genome.fa.s7849.2.7.7.80.10.50.1000.7.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: VEPZ01007849.1 Hibiscus syriacus cultivar Beakdansim tig00110206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3141433

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

This is table  7  of  12  ( 1357 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)
1721106--1721182	13	5.3	13	81	18	82	18	23	42	15	1.88
1724963--1724997	18	1.9	18	88	0	52	28	17	0	54	1.43
1726097--1726174	8	10.4	8	73	21	71	20	24	39	15	1.91
1726117--1726197	31	2.6	31	92	0	126	16	20	45	17	1.85
1726109--1726201	18	5.3	18	77	16	88	16	20	46	17	1.84
1726103--1726179	13	5.3	13	81	18	82	18	23	42	15	1.88
1728851--1728891	10	4.0	10	84	6	55	58	24	0	17	1.38
1730206--1730289	2	42.0	2	97	0	159	50	1	0	48	1.08
1733114--1733158	21	2.2	21	84	11	58	17	6	2	73	1.15
1733459--1733507	21	2.4	21	79	3	55	12	2	18	67	1.32
1735572--1735633	30	2.1	30	96	0	115	59	9	4	25	1.49
1739151--1739201	26	2.0	26	100	0	102	39	19	29	11	1.87
1739822--1739894	32	2.3	32	86	6	103	24	16	24	34	1.95
1740190--1740302	55	2.0	56	93	1	192	41	4	7	46	1.53
1742156--1742192	15	2.5	15	95	0	65	5	16	70	8	1.30
1747814--1747872	29	2.0	31	93	6	104	50	5	3	40	1.41
1748168--1748208	19	2.2	19	100	0	82	51	14	0	34	1.43
1750497--1750533	19	1.9	19	94	0	65	24	8	13	54	1.66
1757355--1757762	146	2.8	143	87	3	581	38	9	14	37	1.78
1759265--1759295	2	15.5	2	100	0	62	48	0	0	51	1.00
1765513--1765604	2	52.0	2	72	23	64	43	0	0	56	0.99
1765512--1765613	34	3.1	35	88	8	151	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1766464--1766529	10	6.5	10	72	8	53	48	1	3	46	1.26
1766461--1766543	32	2.6	31	81	5	85	45	1	4	48	1.31
1766482--1766575	32	2.9	32	80	3	91	46	2	5	45	1.37
1766558--1766606	22	2.2	22	85	7	64	42	2	2	53	1.24
1772235--1772285	25	2.0	25	100	0	102	27	3	19	49	1.66
1772650--1772686	17	2.2	17	90	0	56	29	32	29	8	1.86
1772878--1772904	14	1.9	14	100	0	54	29	18	22	29	1.97
1777474--1777653	81	2.2	81	82	5	215	31	18	18	31	1.95
1779855--1779929	39	1.9	39	97	0	141	32	13	16	38	1.87
1780566--1780612	3	15.7	3	95	0	85	34	0	0	65	0.93
1780609--1780647	20	2.0	20	85	10	53	20	0	12	66	1.24
1781061--1781112	15	3.2	17	72	22	58	36	21	0	42	1.53
1797641--1797673	16	2.1	16	100	0	66	24	30	21	24	1.99
1805721--1805764	21	2.1	21	83	8	54	65	0	2	31	1.05
1814772--1814982	118	1.8	116	87	4	316	26	10	19	43	1.84
1815668--1815709	2	21.0	2	100	0	84	50	0	0	50	1.00
1817123--1817197	27	2.7	27	74	9	71	34	5	10	49	1.60
1817177--1817266	29	3.1	29	69	15	71	42	2	3	52	1.30
1820895--1820922	3	9.3	3	100	0	56	0	32	0	67	0.91
1828887--1828927	19	2.2	18	87	12	57	39	0	0	60	0.96
1836805--1836846	16	2.5	17	81	14	52	71	2	0	26	0.98
1836809--1836845	15	2.5	15	90	0	56	72	2	0	24	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1838705--1838748	20	2.3	19	85	14	56	43	0	2	54	1.12
1839684--1839732	15	3.3	15	86	13	75	48	0	0	51	1.00
1843070--1843107	2	19.5	2	94	5	69	50	0	0	50	1.00
1843299--1843336	20	1.9	20	88	0	58	23	23	13	39	1.90
1856995--1857045	16	3.4	16	70	25	56	25	11	9	52	1.68
1856996--1857047	17	3.4	17	65	25	51	26	9	9	53	1.64
1856992--1857075	29	2.9	29	89	7	118	25	10	11	52	1.70
1857091--1857164	31	2.4	31	81	4	96	27	14	9	48	1.75
1867116--1867169	25	2.2	25	83	12	67	11	9	33	46	1.71
1868325--1868392	2	34.0	2	100	0	136	50	0	0	50	1.00
1868435--1868830	194	2.0	194	99	0	774	35	15	12	36	1.86
1869834--1869868	3	11.7	3	93	0	61	31	2	0	65	1.07
1878209--1878243	15	2.3	15	100	0	70	51	0	11	37	1.38
1879107--1879179	20	3.7	20	96	0	128	31	24	17	26	1.97
1879049--1879325	142	2.0	142	82	7	348	32	20	19	27	1.97
1879212--1879320	20	5.4	20	85	4	139	37	19	21	22	1.94
1879105--1879328	40	5.5	40	72	12	131	33	20	18	27	1.96
1879844--1879891	20	2.4	20	100	0	96	39	27	18	14	1.90
1879918--1880049	19	7.1	19	80	11	148	12	22	20	43	1.86
1882142--1882230	42	2.1	42	80	0	106	21	38	16	23	1.93
1883617--1883652	14	2.6	14	95	0	63	30	0	25	44	1.54
1883777--1883833	14	3.7	14	72	20	51	43	22	22	10	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1883759--1883848	33	2.7	33	92	0	144	43	21	21	14	1.87
1883759--1883819	19	3.5	19	74	21	69	44	21	21	13	1.86
1883844--1883974	19	7.7	19	66	26	96	16	22	18	41	1.89
1883848--1883974	33	3.8	33	86	8	195	17	22	18	41	1.90
1884275--1884300	13	2.0	13	100	0	52	15	7	30	46	1.74
1890167--1890199	14	2.3	15	89	5	50	57	12	12	18	1.64
1892234--1892307	36	2.1	36	97	2	141	27	32	8	32	1.86
1892628--1893080	222	2.0	222	93	3	779	23	31	14	31	1.94
1896460--1896495	18	1.9	19	94	5	65	41	16	0	41	1.48
1897642--1897704	31	2.0	31	100	0	126	19	19	26	34	1.95
1897977--1898008	2	15.5	2	93	6	55	50	3	0	46	1.17
1898375--1898554	56	3.2	56	86	2	202	31	15	13	40	1.85
1898397--1898554	56	2.8	56	89	0	237	31	17	12	39	1.86
1899143--1899175	12	2.6	13	90	4	50	75	3	0	21	0.93
1902004--1902079	38	2.0	38	100	0	152	34	23	23	18	1.96
1904836--1904878	22	2.0	22	86	9	61	37	0	0	62	0.95
1905098--1905134	3	12.7	3	94	5	67	67	0	0	32	0.91
1905098--1905130	17	1.9	17	100	0	66	66	0	0	33	0.92
1917311--1917351	23	1.9	21	85	14	57	48	2	4	43	1.37
1922278--1922303	13	2.0	13	100	0	52	30	23	7	38	1.83
1924895--1924979	42	2.0	42	100	0	170	22	9	11	56	1.63
1926744--1926799	19	3.1	19	74	10	62	3	12	30	53	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1926757--1926802	14	3.0	15	76	17	58	4	13	28	54	1.57
1931900--1931943	23	2.0	20	87	12	61	31	2	6	59	1.36
1932559--1932593	2	17.5	2	100	0	70	51	0	0	48	1.00
1933490--1933534	21	2.1	22	83	4	56	57	0	0	42	0.98
1943124--1943161	12	3.2	12	88	0	58	5	15	50	28	1.66
1943165--1943268	2	54.5	2	73	9	74	48	0	0	51	1.00
1944250--1944618	20	18.5	20	85	4	458	34	26	18	20	1.96
1945292--1945338	24	2.0	24	87	8	69	25	14	21	38	1.92
1947840--1948164	19	18.4	19	80	16	396	47	17	20	14	1.82
1947840--1948164	33	9.2	34	78	12	290	47	17	20	14	1.82
1947867--1948186	161	2.0	157	93	3	543	47	16	21	14	1.82
1947867--1948186	52	6.0	52	92	4	541	47	16	21	14	1.82
1948193--1948294	19	5.6	19	85	12	151	14	23	17	44	1.86
1948401--1948437	14	2.6	14	91	0	65	45	21	0	32	1.52
1948432--1948504	12	6.0	12	67	20	53	57	16	1	24	1.47
1948418--1948490	38	1.9	38	97	0	137	53	16	1	28	1.51
1950308--1950442	19	7.6	19	76	16	137	45	24	19	10	1.81
1950364--1950420	14	3.7	14	77	20	60	45	24	21	8	1.80
1950345--1950437	33	2.8	33	98	0	177	47	22	20	9	1.79
1950308--1950442	52	2.5	54	75	18	131	45	24	19	10	1.81
1950438--1950566	19	7.3	19	75	17	125	8	17	28	45	1.77
1950438--1950529	33	2.8	33	93	3	150	7	18	28	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1950609--1950988	93	4.1	93	98	0	744	46	18	12	22	1.83
1950609--1950988	185	2.0	186	98	0	744	46	18	12	22	1.83
1952695--1952784	14	5.7	14	74	23	81	42	23	25	8	1.83
1952687--1952801	33	3.5	33	95	0	212	45	20	24	9	1.81
1952694--1952806	19	6.8	18	72	23	88	43	22	24	9	1.83
1952818--1952872	14	3.6	14	73	21	56	9	27	23	40	1.85
1952858--1952913	20	2.8	20	86	0	76	14	26	17	41	1.88
1952992--1953062	33	2.2	33	92	0	115	47	18	22	11	1.80
1953243--1953297	22	2.5	22	81	0	74	20	16	40	23	1.91
1953443--1953636	20	9.6	20	82	5	221	19	19	25	35	1.95

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