genome.fa.s1836.2.7.7.80.10.50.1000.9.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: VEPZ01001836.1 Hibiscus syriacus cultivar Beakdansim tig00003715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2428596

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  9  of  12  ( 1328 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)
1741600--1741639	20	2.0	20	100	0	80	25	5	10	60	1.49
1742424--1742476	21	2.5	21	90	0	79	22	26	28	22	1.99
1742731--1742769	20	2.0	20	85	10	53	33	0	17	48	1.48
1745195--1745244	23	2.2	23	96	3	93	22	24	34	20	1.97
1747031--1747057	13	2.1	13	100	0	54	29	0	29	40	1.57
1749367--1749407	21	2.0	21	85	9	57	39	0	19	41	1.52
1749961--1749990	14	2.1	14	100	0	60	0	30	0	70	0.88
1751864--1751904	20	2.0	20	100	0	82	19	29	21	29	1.98
1771586--1771639	19	2.8	19	81	13	67	18	20	11	50	1.77
1773708--1773779	36	2.0	36	91	0	117	30	25	20	23	1.99
1775695--1775749	19	2.9	19	82	12	69	18	20	10	50	1.76
1781496--1781570	29	2.6	29	86	2	87	34	16	21	28	1.94
1781508--1781573	29	2.3	29	91	0	105	31	16	21	30	1.95
1796050--1796131	23	3.7	23	73	15	82	25	25	19	29	1.99
1798411--1798436	13	2.0	13	100	0	52	46	7	0	46	1.31
1802178--1802230	18	2.9	19	77	8	65	30	5	16	47	1.70
1802181--1802239	27	2.2	27	78	6	66	27	6	16	49	1.71
1802181--1802239	18	3.3	18	78	0	64	27	6	16	49	1.71
1803123--1803197	33	2.3	31	88	6	114	44	9	18	28	1.81
1804792--1804824	15	2.3	15	94	5	59	42	0	6	51	1.26
1805177--1806259	223	4.9	222	85	2	1467	24	14	28	33	1.94
1813200--1813240	4	10.5	4	94	5	75	24	0	26	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1818815--1818853	16	2.4	17	82	4	53	25	2	10	61	1.41
1822922--1822955	11	3.0	11	91	4	50	61	8	8	20	1.52
1822927--1822970	11	4.0	11	85	5	54	54	9	11	25	1.65
1823990--1824055	27	2.5	26	73	11	62	12	24	6	57	1.57
1825244--1825277	6	5.8	6	93	6	61	85	0	0	14	0.60
1825244--1825276	11	2.9	11	95	4	57	84	0	0	15	0.61
1825232--1825277	17	2.7	16	90	10	65	82	2	2	13	0.85
1831057--1831081	2	12.5	2	100	0	50	52	0	0	48	1.00
1831757--1831851	13	7.5	13	70	16	65	62	2	2	33	1.19
1831766--1831858	16	5.3	16	67	22	53	61	2	2	34	1.20
1831941--1831982	20	2.0	22	90	9	70	52	0	0	47	1.00
1834757--1834791	6	5.8	6	96	0	61	11	51	0	37	1.38
1836636--1836706	18	3.8	18	78	14	90	28	32	21	18	1.96
1837277--1837421	64	2.3	65	81	4	161	26	17	21	33	1.96
1840094--1840128	2	17.5	2	100	0	70	48	0	0	51	1.00
1840128--1840152	2	12.5	2	100	0	50	0	0	48	52	1.00
1841033--1841072	21	1.9	21	94	0	71	30	25	22	22	1.99
1841093--1841134	21	2.0	21	100	0	84	23	23	28	23	2.00
1841134--1841191	12	4.8	12	71	0	53	20	13	20	44	1.85
1841134--1841191	24	2.4	24	82	0	71	20	13	20	44	1.85
1846978--1847020	16	2.7	16	92	0	77	55	13	0	30	1.39
1847581--1847622	23	1.9	22	90	9	68	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1847576--1847633	23	2.5	22	75	10	62	48	0	0	51	1.00
1847618--1847664	24	1.9	24	87	12	69	38	0	0	61	0.96
1852317--1852647	43	7.8	43	82	3	377	23	23	20	32	1.98
1852317--1852657	85	4.0	85	80	4	375	23	23	20	32	1.98
1854971--1855084	26	4.5	26	65	20	69	37	28	4	28	1.76
1854969--1855106	26	5.5	24	66	16	64	36	30	3	28	1.74
1854969--1855133	76	2.2	77	97	2	323	38	29	3	28	1.74
1855398--1855428	7	4.4	7	91	0	53	38	9	32	19	1.84
1855907--1856323	44	9.4	44	93	0	600	33	19	6	41	1.77
1856477--1856651	60	2.9	60	86	2	235	30	21	13	34	1.92
1856640--1856959	59	5.4	59	77	7	317	30	22	9	37	1.86
1856614--1856964	118	3.0	117	87	4	472	31	22	9	36	1.87
1856618--1856958	177	1.9	177	80	4	402	31	21	9	36	1.87
1856680--1856980	59	5.1	58	81	4	354	31	21	9	36	1.86
1862389--1862893	44	11.4	44	91	0	731	33	19	5	40	1.76
1863047--1863212	60	2.8	60	88	3	228	31	19	12	35	1.90
1863248--1863534	59	4.9	59	81	4	346	30	24	9	35	1.87
1863250--1863534	118	2.4	118	94	2	509	30	23	9	35	1.88
1866116--1866227	46	2.4	46	96	0	206	41	4	11	42	1.61
1866146--1866221	25	3.2	25	74	14	97	43	2	10	43	1.53
1866111--1866227	25	5.0	24	70	21	88	40	5	11	43	1.62
1866256--1866349	23	4.1	23	85	0	134	34	11	22	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1877219--1877304	36	2.4	37	82	7	104	39	13	23	23	1.90
1877241--1877296	18	3.1	18	97	0	103	37	16	25	21	1.93
1878999--1879023	3	8.3	3	100	0	50	0	36	0	64	0.94
1883135--1883163	11	2.6	11	100	0	58	27	27	10	34	1.89
1883466--1883501	2	18.5	2	94	5	65	50	0	0	50	1.00
1892881--1892971	19	4.8	19	95	0	164	29	16	31	21	1.95
1893606--1893672	18	3.6	18	82	7	89	17	20	29	31	1.96
1897392--1897425	16	2.1	16	88	5	50	38	17	5	38	1.74
1902157--1902187	2	15.5	2	93	0	53	3	48	0	48	1.17
1904930--1904978	14	3.5	14	82	0	71	63	20	6	10	1.47
1904914--1904982	28	2.5	28	92	0	111	59	17	11	11	1.61
1905413--1905505	21	4.6	20	72	4	78	39	17	23	19	1.92
1905410--1905505	41	2.3	41	90	0	165	40	16	22	19	1.91
1905413--1905505	20	4.6	20	72	4	78	39	17	23	19	1.92
1905432--1905566	41	3.3	41	78	8	107	38	20	20	20	1.94
1905494--1905588	20	4.7	20	80	2	91	34	24	17	23	1.96
1905491--1905568	41	1.9	41	86	0	111	39	21	16	21	1.92
1905776--1905819	22	2.0	22	95	0	79	20	45	15	18	1.85
1906063--1906106	20	2.2	20	87	0	61	11	18	20	50	1.77
1907426--1907470	18	2.5	18	85	7	65	28	40	13	17	1.88
1907937--1908003	20	3.4	20	81	2	73	38	23	22	14	1.92
1907992--1908049	14	3.9	14	79	16	71	48	24	17	10	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1907976--1908066	32	2.8	33	94	3	166	47	21	18	12	1.81
1908083--1908140	14	3.9	14	79	16	71	8	17	25	48	1.75
1908078--1908198	32	3.5	32	81	14	143	11	19	23	44	1.84
1908097--1908214	20	6.4	19	77	11	95	13	19	24	42	1.87
1910067--1910102	14	2.6	14	90	0	54	30	0	22	47	1.52
1910219--1910285	18	3.8	19	79	18	83	46	16	22	14	1.84
1910311--1910361	20	2.5	20	93	0	84	19	23	23	33	1.97
1910726--1910761	14	2.6	14	90	0	54	30	0	22	47	1.52
1912000--1912058	24	2.5	24	82	0	73	28	16	18	35	1.93
1912233--1912257	12	2.1	12	100	0	50	72	0	28	0	0.86
1914782--1914875	20	4.7	20	77	2	80	23	17	24	35	1.95
1914864--1914959	41	2.3	41	96	0	138	19	23	16	39	1.92
1914864--1914956	20	4.6	20	75	4	87	19	24	17	38	1.92
1915480--1915592	20	5.7	20	98	0	217	38	21	20	19	1.93
1915788--1915834	22	2.1	22	96	0	85	23	40	14	21	1.90
1916208--1916258	20	2.7	19	85	8	68	9	17	25	47	1.78
1916221--1916261	20	2.0	20	100	0	82	9	14	19	56	1.66
1916225--1916268	20	2.2	20	91	0	70	11	13	20	54	1.69
1918131--1918183	20	2.7	20	87	0	70	41	24	11	22	1.86
1918156--1918321	53	3.1	53	68	14	142	43	20	18	16	1.87
1918223--1918285	20	3.2	20	88	0	81	38	22	17	22	1.93
1918231--1918289	20	3.0	20	89	0	82	37	20	20	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1918334--1918402	20	3.5	20	89	0	102	18	18	24	37	1.94
1918886--1918990	21	5.0	21	71	3	86	20	36	19	23	1.95
1918912--1918993	42	2.0	42	82	4	103	21	37	19	20	1.94
1920362--1920397	14	2.6	14	90	0	54	30	0	22	47	1.52
1920539--1920634	33	2.8	33	87	3	129	12	22	20	43	1.86
1920574--1920694	20	6.4	19	80	15	117	15	20	23	39	1.91
1920606--1920694	40	2.2	40	88	4	135	17	20	24	37	1.94
1921295--1921361	20	3.3	20	93	0	116	22	19	28	29	1.98
1921348--1921400	20	2.7	20	93	0	88	18	18	22	39	1.92
1921629--1921669	21	2.0	21	95	0	73	31	0	21	46	1.52

Tables:   1   2   3   4   5   6   7   8   9   10   11   12