genome.fa.s8656.2.7.7.80.10.50.1000.9.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: VEPZ01008656.1 Hibiscus syriacus cultivar Beakdansim tig00111650_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2456495

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

This is table  9  of  12  ( 1378 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)
1817733--1817758	12	2.2	12	100	0	52	23	0	0	76	0.78
1817730--1817760	15	2.1	14	94	5	53	25	0	0	74	0.82
1820982--1821014	2	17.5	2	87	12	52	48	0	0	51	1.00
1820982--1821013	7	4.9	7	96	3	50	46	0	0	53	1.00
1822811--1823299	109	4.5	109	89	3	741	36	11	15	35	1.84
1822826--1823299	164	2.9	165	91	2	767	37	10	15	36	1.83
1822826--1823299	55	8.7	55	91	1	747	37	10	15	36	1.83
1822826--1823304	219	2.2	219	90	2	748	37	10	15	36	1.83
1823597--1823684	46	1.9	46	90	4	142	45	10	20	23	1.82
1828552--1828611	17	3.4	16	76	17	57	76	1	3	18	1.00
1828551--1828611	12	5.2	11	73	21	52	77	1	3	18	0.99
1831760--1831810	20	2.5	20	87	0	75	31	23	21	23	1.98
1832880--1832915	18	2.0	18	94	0	63	55	25	2	16	1.55
1833697--1833733	18	2.1	18	89	0	56	29	8	10	51	1.65
1833689--1833741	24	2.2	24	89	0	79	33	5	13	47	1.66
1834042--1834127	38	2.2	39	93	2	147	48	20	12	17	1.80
1834335--1834420	20	4.7	20	68	17	78	18	17	24	39	1.92
1834480--1834619	66	2.2	60	87	7	190	50	17	0	30	1.51
1837910--1837973	20	3.2	20	93	2	103	48	23	17	10	1.78
1839401--1839456	20	2.8	20	76	17	62	73	1	0	25	0.93
1844389--1844427	17	2.3	17	86	8	53	48	0	17	33	1.48
1845894--1846062	45	3.8	45	91	2	252	43	7	19	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850200--1850250	20	2.5	20	100	0	102	27	19	17	35	1.94
1853652--1853683	11	2.9	11	95	0	55	31	0	12	56	1.37
1854395--1854434	21	1.9	21	84	0	53	50	5	10	35	1.58
1858226--1858270	23	2.0	23	95	0	81	24	0	42	33	1.55
1883075--1883133	30	2.0	30	89	0	91	30	5	16	47	1.69
1885378--1885811	210	2.1	211	83	3	536	35	16	19	29	1.93
1885593--1886390	233	3.4	232	81	3	874	36	17	17	28	1.93
1886571--1886623	21	2.5	21	87	9	72	28	20	15	35	1.93
1890296--1890351	20	2.8	20	94	2	94	28	8	17	44	1.79
1890296--1890351	12	5.3	12	71	28	56	28	8	17	44	1.79
1895267--1895312	24	1.9	24	86	0	65	26	21	26	26	2.00
1901606--1901644	17	2.3	17	86	0	51	23	2	0	74	0.94
1901617--1901642	12	2.2	12	100	0	52	15	0	0	84	0.62
1903100--1903162	28	2.2	28	86	5	83	15	19	14	50	1.77
1904489--1904688	13	13.1	15	85	12	168	86	0	13	0	0.60
1904475--1904679	17	12.1	17	85	8	197	85	0	12	0	0.67
1904475--1904688	8	26.5	8	82	11	194	85	0	13	0	0.68
1904528--1904649	1	122.0	1	88	0	181	94	0	4	0	0.35
1906705--1906909	98	2.1	98	86	3	279	32	10	19	37	1.85
1906930--1907042	42	2.7	41	74	6	111	26	20	22	30	1.98
1907329--1907536	39	5.5	39	75	5	169	32	19	12	36	1.89
1907402--1907625	36	6.1	36	71	4	144	32	20	9	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1907328--1907621	74	4.0	73	82	5	297	32	20	11	35	1.88
1907958--1908348	122	3.1	122	83	6	377	36	18	20	24	1.95
1908080--1908464	139	2.8	139	90	0	599	37	17	18	25	1.93
1944545--1944699	77	2.0	78	84	3	206	21	7	29	41	1.81
1945989--1946055	32	2.1	32	97	0	125	26	19	17	35	1.94
1948076--1948164	34	2.6	36	76	15	98	39	8	8	42	1.68
1949879--1949933	23	2.4	23	96	0	101	36	0	12	50	1.41
1950924--1950961	20	1.9	20	88	0	58	44	7	18	28	1.78
1950805--1951423	194	3.2	192	87	4	815	43	12	11	32	1.79
1956750--1957775	448	2.3	442	83	4	1294	42	14	14	29	1.84
1960186--1960231	23	2.0	24	86	4	67	34	21	13	30	1.91
1960348--1960381	17	2.0	17	100	0	68	64	5	5	23	1.38
1960028--1960742	243	3.1	236	83	8	843	31	17	14	36	1.90
1964890--1964952	31	2.0	32	87	3	92	44	20	14	20	1.86
1964977--1965103	11	10.6	11	70	12	56	34	22	17	25	1.95
1965003--1965060	24	2.4	24	79	0	71	37	18	18	24	1.94
1964990--1965069	35	2.1	40	80	19	109	38	21	18	21	1.93
1964999--1965090	37	2.5	35	79	10	103	35	20	17	26	1.95
1969736--1969794	31	1.9	31	89	0	91	44	1	8	45	1.44
1969818--1970116	22	13.6	22	82	10	355	48	9	0	41	1.38
1969818--1970116	44	6.8	44	84	6	392	48	9	0	41	1.38
1969818--1970119	66	4.6	66	92	1	444	48	9	0	42	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1970103--1970142	12	3.6	12	77	16	50	52	0	2	45	1.14
1970592--1970868	22	12.6	22	90	1	421	49	9	0	41	1.35
1970855--1970894	12	3.6	12	77	16	50	52	0	0	47	1.00
1972639--1972691	27	2.0	26	89	10	81	30	15	7	47	1.73
1974312--1974355	3	15.3	3	82	17	58	70	0	0	29	0.88
1974312--1974355	11	4.1	11	94	5	81	70	0	0	29	0.88
1974312--1974363	21	2.5	21	90	6	79	71	1	0	26	0.97
1977316--1977343	11	2.5	11	100	0	56	53	0	28	17	1.44
1978164--1978215	26	2.0	27	85	11	72	32	15	11	40	1.83
1980507--1980547	15	2.6	16	81	14	50	78	0	7	14	0.96
1980566--1980596	2	15.5	2	100	0	62	51	0	0	48	1.00
1980614--1980670	3	20.3	3	74	13	50	61	3	3	31	1.30
1980632--1980670	16	2.5	15	87	8	51	61	0	5	33	1.18
1980877--1980958	22	3.8	21	71	16	60	60	2	4	31	1.30
1981437--1981530	37	2.5	37	84	0	125	34	11	17	37	1.86
1982261--1983954	106	16.0	106	89	1	2422	23	18	24	34	1.96
1984702--1984778	22	3.5	22	90	0	127	20	11	27	40	1.87
1985173--1985518	172	2.0	171	91	4	561	25	18	19	36	1.94
1985550--1985620	27	2.6	26	78	13	63	1	9	9	78	1.02
1985561--1985616	24	2.3	24	79	11	62	0	10	8	80	0.91
1989656--1989682	2	13.5	2	100	0	54	51	0	0	48	1.00
1990473--1990577	37	2.8	36	81	5	129	32	14	14	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2001942--2002273	139	2.4	137	79	5	355	43	12	12	31	1.79
2004424--2004502	2	40.0	2	92	7	135	49	0	1	49	1.09
2014902--2014963	18	3.4	18	95	0	106	6	29	30	33	1.83
2025141--2025174	16	2.1	16	94	0	59	55	0	14	29	1.40
2034377--2034448	17	4.2	17	67	3	54	43	6	12	37	1.70
2040695--2040729	17	2.1	17	89	5	54	54	0	14	31	1.40
2047727--2047756	15	2.0	15	93	0	51	3	20	0	76	0.92
2055011--2055035	12	2.1	12	100	0	50	44	0	32	24	1.54
2081369--2081421	23	2.3	23	74	6	54	52	1	1	43	1.23
2082657--2082705	3	16.7	3	82	4	55	65	2	0	32	1.04
2082645--2082705	27	2.3	27	82	5	70	62	1	0	36	1.05
2084964--2085006	20	2.2	20	86	0	59	34	20	13	30	1.92
2085563--2085595	10	3.2	10	95	4	57	0	12	0	87	0.53
2085563--2085595	11	3.1	11	91	4	50	0	12	0	87	0.53
2093827--2094015	101	1.9	101	94	0	333	27	20	15	36	1.93
2095177--2095232	19	2.9	19	81	7	78	57	3	8	30	1.47
2095586--2095630	16	2.6	18	89	6	67	2	15	0	82	0.77
2095593--2095651	25	2.3	26	82	8	77	3	18	0	77	0.90
2099169--2099199	9	3.6	9	91	8	55	54	0	22	22	1.44
2102866--2102897	15	2.1	15	94	0	55	46	9	18	25	1.79
2106949--2106997	20	2.5	20	72	21	50	46	2	0	51	1.12
2106974--2107026	23	2.3	23	74	6	54	52	1	1	43	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2112957--2113001	16	2.9	16	75	18	51	22	24	11	42	1.86
2113128--2113190	18	3.3	19	71	20	67	50	1	3	44	1.27
2113121--2113191	21	3.6	21	73	19	71	53	1	2	42	1.24
2113195--2113267	22	3.3	22	84	7	78	31	8	6	53	1.57
2113378--2113423	24	1.9	24	82	8	58	50	0	15	34	1.44
2114815--2114841	2	13.5	2	100	0	54	51	0	0	48	1.00
2115001--2115052	24	2.2	24	82	0	59	50	17	11	21	1.77
2115021--2115135	24	4.8	24	86	6	135	40	19	15	24	1.90
2118573--2118643	33	2.2	33	82	5	81	54	2	8	33	1.45
2118680--2118730	2	26.0	2	77	18	54	43	3	0	52	1.19

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