genome.fa.s4117.2.7.7.80.10.50.1000.7.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: VEPZ01004117.1 Hibiscus syriacus cultivar Beakdansim tig00009009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2456583

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1080 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)
1755313--1755385	30	2.4	30	95	0	128	35	27	17	19	1.94
1755313--1755396	30	2.8	30	90	0	114	35	28	17	17	1.93
1756169--1756206	20	1.9	20	100	0	76	26	31	15	26	1.96
1756221--1756293	21	3.5	21	98	0	137	27	21	20	30	1.98
1758248--1758315	3	22.7	3	96	0	127	64	0	1	33	1.02
1758575--1758879	152	2.0	152	96	0	556	35	15	15	33	1.89
1760022--1760058	14	2.6	14	91	0	56	56	18	16	8	1.64
1760338--1760405	14	5.1	14	73	20	65	63	17	8	10	1.51
1760350--1760407	24	2.4	24	85	5	73	63	17	8	10	1.49
1760595--1760663	33	2.1	33	100	0	138	37	13	14	34	1.85
1762215--1762250	16	2.2	16	95	0	63	27	13	19	38	1.90
1768306--1768358	13	3.8	13	86	13	79	60	13	9	16	1.58
1768348--1768392	10	4.6	10	83	2	56	60	15	11	13	1.60
1768812--1768880	33	2.1	33	100	0	138	37	13	14	34	1.85
1772791--1772828	7	5.4	7	96	0	67	26	26	28	18	1.98
1772825--1772887	5	11.8	5	80	12	72	6	22	52	19	1.68
1772818--1772904	22	4.0	22	98	0	165	10	22	48	18	1.78
1772901--1772999	9	10.3	9	77	10	81	29	27	27	16	1.97
1772926--1773000	29	2.5	31	89	8	120	29	26	26	17	1.97
1772901--1772999	19	5.2	19	76	17	80	29	27	27	16	1.97
1780154--1780191	7	5.4	7	96	0	67	26	26	28	18	1.98
1780188--1780269	5	15.2	5	78	14	83	7	21	52	18	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1780181--1780269	22	4.0	22	100	0	178	8	22	50	17	1.74
1780187--1780267	17	5.0	15	77	14	63	7	23	50	18	1.72
1780270--1780344	29	2.5	31	89	8	120	29	26	26	17	1.97
1780270--1780344	9	7.8	9	80	11	69	29	26	26	17	1.97
1784800--1784927	60	2.1	60	85	0	175	34	16	17	32	1.92
1787556--1787602	24	2.0	24	91	0	76	46	19	10	23	1.80
1787565--1787603	12	3.2	12	85	0	60	46	17	12	23	1.83
1794875--1794969	34	2.8	32	76	14	93	45	11	4	38	1.60
1799968--1800042	35	2.1	35	90	0	114	33	30	26	9	1.88
1800120--1800210	24	3.8	24	85	2	121	37	20	15	26	1.93
1800120--1800210	47	1.9	48	88	2	139	37	20	15	26	1.93
1801708--1801830	63	2.0	63	100	0	246	27	28	9	34	1.89
1801876--1801912	17	2.1	18	90	5	58	35	13	5	45	1.66
1802740--1802784	8	5.5	8	84	10	56	24	28	33	13	1.93
1802752--1802780	15	1.9	15	100	0	58	31	27	27	13	1.94
1802771--1802833	13	4.5	13	74	18	63	17	22	44	15	1.86
1802771--1802837	31	2.2	31	91	0	107	16	20	46	16	1.84
1803728--1803752	12	2.1	12	100	0	50	40	8	12	40	1.72
1803923--1803962	21	1.9	21	94	0	71	32	30	15	22	1.94
1803924--1804087	64	2.5	65	84	6	190	33	25	16	25	1.96
1803973--1804133	64	2.5	63	85	6	191	31	25	16	26	1.96
1809947--1810027	24	3.6	22	77	14	85	23	25	23	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809927--1810027	44	2.3	44	81	8	116	25	25	21	26	2.00
1810730--1810774	21	2.1	21	87	0	63	20	48	4	26	1.68
1812461--1812485	12	2.1	12	100	0	50	40	8	12	40	1.72
1812656--1812695	21	1.9	21	94	0	71	32	30	15	22	1.94
1812657--1812820	64	2.5	65	84	6	190	33	25	16	25	1.96
1812706--1812866	64	2.5	63	85	6	191	31	25	16	26	1.96
1812924--1812981	22	2.6	22	97	0	107	24	31	15	29	1.95
1814687--1814761	35	2.1	35	90	0	114	33	30	26	9	1.88
1814839--1814929	24	3.8	24	85	2	121	37	19	17	25	1.94
1814839--1814929	47	1.9	48	88	2	139	37	19	17	25	1.94
1816429--1816554	63	2.0	63	98	0	243	25	29	11	34	1.90
1817486--1817544	13	4.2	13	76	19	64	15	22	44	18	1.87
1817490--1817549	18	3.6	18	70	21	67	11	21	48	18	1.80
1817488--1817548	31	2.0	31	96	0	113	14	19	47	18	1.82
1819463--1819563	35	2.9	35	98	0	193	32	29	29	7	1.86
1819651--1819741	24	3.8	24	85	2	130	37	19	16	26	1.93
1819651--1819741	47	1.9	48	90	2	148	37	19	16	26	1.93
1821239--1821361	63	2.0	63	98	0	237	28	28	8	34	1.87
1822280--1822312	15	2.2	15	100	0	66	24	27	36	12	1.91
1822302--1822364	13	4.5	13	78	18	72	14	22	47	15	1.81
1822302--1822369	31	2.2	31	97	0	127	13	22	48	16	1.80
1822281--1822328	8	6.5	8	81	18	68	20	25	39	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1822296--1822350	18	2.9	18	91	8	83	14	21	47	16	1.82
1823576--1823714	29	4.8	29	92	3	235	20	19	34	25	1.96
1829250--1829288	17	2.3	17	95	0	69	28	7	23	41	1.82
1848876--1848909	16	2.1	16	94	0	59	32	26	8	32	1.87
1852597--1852622	6	4.3	6	100	0	52	15	15	50	19	1.79
1854882--1854942	19	3.0	20	81	13	72	37	1	0	60	1.07
1855938--1856110	54	3.2	54	90	3	260	24	27	21	27	1.99
1859101--1859126	12	2.2	12	100	0	52	65	0	7	26	1.20
1866620--1866662	22	2.0	22	86	9	61	53	2	2	41	1.26
1885848--1885886	18	2.1	18	85	9	51	51	10	5	33	1.58
1885902--1885939	19	2.1	18	90	9	60	42	7	5	44	1.56
1886067--1886105	16	2.5	15	87	8	51	43	15	2	38	1.60
1886973--1887019	9	4.9	10	76	10	53	19	25	27	27	1.99
1886975--1887020	19	2.4	19	96	0	83	21	26	28	23	1.99
1887033--1887070	17	2.2	17	95	0	67	18	44	23	13	1.85
1893645--1893687	9	4.5	10	80	11	54	18	27	30	23	1.98
1893673--1893720	14	3.4	14	88	0	60	18	43	25	12	1.85
1897317--1897351	14	2.5	14	90	0	52	54	20	17	8	1.68
1897334--1897451	10	11.3	10	68	20	55	57	16	11	13	1.65
1897365--1897417	13	3.8	13	86	13	79	60	15	7	16	1.57
1897407--1897451	10	4.6	10	83	2	56	60	15	11	13	1.60
1897895--1897963	33	2.1	33	100	0	138	37	13	14	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1904792--1904859	24	2.8	24	84	8	102	38	19	14	27	1.91
1905607--1905712	44	2.4	44	91	0	167	33	21	9	35	1.86
1905798--1905879	40	2.0	40	100	0	164	32	26	17	23	1.96
1918516--1918553	18	2.1	19	85	5	51	36	2	0	60	1.11
1919154--1919191	17	2.2	17	90	0	58	28	21	26	23	1.99
1925322--1925374	28	2.0	27	85	7	72	41	16	9	32	1.81
1925407--1925441	16	2.2	16	100	0	70	28	22	11	37	1.89
1925672--1925701	7	4.4	7	91	8	53	10	13	0	76	1.01
1925671--1925722	20	2.8	18	86	11	70	5	11	0	82	0.82
1925670--1925722	17	2.9	17	81	10	61	5	13	0	81	0.86
1932171--1932263	12	7.8	12	73	13	75	49	16	15	19	1.80
1932171--1932263	24	3.9	24	82	2	98	49	16	15	19	1.80
1932169--1932260	48	1.9	48	86	4	132	50	15	15	19	1.79
1932169--1932275	48	2.2	48	81	6	128	49	14	14	20	1.79
1934766--1934805	18	2.2	18	86	8	55	17	17	47	17	1.83
1934785--1934819	13	2.7	13	86	0	52	17	20	45	17	1.85
1934752--1934824	31	2.4	31	86	4	94	17	19	45	17	1.86
1946557--1946609	27	2.0	26	85	7	72	62	0	5	32	1.19
1947397--1947480	41	2.0	41	95	0	150	42	14	4	38	1.66
1947947--1948071	62	2.0	62	90	0	196	33	11	16	38	1.85
1949586--1949625	4	10.2	4	94	5	73	77	0	0	22	0.77
1950345--1950376	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1951845--1951869	12	2.1	12	100	0	50	36	16	8	40	1.77
1959941--1959973	15	2.1	16	88	5	50	9	24	15	51	1.72
1963379--1963435	29	2.0	29	96	0	105	47	14	12	26	1.79
1966263--1966319	29	2.0	29	100	0	114	45	14	14	26	1.82
1967649--1967674	3	8.7	3	100	0	52	65	0	0	34	0.93
1971003--1971042	19	2.2	18	86	4	53	20	40	20	20	1.92
1970984--1971079	43	2.1	44	84	7	122	23	38	17	19	1.93
1972304--1972347	21	2.0	22	82	4	54	20	11	6	61	1.52
1973224--1973279	11	5.6	11	72	23	61	32	19	32	16	1.94
1973223--1973287	19	3.4	19	95	0	121	33	18	32	15	1.92

Tables:   1   2   3   4   5   6   7   8   9