28	21	20	29	1.98
1683006--1683118	21	5.5	21	66	12	81	28	20	22	29	1.98
1683027--1683181	20	7.6	20	70	9	116	27	24	20	28	1.99
1686007--1686161	79	2.0	79	81	0	184	29	23	14	32	1.94
1691460--1692093	316	2.0	314	89	1	959	27	18	6	47	1.72
1693824--1694044	117	1.9	117	89	3	347	32	32	16	19	1.94
1694864--1694920	17	3.4	17	97	0	105	40	12	3	43	1.59
1694921--1694961	20	2.0	22	85	9	59	34	21	24	19	1.97
1695004--1695051	23	2.1	23	92	0	78	14	20	45	18	1.85
1694958--1695038	18	4.5	18	88	0	117	14	23	40	20	1.90
1696422--1696483	23	2.8	23	73	4	56	54	20	12	11	1.68
1697496--1697552	21	2.7	21	78	5	62	35	12	33	19	1.89
1702842--1703014	94	1.8	95	85	3	242	40	15	17	27	1.89
1702969--1703021	22	2.6	21	85	8	65	41	16	16	24	1.89
1703357--1703783	55	7.9	55	87	3	623	36	11	18	34	1.87
1703357--1703783	108	3.9	110	87	3	623	36	11	18	34	1.87
1703780--1703912	49	2.8	48	86	4	196	30	14	22	33	1.93
1708780--1708825	18	2.3	21	85	14	62	39	10	19	30	1.86
1708891--1708948	22	2.6	22	88	0	89	37	17	18	25	1.93
1709284--1709791	55	9.3	55	86	0	685	36	11	17	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709760--1709823	32	2.0	32	90	0	101	18	17	26	37	1.93
1709705--1709878	87	2.0	87	94	0	303	29	13	21	35	1.92
1709792--1709912	55	2.2	55	95	0	215	34	11	18	35	1.87
1709655--1709912	142	1.8	142	90	1	419	33	12	19	35	1.88
1709792--1709963	55	3.0	55	86	4	200	32	13	18	36	1.89
1710177--1710309	47	2.8	47	82	4	160	31	12	23	32	1.92
1710316--1710407	46	2.0	46	80	4	105	43	11	19	25	1.85
1711578--1711771	97	2.0	96	96	1	361	39	7	3	50	1.46
1711781--1711860	38	2.0	41	83	7	103	37	10	1	51	1.44
1711997--1712127	27	4.7	26	78	15	97	35	1	2	61	1.18
1711825--1712145	29	11.1	29	75	11	194	36	5	1	56	1.32
1712149--1712289	29	4.7	30	81	7	153	53	0	7	39	1.34
1713525--1713656	59	2.2	59	83	0	156	29	25	16	28	1.97
1717292--1717341	18	2.7	18	90	6	73	2	12	4	82	0.90
1721517--1721674	45	3.6	44	88	5	239	37	6	22	32	1.81
1722123--1722173	22	2.3	22	93	0	84	25	27	29	17	1.98
1724344--1724403	30	2.0	30	83	3	75	33	23	11	31	1.91
1726941--1727110	48	3.6	48	83	2	191	41	12	18	27	1.87
1740390--1740435	20	2.3	19	85	14	58	26	15	8	50	1.73
1750688--1750733	20	2.3	19	85	14	58	26	15	8	50	1.73
1761549--1761602	20	2.7	20	80	8	56	68	1	14	14	1.30
1773481--1773560	2	40.5	2	92	2	135	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1773618--1773915	85	3.5	85	83	4	377	31	16	20	31	1.95
1781460--1781504	21	2.1	21	91	0	72	15	31	11	42	1.82
1786262--1786301	21	1.9	21	100	0	80	42	7	20	30	1.79
1810032--1810168	36	3.9	36	94	1	233	24	16	16	42	1.88
1818043--1818177	36	3.8	36	95	0	243	25	17	15	41	1.89
1820580--1820633	20	2.7	20	85	2	63	20	22	12	44	1.85
1820589--1820633	20	2.2	20	92	0	72	20	24	13	42	1.87
1831228--1831300	36	2.0	36	86	0	101	46	35	0	17	1.49
1831281--1831310	13	2.2	14	94	5	53	56	33	0	10	1.32
1832495--1832531	17	2.2	17	90	0	56	70	2	5	21	1.20

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14