genome.fa.s8826.2.7.7.80.10.50.1000.9.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

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

This is table  9  of  18  ( 2089 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)
1771049--1771097	24	2.0	24	81	14	57	14	2	2	81	0.87
1771060--1771167	57	1.9	57	81	11	132	17	3	2	75	1.06
1771050--1771166	33	3.6	31	70	18	87	17	3	2	76	1.03
1771117--1771173	24	2.4	24	79	5	62	22	1	1	73	1.02
1771207--1771231	4	6.2	4	100	0	50	24	0	0	76	0.80
1775096--1775353	95	2.7	94	84	4	329	32	15	18	33	1.92
1776772--1776810	15	2.6	15	95	0	69	28	30	15	25	1.96
1776900--1776984	33	2.6	33	88	3	127	43	16	9	30	1.79
1779163--1779198	18	1.9	19	88	5	56	16	0	5	77	0.94
1784632--1785159	75	7.4	70	76	5	380	38	11	20	29	1.88
1784626--1785083	72	6.5	71	76	8	310	37	12	20	29	1.88
1784919--1785017	37	2.8	37	69	14	91	38	11	19	31	1.86
1784907--1785235	75	4.4	74	77	7	276	40	12	18	29	1.86
1832264--1832314	20	2.5	20	93	0	93	45	7	23	23	1.79
1834868--1834907	20	2.0	20	95	0	71	27	20	12	40	1.88
1835851--1836111	66	4.0	64	86	3	335	22	21	19	35	1.96
1848784--1848849	16	4.2	15	82	5	69	15	13	18	53	1.74
1850132--1850199	33	2.1	33	94	0	118	26	10	19	44	1.82
1850248--1850312	12	5.2	13	69	20	50	66	0	1	32	1.01
1850642--1851586	84	11.4	80	77	7	726	24	18	24	31	1.98
1850638--1851585	164	5.7	165	82	4	901	24	18	24	31	1.98
1850761--1851592	248	3.3	249	86	2	1084	24	19	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1851694--1852129	110	4.0	110	92	1	675	24	19	22	33	1.97
1852960--1853145	95	2.0	94	84	3	248	31	17	17	32	1.94
1855126--1855184	30	2.0	30	90	3	93	30	25	15	28	1.96
1856443--1856499	3	19.3	3	82	13	66	66	0	0	33	0.92
1856443--1856511	11	6.4	11	79	14	72	65	0	0	34	0.93
1856444--1856512	12	6.0	12	76	8	56	63	0	0	36	0.94
1857008--1857094	25	3.4	26	78	13	99	44	2	1	51	1.21
1857008--1857116	27	4.2	27	80	9	102	43	2	0	53	1.21
1857195--1857247	23	2.5	22	77	14	58	50	1	1	45	1.23
1859791--1859824	18	1.9	17	88	5	50	2	61	2	32	1.26
1864774--1864815	2	21.0	2	100	0	84	50	0	0	50	1.00
1869861--1869919	17	3.4	18	68	25	54	20	35	23	20	1.96
1869858--1869935	33	2.4	33	91	4	122	21	35	23	19	1.96
1870048--1870089	21	2.0	21	90	0	66	23	19	28	28	1.98
1870118--1870157	20	1.9	21	85	10	55	37	37	10	15	1.80
1870372--1870441	34	2.1	32	86	5	95	32	15	30	21	1.94
1871431--1871468	3	13.0	3	86	5	51	68	2	28	0	1.03
1873412--1873505	20	5.0	20	69	18	69	22	34	26	17	1.96
1873445--1873522	34	2.3	35	95	2	140	17	38	24	19	1.93
1873464--1873520	15	3.5	15	72	25	53	19	36	24	19	1.94
1873624--1873665	21	2.0	21	95	0	75	23	21	28	26	1.99
1876527--1876563	15	2.5	15	90	0	56	32	10	8	48	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1877739--1877850	40	2.8	40	86	2	154	35	20	15	28	1.93
1879324--1879375	23	2.3	23	89	0	77	30	13	9	46	1.75
1880092--1880182	46	2.0	46	100	0	182	29	4	19	46	1.70
1881085--1881691	213	2.8	217	90	5	945	39	14	14	31	1.86
1881721--1882011	31	10.0	29	70	13	116	44	4	1	49	1.30
1881740--1881824	29	3.0	27	76	17	75	43	3	0	52	1.18
1881782--1881836	25	2.2	25	83	3	65	43	0	0	56	0.99
1881883--1881946	27	2.3	27	81	7	76	45	6	1	46	1.37
1881718--1882041	174	1.9	169	85	6	454	45	5	1	47	1.33
1882866--1882938	36	2.0	36	94	0	128	46	12	15	26	1.80
1885411--1885510	48	2.1	48	92	1	166	32	13	17	38	1.87
1886831--1886864	18	1.9	18	88	5	52	26	23	26	23	2.00
1888745--1888796	14	3.5	14	73	21	52	21	0	5	73	1.04
1889494--1889656	87	1.9	87	94	2	292	41	10	14	33	1.80
1896031--1896091	21	3.0	19	79	13	68	26	37	24	11	1.89
1896033--1896072	20	2.0	20	90	5	62	25	37	25	12	1.91
1902417--1902986	183	3.1	183	94	1	984	33	16	14	35	1.89
1904196--1904257	6	10.3	6	92	0	70	24	32	3	40	1.71
1904196--1904257	18	3.4	18	93	0	88	24	32	3	40	1.71
1905750--1906706	198	4.8	200	95	1	1667	30	18	15	36	1.92
1905771--1906706	398	2.4	398	95	0	1703	30	18	15	36	1.91
1906928--1906988	19	3.3	18	88	2	59	52	11	1	34	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1906940--1906988	19	2.6	19	96	0	89	55	10	2	32	1.45
1908771--1908836	33	2.0	33	90	0	105	22	48	0	28	1.51
1908870--1908913	21	2.1	21	86	0	61	18	31	9	40	1.81
1908998--1909026	15	1.9	15	100	0	58	17	55	6	20	1.65
1911085--1911141	20	3.0	18	80	14	69	21	15	10	52	1.72
1911260--1911306	20	2.4	19	79	10	58	21	17	8	53	1.70
1911053--1911520	182	2.6	176	86	4	620	26	17	13	41	1.87
1911672--1911696	11	2.3	11	100	0	50	36	24	8	32	1.84
1913218--1913245	6	4.7	6	100	0	56	46	0	0	53	1.00
1914350--1914428	38	2.1	38	90	0	122	36	21	12	29	1.90
1914655--1914774	38	3.1	38	85	4	150	50	18	4	26	1.64
1914650--1914778	42	3.2	41	82	8	174	51	17	3	27	1.62
1919448--1919492	18	2.7	16	80	12	54	48	0	15	35	1.45
1920487--1920520	6	6.0	6	86	13	54	17	0	0	82	0.67
1920487--1920520	11	3.1	11	100	0	68	17	0	0	82	0.67
1933699--1933729	15	2.1	15	100	0	62	25	35	6	32	1.82
1942916--1942940	9	2.8	9	100	0	50	20	36	0	44	1.52
1944050--1944083	15	2.3	15	100	0	68	14	29	0	55	1.40
1945523--1945653	61	2.3	54	84	9	154	58	16	12	12	1.64
1949678--1949789	32	3.6	32	91	2	174	28	17	20	33	1.96
1960110--1960266	64	2.5	64	81	10	162	27	20	19	32	1.97
1981354--1981384	14	2.1	15	94	5	55	32	0	22	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983082--1983132	23	2.2	22	80	10	57	54	5	5	33	1.48
1986704--1987088	193	2.0	193	97	0	734	30	13	10	45	1.77
2009060--2009570	255	2.0	250	95	4	909	31	21	15	31	1.94
2016286--2017076	397	2.0	394	98	0	1546	31	22	13	31	1.93
2023498--2023543	23	2.0	23	100	0	92	43	13	17	26	1.85
2023631--2023680	21	2.4	21	93	0	82	8	46	24	22	1.78
2027082--2027230	38	3.9	38	92	0	244	31	13	12	42	1.81
2039500--2039550	25	2.0	25	81	7	59	58	5	1	33	1.33
2041417--2041459	3	14.3	3	100	0	86	32	0	0	67	0.91
2052017--2052105	44	2.0	44	88	0	133	32	25	8	32	1.87
2056593--2056634	17	2.5	17	92	0	66	52	11	14	21	1.73
2056602--2056635	17	2.0	17	100	0	68	52	11	17	17	1.73
2058361--2058406	20	2.4	19	81	3	56	39	23	0	36	1.55
2059561--2059618	31	1.9	30	89	3	89	29	18	10	41	1.84
2062914--2062965	18	2.9	17	80	8	68	19	23	32	25	1.97
2065613--2065651	19	2.2	17	86	9	51	53	0	20	25	1.45
2065672--2065706	18	1.9	18	88	11	54	42	5	22	28	1.76
2067436--2067477	17	2.4	17	96	4	75	52	7	23	16	1.68
2078666--2078737	25	2.9	25	84	10	94	29	8	36	26	1.86
2090845--2091022	51	3.5	51	90	1	284	26	25	16	31	1.97
2091017--2091259	54	4.5	54	89	0	360	19	25	18	36	1.94
2091259--2091338	37	2.2	37	84	4	99	20	20	16	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2091654--2091759	36	2.9	37	81	8	128	27	17	20	33	1.96
2091654--2091759	37	2.9	37	84	5	135	27	17	20	33	1.96
2096406--2096556	72	2.1	72	92	0	248	23	25	12	38	1.90
2107313--2107341	3	10.0	3	92	7	51	65	0	0	34	0.93
2108178--2108220	5	8.6	5	82	7	52	2	18	0	79	0.85
2108194--2108222	14	2.1	14	100	0	58	0	13	0	86	0.58
2108817--2109076	69	3.8	69	83	4	292	20	14	43	21	1.87
2108817--2109076	138	1.9	138	83	1	342	20	14	43	21	1.87
2112365--2112398	16	2.1	16	89	10	52	58	14	0	26	1.36
2116308--2116501	51	3.8	51	83	5	232	21	11	9	57	1.61

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