genome.fa.s8319.2.7.7.80.10.50.1000.8.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

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

This is table  8  of  21  ( 2487 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)
1753673--1753823	19	8.7	19	61	21	62	13	25	18	42	1.87
1753677--1753804	33	3.9	33	92	0	211	14	25	17	42	1.87
1753776--1753869	20	4.7	20	72	13	68	21	20	23	35	1.96
1756350--1756401	24	2.2	24	82	0	59	36	21	19	23	1.95
1757250--1757367	20	5.8	20	76	9	96	40	16	17	24	1.90
1757261--1757394	21	6.5	21	76	7	114	41	17	20	21	1.91
1757261--1757394	41	3.3	41	87	2	180	41	17	20	21	1.91
1773477--1773521	20	2.2	20	96	0	81	31	20	17	31	1.96
1773509--1773561	21	2.5	21	81	6	72	20	26	18	33	1.96
1773608--1773680	21	3.5	21	79	3	76	23	21	17	36	1.94
1773670--1773781	20	5.6	20	84	4	136	37	20	20	21	1.94
1773536--1773789	41	6.3	41	70	13	143	32	20	18	28	1.96
1774527--1774551	12	2.1	12	100	0	50	0	28	0	72	0.86
1774726--1774779	24	2.2	24	86	0	72	40	20	14	24	1.90
1775582--1775667	40	2.2	40	89	0	127	26	27	19	25	1.99
1775562--1775658	20	4.8	20	97	0	167	23	28	20	26	1.99
1777165--1777255	42	2.2	42	88	3	141	20	15	41	21	1.89
1777191--1777251	21	2.9	21	73	9	70	21	13	42	22	1.87
1777619--1777692	20	3.7	20	87	1	85	43	24	20	12	1.86
1777599--1777685	40	2.2	40	81	4	95	39	26	18	16	1.91
1777712--1777806	19	5.6	19	69	27	88	12	20	21	46	1.83
1777717--1777806	31	2.8	32	94	3	155	12	18	21	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777791--1777845	20	2.8	19	83	8	65	16	23	23	36	1.94
1778366--1778413	18	2.7	18	93	0	87	14	12	45	27	1.81
1779099--1779504	200	2.0	195	92	7	665	29	26	20	23	1.99
1779895--1779937	20	2.2	20	86	0	59	51	23	18	6	1.70
1780324--1780436	41	2.8	40	86	1	145	23	15	26	34	1.95
1780324--1780432	20	5.4	20	79	6	112	23	16	27	32	1.96
1780422--1780536	21	5.5	21	89	1	169	23	21	14	40	1.91
1780421--1780551	42	3.1	42	83	3	122	26	20	15	37	1.92
1780526--1780578	21	2.5	22	81	6	74	35	18	24	20	1.95
1783355--1783602	130	1.9	130	92	0	415	35	14	13	36	1.85
1783369--1783633	130	2.0	129	81	4	300	38	12	13	34	1.83
1783924--1783984	26	2.3	26	82	5	68	45	1	3	49	1.28
1784064--1784097	16	2.0	18	88	11	54	64	5	2	26	1.30
1784220--1784262	21	2.0	21	100	0	86	39	0	13	46	1.44
1784231--1784316	35	2.5	35	84	0	100	37	1	20	40	1.61
1788428--1788452	2	12.5	2	100	0	50	52	0	48	0	1.00
1798942--1799115	60	2.9	60	75	10	174	28	22	6	42	1.79
1799247--1799361	60	1.9	60	87	3	169	38	4	24	33	1.75
1801242--1801286	20	2.1	22	84	8	58	28	0	26	44	1.55
1805505--1805602	44	2.3	42	83	5	124	29	6	27	36	1.81
1821898--1821966	21	3.3	21	83	0	93	8	50	18	21	1.74
1828570--1828630	29	2.1	29	84	0	77	37	11	11	39	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1837322--1837366	2	22.5	2	100	0	90	48	0	0	51	1.00
1838036--1838082	25	1.9	25	83	12	62	51	4	2	42	1.33
1838342--1838367	2	13.0	2	100	0	52	50	0	0	50	1.00
1840264--1840410	16	9.1	16	64	21	56	27	5	2	64	1.29
1840268--1840348	28	2.9	27	77	17	76	32	3	2	61	1.26
1840298--1840357	11	5.7	11	81	15	65	36	1	3	58	1.25
1840297--1840363	11	6.4	11	80	13	52	34	1	5	58	1.32
1841756--1841786	14	2.1	15	94	5	55	16	0	0	83	0.64
1852183--1852733	94	5.8	94	83	4	735	34	24	18	22	1.96
1852077--1852737	192	3.4	193	94	1	1144	34	24	18	22	1.96
1852662--1852810	77	1.9	77	94	0	262	35	25	20	18	1.95
1852565--1852904	171	2.0	171	98	0	653	35	24	19	21	1.96
1852739--1853147	106	4.1	94	78	13	374	34	24	17	22	1.96
1852833--1853162	106	3.1	105	87	3	457	35	25	16	22	1.95
1854798--1854888	18	4.7	18	70	22	60	25	5	3	65	1.29
1857388--1857465	35	2.2	35	100	0	156	26	33	20	19	1.96
1857444--1857575	41	3.2	41	66	19	119	23	28	31	16	1.96
1857472--1857635	43	3.9	43	74	15	187	22	24	34	18	1.96
1857441--1857618	84	2.1	84	97	0	338	22	27	32	17	1.97
1857630--1857738	29	3.8	29	91	2	166	15	32	30	22	1.95
1857739--1857770	13	2.5	13	94	0	55	18	46	3	31	1.65
1857757--1857803	23	2.0	23	100	0	94	25	44	8	21	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1857924--1857975	25	2.1	25	92	0	86	28	9	32	28	1.89
1857988--1858033	23	2.0	23	95	0	83	45	0	39	15	1.46
1858037--1858094	4	14.0	4	75	7	53	63	0	34	1	1.04
1858036--1858067	17	1.9	16	93	6	55	62	0	37	0	0.95
1858037--1858094	25	2.3	25	96	0	107	63	0	34	1	1.04
1858298--1858388	45	2.0	47	87	8	134	41	0	12	46	1.41
1860748--1860780	17	1.9	17	93	0	57	45	12	6	36	1.66
1860982--1861474	12	36.8	13	70	21	219	44	9	2	43	1.50
1860988--1861474	26	19.7	26	75	12	393	43	9	2	43	1.50
1860982--1861351	98	3.8	96	89	8	391	44	9	2	43	1.49
1860980--1861477	124	4.0	124	83	11	557	44	10	2	43	1.51
1861089--1861354	98	2.7	98	97	1	489	44	10	2	42	1.51
1861311--1861532	97	2.3	98	94	0	383	43	9	2	44	1.51
1861339--1861493	71	2.2	69	83	11	190	43	11	2	42	1.54
1863604--1863662	26	2.3	24	78	16	64	40	3	8	47	1.51
1864396--1864505	48	2.5	44	81	14	127	50	8	0	40	1.38
1864467--1864534	28	2.4	28	83	9	93	54	10	0	35	1.35
1864859--1864922	32	2.0	32	100	0	128	31	21	25	21	1.98
1864995--1865099	51	2.0	52	96	3	194	19	51	8	20	1.73
1865023--1865194	17	10.4	16	72	15	127	17	52	8	21	1.71
1865023--1865194	33	5.2	33	83	11	226	17	52	8	21	1.71
1865017--1865184	16	10.2	16	71	13	126	16	54	7	21	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1865022--1865199	65	2.7	66	87	6	252	17	51	8	22	1.73
1865158--1865249	44	2.1	44	100	0	184	16	42	14	27	1.86
1865231--1865267	18	2.1	18	100	0	74	16	21	24	37	1.93
1865289--1865377	29	3.1	29	100	0	178	17	37	31	13	1.89
1868571--1868623	2	25.5	2	81	7	52	39	7	0	52	1.30
1868566--1868611	15	3.1	15	100	0	92	32	13	0	54	1.39
1885171--1885672	255	2.0	255	97	0	941	32	21	13	32	1.93
1891732--1891793	8	7.5	8	90	5	97	85	14	0	0	0.60
1891733--1891789	1	57.0	1	75	0	51	87	12	0	0	0.54
1906965--1907018	17	3.2	16	73	17	56	74	3	9	12	1.20
1907032--1907071	17	2.4	16	87	8	53	70	0	10	20	1.16
1907033--1907082	13	3.8	13	76	15	50	70	0	10	20	1.16
1909130--1909394	102	2.6	102	94	0	467	38	11	18	32	1.86
1909241--1909326	37	2.4	37	80	2	102	43	12	18	25	1.86
1911655--1911748	37	2.5	37	81	6	102	39	13	15	30	1.87
1911703--1911826	36	3.4	37	74	3	99	42	12	15	29	1.83
1914695--1914735	21	2.0	21	85	0	55	17	31	7	43	1.76
1916955--1917045	17	5.1	17	67	17	51	70	1	10	17	1.22
1916996--1917045	13	3.8	13	76	15	50	70	0	10	20	1.16
1919316--1919364	24	2.0	25	88	4	73	51	2	10	36	1.48
1919317--1919371	24	2.2	24	83	3	65	50	1	10	36	1.48
1924907--1925023	16	7.4	16	88	5	177	56	21	12	9	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1924907--1925023	32	3.7	32	94	2	202	56	21	12	9	1.64
1926020--1926059	21	1.9	21	89	0	62	35	27	20	17	1.95
1926900--1927004	46	2.3	46	83	6	126	27	20	17	35	1.94
1928462--1928533	10	6.4	10	72	22	54	54	23	12	9	1.67
1928469--1928517	14	3.8	14	79	20	70	55	24	12	8	1.64
1928462--1928534	24	3.0	24	97	0	137	53	23	13	9	1.69
1945284--1945317	16	2.1	16	88	0	50	52	5	17	23	1.66
1964212--1964250	12	3.0	12	80	20	51	7	23	20	48	1.75
1978689--1978820	65	2.0	65	95	1	239	28	16	28	26	1.97
1984064--1984153	40	2.3	40	88	1	128	62	5	10	22	1.47

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