genome.fa.s8955.2.7.7.80.10.50.1000.9.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  9  of  23  ( 2731 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)
1678320--1678363	21	2.1	21	91	0	70	54	0	9	36	1.32
1689701--1689734	8	4.0	9	85	14	54	44	0	0	55	0.99
1689701--1689734	17	2.0	17	94	0	59	44	0	0	55	0.99
1692776--1692830	13	4.1	14	76	21	55	25	16	23	34	1.95
1695248--1695280	2	16.5	2	100	0	66	51	0	0	48	1.00
1697988--1698043	25	2.2	25	87	6	78	32	7	3	57	1.43
1698005--1698066	25	2.5	25	83	0	70	33	14	3	48	1.60
1699307--1699394	41	2.1	41	81	4	97	53	10	7	28	1.63
1699624--1699705	31	2.6	31	82	5	94	60	2	4	31	1.30
1703601--1703681	35	2.3	35	91	0	126	29	20	17	32	1.96
1704145--1704177	15	2.2	15	94	0	57	45	0	0	54	0.99
1704327--1704363	20	1.9	19	89	10	58	18	21	10	48	1.78
1707000--1707035	17	2.2	17	90	5	56	19	0	2	77	0.88
1707284--1707340	29	2.0	29	82	6	71	63	3	0	33	1.12
1708507--1708546	2	20.0	2	100	0	80	50	0	0	50	1.00
1709845--1709997	65	2.4	65	85	2	200	30	19	22	28	1.98
1715147--1715185	20	2.0	20	84	0	51	43	2	12	41	1.56
1715679--1715732	27	2.0	28	88	3	83	44	22	12	20	1.85
1718284--1718315	2	16.0	2	100	0	64	50	0	0	50	1.00
1726770--1726807	17	2.2	17	100	0	76	26	5	50	18	1.68
1737209--1737248	19	2.2	19	86	4	55	35	7	5	52	1.51
1739076--1739131	27	2.2	24	84	15	69	64	5	1	28	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1739250--1739274	12	2.1	12	100	0	50	68	0	0	32	0.90
1739353--1739394	18	2.3	18	95	0	75	35	14	30	19	1.91
1741247--1741558	30	10.5	30	75	5	168	58	9	12	19	1.62
1741326--1741439	59	1.9	60	80	8	135	58	8	12	20	1.60
1743024--1743108	3	28.3	3	90	9	138	67	0	0	32	0.91
1743396--1743779	130	3.0	130	85	4	476	25	18	30	25	1.98
1744177--1744239	33	1.9	33	86	0	90	25	23	17	33	1.96
1752548--1752608	18	3.2	18	75	22	52	4	11	4	78	1.06
1752566--1752608	12	3.8	11	81	12	52	6	9	4	79	1.06
1752566--1752653	34	2.6	34	83	8	115	5	14	6	72	1.24
1752599--1752658	15	3.7	15	72	21	50	3	18	8	70	1.27
1754487--1754549	31	2.1	31	84	3	83	61	9	15	12	1.55
1756384--1756665	30	9.5	29	77	7	151	55	10	14	18	1.68
1756382--1756695	119	2.6	119	77	6	271	54	10	15	18	1.69
1756438--1756663	89	2.5	88	78	6	231	56	11	14	17	1.67
1758168--1758239	35	2.0	37	83	8	94	48	4	1	45	1.30
1758168--1758252	37	2.3	37	82	13	95	50	3	2	43	1.32
1758773--1758816	3	14.3	3	85	4	61	61	0	2	36	1.09
1760443--1760478	15	2.4	15	85	0	54	38	2	11	47	1.54
1760490--1760536	16	2.7	17	77	12	51	44	0	2	53	1.12
1762168--1762223	24	2.3	24	90	6	87	17	23	19	39	1.92
1777210--1777261	24	2.2	24	96	0	95	25	32	13	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1780279--1780335	28	2.0	28	89	0	87	33	24	14	28	1.94
1792586--1792646	9	5.9	9	76	23	50	70	1	4	22	1.15
1792586--1792649	5	12.2	5	78	15	51	70	1	4	23	1.15
1792658--1792695	15	2.4	17	86	8	53	76	0	10	13	1.02
1792925--1792959	1	35.0	1	88	0	52	94	5	0	0	0.32
1792963--1792992	2	15.0	2	100	0	60	50	0	0	50	1.00
1795084--1795145	25	2.5	26	87	7	85	56	6	8	29	1.53
1796065--1796118	27	2.0	27	92	0	90	33	9	16	40	1.80
1796461--1796503	18	2.4	18	100	0	86	27	11	4	55	1.55
1796691--1796724	17	2.0	17	88	0	50	52	5	0	41	1.25
1798180--1798214	2	18.0	2	94	5	63	48	0	0	51	1.00
1800888--1800953	20	3.3	20	65	23	57	15	22	10	51	1.73
1800868--1800969	40	2.5	40	95	1	186	17	21	8	51	1.72
1800755--1801082	153	2.1	152	89	3	498	25	19	12	42	1.86
1808857--1809259	201	2.0	202	99	0	799	17	20	17	44	1.87
1810346--1810384	3	13.0	3	100	0	78	33	0	0	66	0.92
1813753--1813807	28	2.0	27	89	3	83	58	0	5	36	1.21
1814609--1814634	3	8.7	3	100	0	52	65	0	0	34	0.93
1815612--1815653	22	1.9	22	100	0	84	19	30	21	28	1.97
1815989--1816025	3	12.7	3	83	16	51	70	0	0	29	0.88
1821068--1821179	56	2.0	56	96	0	206	37	17	6	38	1.75
1821807--1821873	30	2.2	30	97	2	125	29	11	14	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1823019--1823544	274	2.0	256	87	10	745	29	13	18	39	1.88
1823015--1823557	269	2.0	256	85	9	743	28	13	19	38	1.89
1828486--1828531	21	2.1	22	84	11	60	54	4	13	28	1.57
1832313--1832373	27	2.2	27	85	8	79	32	6	22	37	1.80
1832604--1832706	23	4.4	23	76	10	93	19	20	22	37	1.94
1832604--1832727	23	5.3	23	72	13	85	19	21	21	37	1.95
1844937--1844967	2	15.0	2	93	6	53	48	3	0	48	1.17
1847357--1847381	6	4.2	6	100	0	50	16	16	16	52	1.76
1852625--1852716	3	30.7	3	97	0	175	33	1	0	65	1.00
1853157--1853213	25	2.4	23	77	11	60	63	10	26	0	1.27
1854144--1854190	14	3.5	13	80	13	51	40	2	2	55	1.24
1865470--1865512	18	2.5	17	92	7	77	86	0	13	0	0.58
1865474--1865511	17	2.2	16	90	9	58	86	0	13	0	0.56
1865470--1865512	11	3.7	12	85	14	63	86	0	13	0	0.58
1866647--1867355	83	8.5	83	96	0	1219	28	13	22	35	1.92
1868090--1868641	113	4.9	113	92	2	840	38	12	19	29	1.88
1868959--1869002	3	14.7	3	95	0	79	34	2	0	63	1.07
1870432--1870478	14	3.5	13	80	13	51	40	2	2	55	1.24
1874204--1874277	29	2.6	29	88	0	112	25	12	27	35	1.91
1875325--1875390	33	2.0	33	85	5	89	30	27	12	30	1.92
1879195--1879237	20	2.2	20	83	8	52	30	2	0	67	1.03
1882675--1882700	13	2.0	13	100	0	52	15	23	46	15	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1884038--1884063	13	2.0	13	100	0	52	15	23	46	15	1.83
1886325--1886383	14	4.0	14	72	12	55	74	1	1	22	1.00
1886418--1886464	22	2.1	22	100	0	94	68	0	4	27	1.08
1888088--1888408	85	3.7	85	86	2	410	28	18	18	34	1.95
1888650--1888701	25	2.1	25	85	0	68	30	9	19	40	1.83
1890316--1890375	29	2.2	26	85	14	84	1	15	6	76	1.06
1892181--1892450	135	2.0	135	99	0	531	35	16	12	35	1.87
1894015--1894077	24	2.6	24	82	0	81	12	9	22	55	1.65
1895588--1895662	10	7.7	10	68	21	52	9	10	21	58	1.59
1895594--1895658	16	4.1	16	91	0	112	7	10	23	58	1.57
1895728--1895759	16	2.0	16	100	0	64	6	12	25	56	1.59
1898856--1898885	2	15.0	2	100	0	60	50	0	0	50	1.00
1900988--1901035	16	2.7	18	81	18	64	60	6	0	33	1.22
1902577--1902709	24	5.8	23	70	22	84	51	0	1	46	1.15
1902622--1902705	21	4.0	21	72	16	66	47	1	1	50	1.16
1902626--1902705	42	1.9	43	87	5	119	46	1	1	51	1.17
1902669--1902713	21	2.1	22	84	12	58	53	0	2	44	1.13
1904022--1904067	17	2.8	16	90	9	67	4	26	0	69	1.07
1905107--1905167	32	1.9	32	89	0	95	26	26	26	21	1.99
1910415--1910456	14	3.0	14	80	13	59	47	0	4	47	1.23
1911224--1911256	16	2.1	16	94	0	57	27	15	12	45	1.81
1911286--1911324	18	2.2	18	90	0	60	23	2	28	46	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1911405--1912027	264	2.4	264	85	2	833	33	17	10	38	1.83
1913080--1913157	29	2.7	29	85	2	102	32	5	12	50	1.63
1913360--1913429	29	2.4	29	90	2	104	32	2	12	51	1.55
1913079--1913582	144	3.6	137	81	11	497	35	10	11	42	1.76
1913504--1913567	29	2.2	29	91	0	101	32	9	12	45	1.74
1921201--1921231	16	1.9	16	93	0	53	38	32	6	22	1.80
1921720--1921752	2	16.5	2	100	0	66	51	0	0	48	1.00
1922157--1922216	23	2.8	21	80	9	75	23	15	25	36	1.93
1922155--1922216	21	2.8	22	82	7	81	24	14	24	37	1.93
1922157--1922223	21	3.1	21	80	4	80	25	14	25	34	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23