genome.fa.s8685.2.7.7.80.10.50.1000.9.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: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3669133

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  9  of  19  ( 2244 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)
1668713--1668747	18	1.9	18	94	0	61	42	5	22	28	1.76
1669141--1669165	13	1.9	13	100	0	50	20	0	8	72	1.10
1672240--1672306	24	2.8	24	77	18	59	41	20	28	8	1.83
1672765--1672833	34	2.1	32	83	5	84	24	27	15	31	1.96
1673171--1673237	20	3.3	20	97	0	125	32	22	29	14	1.94
1673633--1673701	30	2.4	30	90	4	106	37	11	26	24	1.89
1675478--1675587	6	19.8	5	72	23	55	70	0	5	23	1.07
1675478--1675583	23	4.4	23	72	16	81	70	0	5	23	1.08
1675478--1675575	34	2.8	35	84	9	128	70	0	6	23	1.09
1676376--1676545	5	34.0	5	100	0	340	60	0	0	40	0.97
1678965--1679482	164	3.2	156	82	6	590	27	16	7	48	1.73
1688941--1689145	60	3.4	58	85	4	268	36	23	16	23	1.94
1691949--1691997	20	2.4	21	86	10	66	42	14	8	34	1.75
1691957--1691997	21	2.0	20	90	4	64	43	17	4	34	1.70
1692777--1692817	2	20.5	2	100	0	82	51	0	0	48	1.00
1693090--1693145	27	2.1	27	89	0	85	35	26	10	26	1.89
1693934--1694383	56	8.0	56	86	1	596	19	16	20	44	1.87
1701947--1701996	10	4.7	10	76	13	55	24	38	26	12	1.90
1702201--1702286	29	3.0	29	93	3	138	23	31	30	15	1.95
1710954--1711046	3	31.7	3	93	4	163	65	1	0	33	1.00
1711423--1711856	121	3.7	122	80	10	522	26	19	14	39	1.89
1711617--1711823	110	1.9	111	86	5	303	30	18	14	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711885--1712163	113	2.5	113	88	1	407	27	18	13	40	1.89
1713315--1713390	21	3.6	21	83	5	91	56	3	6	32	1.43
1716863--1716913	24	2.3	21	87	12	68	35	21	23	19	1.96
1716870--1716924	24	2.3	24	100	0	110	36	16	21	25	1.94
1721076--1721107	15	2.1	15	94	0	55	46	9	18	25	1.79
1726569--1726607	3	13.7	3	84	10	55	64	2	0	33	1.08
1726569--1726618	25	2.0	25	92	7	84	64	4	2	30	1.23
1728188--1728240	19	2.7	19	82	2	61	33	16	11	37	1.85
1729430--1729486	21	2.7	21	91	0	96	22	22	15	38	1.92
1729480--1729584	20	5.2	20	96	0	183	40	24	17	18	1.91
1729699--1729761	22	2.9	22	90	0	99	25	39	12	22	1.89
1730042--1730087	19	2.3	20	92	3	76	15	21	15	47	1.81
1730059--1730102	20	2.2	20	83	0	52	15	18	18	47	1.83
1732246--1732345	42	2.4	42	81	6	121	25	35	18	22	1.96
1732246--1732345	21	4.8	21	72	9	78	25	35	18	22	1.96
1733718--1733855	66	2.2	66	82	8	162	31	1	15	50	1.53
1733745--1733824	31	2.6	29	74	25	76	33	0	11	55	1.36
1733940--1733999	20	3.0	21	85	4	79	18	16	25	40	1.91
1734321--1734356	18	2.0	18	88	0	54	19	2	22	55	1.56
1736616--1736669	24	2.2	24	93	0	90	40	20	18	20	1.91
1736616--1736683	24	2.8	24	84	0	64	38	20	17	23	1.93
1737604--1737673	19	3.6	19	86	1	86	25	11	24	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1737665--1737710	21	2.2	21	92	0	74	34	17	26	21	1.95
1743436--1743488	20	2.7	20	100	0	106	16	3	35	43	1.67
1744491--1744537	19	2.5	18	86	6	58	48	0	2	48	1.13
1745186--1745210	12	2.1	12	100	0	50	32	0	8	60	1.26
1748402--1748453	27	2.0	27	84	3	70	19	3	17	59	1.52
1749298--1749732	83	5.2	83	80	3	417	29	17	17	34	1.94
1751990--1752037	23	2.1	23	88	0	69	16	25	22	35	1.95
1755761--1755837	24	3.6	22	75	20	67	29	19	25	24	1.98
1757373--1757426	23	2.3	23	77	0	63	16	22	24	37	1.94
1760168--1760209	16	2.6	16	100	0	84	50	0	23	26	1.50
1761166--1761242	24	3.6	22	75	20	67	29	19	25	24	1.98
1764890--1764917	14	2.0	14	100	0	56	50	28	0	21	1.49
1773446--1773474	2	14.5	2	100	0	58	51	0	0	48	1.00
1773555--1773588	18	1.9	18	88	5	52	50	0	0	50	1.00
1775150--1775176	11	2.5	11	100	0	54	0	7	7	85	0.75
1775137--1775181	19	2.4	19	82	13	58	2	6	8	82	0.93
1775293--1775330	14	2.6	15	83	8	51	21	0	7	71	1.11
1775291--1775394	28	3.7	27	76	14	86	20	3	3	72	1.17
1775285--1775394	5	22.0	5	72	16	77	20	3	3	72	1.15
1777045--1777086	22	1.9	22	90	9	68	28	2	0	69	1.01
1778799--1778829	2	16.0	2	93	6	55	51	0	0	48	1.00
1779518--1779569	19	2.8	19	74	11	54	42	11	0	46	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1779818--1779871	24	2.2	26	83	6	67	46	3	0	50	1.19
1779550--1779926	30	12.8	29	74	9	248	40	8	0	50	1.36
1779859--1779923	31	2.1	31	91	5	105	49	3	0	47	1.17
1779954--1780070	31	3.5	31	71	23	94	53	0	6	38	1.33
1780386--1780420	16	2.2	16	89	0	52	68	2	0	28	1.04
1781947--1781981	16	2.2	16	89	0	52	68	2	0	28	1.04
1782779--1782822	22	2.0	22	95	0	79	20	45	15	18	1.85
1783080--1783117	20	1.9	20	88	0	58	13	15	21	50	1.78
1784014--1784058	18	2.5	18	85	0	63	26	42	15	15	1.87
1784430--1784460	15	2.1	15	93	0	53	9	0	12	77	0.99
1784526--1784570	20	2.3	20	88	3	65	35	26	22	15	1.94
1784648--1784710	18	3.5	19	78	8	69	17	23	22	36	1.95
1786746--1786812	21	3.2	21	68	4	55	19	20	35	23	1.95
1786746--1786868	42	2.9	41	79	7	104	23	17	36	22	1.94
1788892--1788990	33	3.0	33	89	1	144	39	26	23	11	1.88
1788867--1789032	20	9.1	19	74	16	136	43	22	22	12	1.86
1789028--1789094	19	3.5	19	85	2	89	10	16	25	47	1.78
1789652--1789752	20	4.9	21	71	12	59	18	19	18	42	1.89
1789615--1789708	20	4.7	20	80	2	89	23	17	24	35	1.95
1789636--1789770	41	3.3	41	82	4	139	19	21	20	38	1.94
1789697--1789789	20	4.6	20	78	4	96	17	24	18	39	1.91
1789697--1789789	41	2.3	41	100	0	186	17	24	18	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1792955--1792986	2	16.0	2	100	0	64	50	0	0	50	1.00
1796887--1796920	17	2.1	16	89	10	52	79	2	0	17	0.86
1799378--1799417	21	2.0	21	90	5	64	37	10	25	27	1.88
1802383--1802428	23	2.0	23	91	0	74	28	26	23	21	1.99
1802408--1802715	151	2.0	153	97	1	584	36	20	14	27	1.92
1803171--1803329	63	2.5	63	85	2	194	27	21	18	32	1.97
1803297--1803334	19	2.0	20	94	5	69	26	28	15	28	1.96
1806811--1806871	21	3.0	20	75	18	63	29	14	13	42	1.84
1808344--1808378	16	2.2	16	90	5	54	77	0	5	17	0.96
1818194--1818405	20	10.6	20	77	8	127	35	24	14	25	1.93
1818299--1818406	19	5.4	21	77	10	102	36	22	13	27	1.92
1818562--1818600	16	2.5	15	84	8	51	28	5	0	66	1.12
1822177--1822226	25	2.0	25	96	0	91	26	8	22	44	1.80
1822603--1822639	18	2.1	18	89	0	56	32	5	10	51	1.60
1822595--1822647	24	2.2	24	86	0	70	35	3	13	47	1.61
1823596--1823631	18	2.0	18	94	0	63	55	25	2	16	1.55
1824084--1824226	66	2.2	63	93	3	241	50	18	1	30	1.55
1825607--1825704	21	4.7	21	76	8	92	22	19	34	23	1.96
1825586--1825679	42	2.2	42	83	7	111	18	21	38	22	1.93
1825607--1825704	42	2.3	42	79	6	117	22	19	34	23	1.96
1827910--1827957	20	2.4	20	92	0	78	8	16	22	52	1.71
1828299--1828363	22	3.0	22	82	4	80	21	16	41	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1828466--1828663	20	9.9	20	80	8	183	17	16	26	39	1.91
1829020--1829076	14	4.4	14	78	17	68	12	14	15	57	1.65
1829016--1829069	24	2.2	24	96	0	99	11	14	16	57	1.65
1829020--1829094	38	2.0	37	89	2	114	14	16	13	56	1.69
1829270--1829316	18	2.6	18	93	0	85	8	6	19	65	1.41
1832068--1832103	17	2.1	17	100	0	72	44	25	5	25	1.75
1833338--1833370	2	16.5	2	100	0	66	51	0	0	48	1.00
1833582--1833651	35	2.0	36	83	8	90	25	21	11	41	1.86
1834342--1834369	2	14.0	2	100	0	56	50	0	0	50	1.00
1835035--1835125	46	2.0	47	89	6	141	32	13	10	42	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19