genome.fa.s8275.2.7.7.80.10.50.1000.7.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: VEPZ01008275.1 Hibiscus syriacus cultivar Beakdansim tig00110933_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1991061

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 944 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)
1526354--1526419	19	3.3	19	75	12	69	36	21	21	21	1.95
1532486--1532534	25	2.2	22	82	17	57	59	2	8	30	1.38
1533310--1533349	2	20.5	2	89	5	64	45	0	2	52	1.14
1534301--1534325	11	2.3	11	100	0	50	36	0	0	64	0.94
1537947--1539361	106	13.3	106	95	0	2479	33	24	18	23	1.96
1540331--1540368	2	19.5	2	89	5	60	44	0	2	52	1.14
1541320--1541344	11	2.3	11	100	0	50	36	0	0	64	0.94
1541344--1541389	23	2.0	24	82	4	58	28	10	2	58	1.43
1541842--1541866	9	2.8	9	100	0	50	36	0	24	40	1.55
1547547--1547587	13	3.2	13	83	16	50	4	19	4	70	1.24
1559055--1559113	22	2.6	23	91	5	102	23	30	27	18	1.98
1559717--1559867	66	2.3	67	87	4	207	15	25	29	29	1.96
1565915--1565981	22	3.0	23	86	4	82	28	28	23	19	1.98
1565923--1565981	22	2.6	22	91	2	91	25	30	25	18	1.98
1566585--1566735	66	2.3	67	86	4	198	16	25	29	29	1.97
1572782--1572848	22	3.0	23	86	4	82	28	28	23	19	1.98
1572790--1572848	22	2.6	22	91	2	91	25	30	25	18	1.98
1573449--1573599	66	2.3	67	86	4	198	16	25	29	29	1.97
1577744--1577778	2	17.5	2	100	0	70	51	0	0	48	1.00
1578342--1578379	21	1.9	21	89	10	62	50	2	0	47	1.15
1581979--1582016	15	2.4	16	80	20	53	50	2	0	47	1.15
1587607--1587642	2	18.0	2	100	0	72	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)
1590608--1590764	60	2.6	60	82	2	172	33	22	7	36	1.81
1590668--1590755	29	2.9	30	69	16	74	34	25	6	34	1.82
1591732--1591774	20	2.0	23	86	13	65	53	2	11	32	1.50
1592758--1592792	2	17.5	2	100	0	70	0	48	0	51	1.00
1592792--1592862	2	36.5	2	94	5	128	47	0	0	52	1.00
1595493--1595581	43	2.1	43	100	0	178	26	17	20	34	1.95
1604705--1604734	2	15.0	2	100	0	60	50	0	0	50	1.00
1605986--1606029	2	22.0	2	100	0	88	50	0	0	50	1.00
1606506--1606575	37	1.9	37	85	2	97	50	4	1	44	1.30
1608311--1608348	20	1.9	20	84	10	51	28	18	2	50	1.61
1611905--1611956	15	3.7	15	72	15	56	21	0	9	69	1.17
1611906--1611967	24	2.5	25	84	15	92	22	0	9	67	1.19
1611906--1611967	23	2.5	25	89	10	92	22	0	9	67	1.19
1611926--1611977	23	2.2	24	79	3	61	21	3	13	61	1.48
1612533--1612575	2	21.5	2	100	0	86	48	0	0	51	1.00
1620994--1621380	184	2.1	183	90	1	607	45	8	3	42	1.52
1627251--1627305	26	2.1	26	86	6	76	30	12	21	34	1.91
1632103--1632142	17	2.4	17	100	0	80	22	10	7	60	1.54
1635611--1635645	18	1.9	18	88	0	52	20	2	51	25	1.61
1641109--1641155	2	23.5	2	100	0	94	48	0	0	51	1.00
1641876--1641918	3	14.3	3	100	0	86	65	0	0	34	0.93
1645331--1645384	10	5.6	10	77	14	51	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1645347--1645388	19	2.2	20	86	4	59	42	0	0	57	0.99
1645342--1645413	29	2.5	29	82	15	87	47	1	0	51	1.09
1645353--1645467	51	2.3	48	79	16	128	46	0	0	52	1.12
1645412--1645500	29	3.3	27	78	18	87	44	1	2	51	1.21
1645666--1645735	20	3.5	20	94	0	122	35	12	10	41	1.77
1645734--1645799	15	4.4	15	80	14	82	37	16	6	39	1.74
1645718--1645799	30	2.8	30	88	5	114	35	15	7	41	1.75
1651643--1652260	311	2.0	306	97	2	1175	41	11	18	28	1.85
1654403--1654497	29	3.2	29	67	21	88	29	13	20	36	1.91
1654361--1654547	60	3.1	60	85	0	241	28	16	19	35	1.94
1656062--1656093	14	2.1	16	88	11	50	34	0	0	65	0.93
1656146--1656179	17	1.9	18	88	5	52	32	5	0	61	1.20
1657472--1657497	2	13.0	2	100	0	52	50	0	0	50	1.00
1671629--1671661	15	2.2	15	94	0	57	18	66	9	6	1.40
1671734--1671763	15	2.0	15	93	0	51	13	63	0	23	1.29
1671674--1671907	108	2.2	102	86	4	306	29	47	5	17	1.69
1672250--1672289	3	13.3	3	89	0	62	32	62	0	5	1.17
1672045--1672280	111	2.2	105	83	4	310	23	50	7	18	1.72
1672045--1672276	105	2.2	99	80	12	293	23	50	7	18	1.72
1673483--1673530	17	2.9	17	78	15	55	27	8	0	64	1.22
1677341--1677412	38	1.9	38	94	2	128	41	36	8	13	1.75
1677586--1677703	38	3.2	38	89	3	177	39	38	10	11	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1677341--1677891	291	1.9	288	90	1	888	38	28	10	21	1.87
1682681--1682711	16	1.9	16	100	0	62	41	12	19	25	1.87
1686677--1686712	18	2.0	18	94	0	63	44	2	33	19	1.65
1696033--1696121	37	2.4	37	83	14	112	34	8	3	52	1.49
1700129--1700214	42	2.0	42	97	0	163	20	26	22	30	1.98
1701393--1701583	60	3.2	59	78	7	181	36	13	14	35	1.85
1712471--1712495	5	5.0	5	100	0	50	80	0	0	20	0.72
1712761--1712795	7	5.0	7	89	0	52	2	31	0	65	1.07
1715972--1716299	164	2.0	164	98	0	629	27	17	15	38	1.91
1721021--1721225	102	2.0	102	98	1	394	30	18	19	32	1.95
1721782--1722348	174	3.3	173	86	5	795	26	19	17	36	1.94
1731731--1731760	15	2.0	15	100	0	60	33	20	40	6	1.78
1732123--1732291	57	3.0	55	83	6	207	26	24	24	24	2.00
1738820--1739115	148	2.0	148	99	0	583	39	16	17	26	1.91
1741216--1741414	99	2.0	99	100	0	398	38	20	14	27	1.91
1744079--1744123	14	3.1	14	83	3	54	51	22	4	22	1.66
1747108--1747137	2	15.0	2	100	0	60	50	0	0	50	1.00
1747807--1747853	16	2.9	16	90	0	67	19	17	14	48	1.81
1748114--1748160	14	3.7	14	71	26	50	44	0	4	51	1.21
1748113--1748162	23	2.1	24	96	3	93	48	0	4	48	1.20
1749602--1749630	14	2.0	15	93	6	51	41	20	31	6	1.79
1749653--1749765	31	3.5	30	73	21	88	51	2	4	41	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749716--1749777	14	4.4	14	74	11	54	43	1	8	46	1.42
1749718--1749808	43	2.2	40	88	7	128	46	3	6	43	1.46
1749738--1749830	29	3.0	29	70	19	78	48	3	5	43	1.42
1749820--1749921	22	4.7	22	75	11	86	49	8	5	36	1.58
1749849--1749901	21	2.5	21	87	0	79	47	5	7	39	1.56
1749944--1750036	20	4.7	20	71	24	72	44	5	7	43	1.55
1749932--1750084	57	2.6	58	80	10	179	42	9	7	39	1.67
1750207--1750240	15	2.4	14	90	9	52	38	0	11	50	1.39
1750543--1750829	2	145.0	2	66	17	109	45	4	2	47	1.37
1750513--1750725	81	2.6	82	86	5	265	42	5	3	48	1.43
1750596--1750633	17	2.4	17	86	8	53	42	7	2	47	1.46
1750679--1750833	13	10.7	14	74	22	67	43	4	3	47	1.41
1750539--1750753	81	2.7	81	85	6	262	44	6	1	47	1.38
1751743--1751772	14	2.1	14	93	0	51	33	0	10	56	1.32
1757812--1757848	2	18.5	2	100	0	74	51	0	0	48	1.00
1759475--1759515	4	10.8	4	80	19	52	80	0	0	19	0.71
1759486--1759514	7	4.1	7	100	0	58	86	0	0	13	0.58
1759475--1759514	14	3.1	12	83	16	53	82	0	0	17	0.67
1763441--1763553	59	1.9	60	87	1	165	30	16	15	36	1.91
1764400--1764512	60	1.9	60	83	3	138	31	12	14	41	1.82
1766497--1766544	21	2.3	21	100	0	96	25	18	14	41	1.88
1771148--1771195	21	2.3	21	100	0	96	25	18	14	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1772544--1772660	60	2.0	60	91	3	191	32	3	12	51	1.57
1776645--1776796	60	2.5	60	79	10	168	32	23	4	38	1.75
1776919--1777098	60	3.0	60	83	3	202	38	5	21	34	1.77
1778953--1778979	7	3.9	7	100	0	54	14	0	0	85	0.61
1779440--1779528	44	2.0	44	100	0	178	11	13	35	39	1.80
1780412--1780484	36	2.0	36	84	10	96	49	2	1	46	1.24
1782106--1782175	29	2.3	30	78	9	72	34	10	17	38	1.83
1783200--1783238	2	19.5	2	100	0	78	48	0	0	51	1.00
1783845--1783933	23	3.9	23	74	0	79	46	17	11	24	1.81
1783980--1784025	19	2.5	19	82	10	51	63	8	2	26	1.35

Tables:   1   2   3   4   5   6   7   8