genome.fa.s8460.2.7.7.80.10.50.1000.9.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: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2854393

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  9  of  15  ( 1744 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)
1523903--1523984	19	4.6	19	79	14	95	12	20	21	45	1.84
1523939--1524023	20	4.4	19	83	5	91	14	22	23	40	1.90
1526111--1526154	22	2.0	22	95	0	79	18	15	45	20	1.85
1526342--1526435	20	4.7	20	80	2	89	23	18	24	34	1.96
1526362--1526538	41	4.3	42	84	3	123	20	21	19	38	1.94
1526322--1526436	20	5.7	20	78	5	88	23	17	23	35	1.95
1526425--1526558	21	6.6	20	78	4	142	18	23	17	39	1.92
1526405--1526558	82	1.9	81	86	6	222	19	23	18	38	1.93
1526425--1526561	41	3.3	41	97	0	256	18	23	17	40	1.91
1527579--1527628	19	2.7	20	74	20	54	40	0	0	60	0.97
1530129--1530203	31	2.5	31	80	8	93	42	2	0	54	1.14
1530129--1530203	30	2.6	27	78	16	78	42	2	0	54	1.14
1530129--1530212	29	2.9	29	78	7	82	40	3	0	55	1.17
1530298--1530351	20	2.7	20	80	11	56	53	3	0	42	1.18
1531520--1531607	38	2.3	38	81	14	126	38	12	11	37	1.79
1531870--1531909	20	2.0	20	100	0	80	40	10	15	35	1.80
1532532--1532649	39	3.1	39	72	11	136	50	11	5	32	1.61
1534073--1534142	35	1.9	38	83	13	94	51	4	2	41	1.36
1538898--1538959	24	2.6	24	86	0	79	14	9	22	53	1.70
1540469--1540553	10	8.7	10	72	19	72	9	10	21	58	1.59
1540485--1540549	16	4.1	16	91	0	112	7	10	23	58	1.57
1540475--1540549	26	3.0	26	74	18	79	8	10	22	58	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540619--1540650	16	2.0	16	100	0	64	6	12	25	56	1.59
1546418--1546465	25	2.0	25	87	4	71	35	12	20	31	1.90
1556625--1556668	21	2.2	20	84	12	54	68	2	0	29	1.02
1561408--1561445	18	2.2	18	85	4	51	63	10	0	26	1.27
1567402--1567509	53	2.0	53	100	0	216	43	16	21	18	1.88
1568071--1568411	114	2.9	114	82	4	380	40	20	13	25	1.89
1569846--1570065	107	2.0	108	96	0	406	45	2	6	45	1.43
1574114--1574172	30	2.0	30	93	3	102	35	23	16	23	1.95
1574117--1574211	29	3.2	30	82	5	86	33	24	18	23	1.97
1574173--1574295	32	3.9	32	71	13	103	32	19	17	30	1.95
1575802--1575846	21	2.1	21	87	0	63	15	24	28	31	1.96
1579142--1579214	30	2.4	30	93	0	119	31	24	19	24	1.98
1579200--1579327	31	4.1	31	76	6	132	33	20	17	28	1.96
1579203--1579321	63	1.9	62	87	5	177	31	20	18	29	1.96
1580753--1580797	21	2.1	21	87	0	63	15	24	28	31	1.96
1588215--1588299	43	2.0	43	95	0	152	48	22	10	18	1.79
1595488--1595552	15	3.9	17	77	15	64	69	0	3	27	1.03
1609539--1609883	174	2.0	173	99	0	681	23	23	18	34	1.96
1610909--1610956	23	2.1	23	84	0	60	35	10	18	35	1.85
1611376--1611448	23	3.2	23	90	0	110	38	20	5	35	1.76
1611796--1611864	20	3.2	22	81	10	88	39	23	5	31	1.78
1612205--1612279	21	3.5	21	81	16	75	40	21	2	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1612210--1612279	22	3.2	22	89	4	97	40	21	2	35	1.68
1611023--1612476	414	3.5	427	93	5	2493	38	12	8	41	1.72
1612685--1612765	38	2.1	38	86	4	110	17	13	20	48	1.81
1613034--1613069	18	2.1	17	89	5	54	52	11	5	30	1.59
1613332--1613381	25	2.0	25	96	0	91	44	22	8	26	1.80
1613658--1613720	23	2.7	23	92	0	99	38	20	4	36	1.74
1614148--1614210	23	2.7	23	90	0	90	38	19	4	38	1.73
1613482--1614557	490	2.2	490	99	0	2116	41	11	7	39	1.70
1614556--1614621	25	2.6	25	80	0	87	42	13	9	34	1.76
1617085--1617577	183	2.7	183	94	0	844	34	17	14	34	1.90
1619081--1619149	9	7.7	9	83	0	84	24	33	4	37	1.75
1619081--1619149	15	4.6	15	87	0	84	24	33	4	37	1.75
1619081--1619164	18	4.7	18	84	0	96	22	33	5	38	1.79
1619085--1619161	12	6.4	12	87	0	82	22	33	6	37	1.80
1619081--1619149	6	11.5	6	85	0	84	24	33	4	37	1.75
1620628--1621790	199	5.9	198	95	1	2077	30	17	15	36	1.91
1621909--1621957	19	2.6	19	86	0	71	55	10	4	30	1.52
1623846--1623889	21	2.1	21	91	0	70	15	31	11	40	1.83
1626078--1626120	20	2.3	18	85	14	61	20	16	11	51	1.75
1626083--1626129	20	2.4	19	82	10	67	19	17	10	53	1.72
1626261--1626307	20	2.3	20	89	10	78	17	17	10	55	1.69
1626694--1626723	8	3.9	8	95	4	53	26	0	10	63	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1635411--1635614	102	2.0	102	100	0	408	38	15	14	31	1.88
1639179--1639223	23	2.0	23	82	8	56	44	15	2	37	1.59
1640502--1640534	17	2.0	17	88	5	50	45	15	3	36	1.61
1641112--1641183	24	3.0	24	85	0	99	51	18	12	18	1.76
1641114--1641183	12	5.8	12	70	6	52	51	18	12	17	1.76
1644403--1644456	23	2.3	24	87	3	83	62	11	16	9	1.52
1644403--1644462	24	2.6	23	81	7	77	63	10	18	8	1.50
1649684--1649708	13	1.9	13	100	0	50	20	16	48	16	1.82
1650750--1651133	153	2.5	150	79	2	417	34	16	7	41	1.77
1651745--1651774	5	6.0	5	100	0	60	60	0	0	40	0.97
1660281--1660314	14	2.3	15	90	5	52	50	0	8	41	1.34
1664250--1664308	29	2.1	29	93	3	102	37	15	5	42	1.69
1664598--1664659	25	2.5	25	74	10	63	48	0	3	48	1.17
1664840--1664875	17	2.1	17	100	0	72	36	5	11	47	1.63
1669722--1669754	17	2.0	17	88	5	50	57	15	18	9	1.63
1671191--1671232	21	2.0	21	95	0	75	21	33	21	23	1.97
1671998--1672022	4	6.2	4	100	0	50	24	0	0	76	0.80
1673029--1673077	19	2.7	17	84	9	53	26	20	28	24	1.99
1673049--1673208	65	2.5	65	86	5	209	26	20	23	30	1.98
1673561--1673605	22	2.0	22	100	0	90	40	17	4	37	1.70
1681670--1681825	65	2.4	64	84	5	181	27	19	23	29	1.98
1681780--1681819	19	2.1	19	85	0	53	22	15	32	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1684637--1684708	30	2.4	30	90	0	117	27	15	27	29	1.96
1685578--1685714	58	2.3	60	80	8	147	25	26	27	20	1.99
1685820--1685887	35	1.9	35	84	0	91	35	22	17	25	1.95
1686700--1686745	19	2.4	19	82	13	67	28	15	32	23	1.95
1687637--1687664	11	2.5	11	100	0	56	50	0	0	50	1.00
1689609--1689673	20	3.3	20	68	25	57	50	0	3	46	1.17
1689776--1689837	24	2.5	23	75	17	54	50	3	3	43	1.34
1693459--1693528	35	2.0	35	94	0	122	34	21	18	25	1.96
1695654--1695692	20	2.0	20	90	5	62	33	0	0	66	0.92
1699093--1699142	22	2.3	22	100	0	100	40	4	12	44	1.60
1706657--1706795	36	3.9	36	91	0	224	43	15	15	25	1.86
1710116--1710161	19	2.4	19	92	0	74	41	6	17	34	1.75
1710749--1710819	20	3.6	20	94	1	117	21	32	23	22	1.98
1710655--1710989	170	2.0	173	98	1	649	30	23	14	30	1.95
1710919--1710991	20	3.7	20	92	1	121	20	34	23	21	1.97
1712984--1713024	12	3.6	12	77	12	50	48	19	14	17	1.81
1712984--1713040	22	2.6	22	91	0	87	43	19	19	17	1.88
1713062--1713102	21	1.9	22	85	5	57	26	24	26	21	2.00
1713622--1713674	20	2.7	19	85	5	79	22	33	18	24	1.97
1722130--1722158	12	2.4	12	100	0	58	27	31	41	0	1.56
1729270--1729353	29	2.8	29	71	7	69	34	20	5	39	1.77
1747466--1747504	19	2.1	19	90	0	60	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749177--1749232	22	2.5	22	88	0	85	30	33	23	12	1.92
1749364--1749667	150	2.0	150	97	0	572	31	19	9	39	1.83
1750012--1750037	2	13.0	2	100	0	52	50	0	0	50	1.00
1752524--1752563	10	4.0	10	84	12	55	32	27	0	40	1.57
1752606--1752646	18	2.3	18	91	4	66	29	4	2	63	1.28
1752708--1753040	111	3.0	111	94	0	567	36	8	10	44	1.68
1754552--1754586	18	1.9	18	94	0	61	28	28	17	25	1.97
1754581--1754637	27	2.1	27	100	0	114	19	31	15	33	1.93
1758222--1758355	51	2.6	51	80	5	130	20	26	33	19	1.97
1759933--1759962	13	2.3	13	94	0	51	43	6	0	50	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15