genome.fa.s8424.2.7.7.80.10.50.1000.8.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: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4198033

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

This is table  8  of  16  ( 1819 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)
1758757--1758800	22	1.9	22	81	9	52	34	22	11	31	1.90
1758901--1759254	134	2.7	132	76	10	362	27	33	15	23	1.95
1762334--1762394	22	2.7	22	80	10	70	42	4	4	47	1.46
1764591--1764673	37	2.3	37	97	2	159	26	31	2	39	1.69
1764907--1764973	3	22.3	3	100	0	134	67	0	0	32	0.91
1765427--1765493	21	3.2	21	79	8	57	35	14	17	31	1.91
1766136--1766161	13	2.0	13	100	0	52	38	7	23	30	1.83
1768213--1768308	21	4.5	21	78	2	93	36	10	12	40	1.77
1769455--1769516	27	2.2	28	91	2	99	45	27	8	19	1.78
1770608--1770684	32	2.4	32	80	8	86	25	22	23	28	1.99
1772183--1772212	2	15.0	2	100	0	60	50	0	0	50	1.00
1772259--1772292	13	2.4	15	90	9	54	26	5	2	64	1.30
1776611--1776655	22	2.0	22	83	8	56	22	2	0	75	0.91
1777695--1777744	25	2.0	25	92	0	82	46	2	14	38	1.56
1781191--1781370	65	2.8	65	79	12	192	28	18	23	28	1.98
1781192--1781400	65	3.2	65	75	15	184	28	19	23	29	1.98
1789866--1790045	65	2.8	65	79	5	188	30	18	21	30	1.97
1793495--1793657	76	2.2	75	81	5	177	27	1	13	57	1.47
1794298--1794338	22	1.9	21	90	5	64	19	2	0	78	0.87
1794298--1794339	16	2.6	16	81	11	50	21	2	0	76	0.90
1799071--1799102	3	11.0	3	93	6	57	68	0	0	31	0.90
1799228--1799510	82	3.4	82	80	7	311	24	18	21	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1799588--1800250	89	7.4	89	80	3	634	31	18	16	33	1.94
1799590--1800250	267	2.5	266	81	2	707	31	18	16	33	1.94
1799588--1800250	178	3.7	178	82	2	722	31	18	16	33	1.94
1803506--1803565	22	2.8	20	76	11	66	31	13	30	25	1.93
1803436--1803661	94	2.4	94	81	7	235	33	15	23	28	1.95
1804462--1804939	80	6.0	80	87	1	647	35	12	24	27	1.92
1804482--1804939	159	2.9	156	88	2	621	36	12	24	27	1.91
1809856--1809898	20	2.2	20	86	0	59	30	11	20	37	1.89
1818091--1818131	15	2.9	14	85	3	55	82	2	14	0	0.76
1818744--1818798	27	2.0	27	96	0	101	30	25	21	21	1.98
1820277--1820335	22	2.8	20	74	20	57	33	11	28	25	1.91
1821253--1821632	80	4.8	80	83	4	443	37	10	23	28	1.88
1826979--1827048	23	3.0	23	83	8	97	17	32	21	28	1.96
1828974--1829041	23	3.6	18	79	20	61	5	17	0	76	0.98
1828968--1829026	23	2.5	24	91	5	102	6	15	0	77	0.96
1828997--1829042	16	2.7	17	81	18	60	4	17	0	78	0.91
1829583--1829672	35	2.6	35	79	17	100	11	13	1	74	1.13
1829583--1829659	7	11.3	7	72	22	58	11	14	0	74	1.08
1829642--1829689	19	2.5	20	83	10	55	10	12	2	75	1.14
1830020--1830060	20	2.0	20	100	0	82	48	4	26	19	1.69
1838051--1838089	18	2.2	18	85	0	51	51	0	15	33	1.44
1839574--1839697	63	2.0	63	80	6	144	19	26	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844879--1844904	13	2.0	13	100	0	52	0	15	30	53	1.42
1852055--1852100	20	2.3	21	82	17	62	45	17	21	15	1.85
1852062--1852100	20	2.0	20	90	9	64	43	15	25	15	1.86
1852483--1852629	55	2.7	55	89	1	215	34	12	19	32	1.90
1852483--1852681	109	1.8	109	81	4	249	37	12	18	32	1.88
1852842--1853302	68	6.8	68	89	1	694	29	15	25	29	1.96
1853635--1853709	22	3.2	25	60	18	61	38	13	24	24	1.91
1853369--1853715	45	7.7	45	84	1	426	35	12	24	27	1.92
1857512--1857562	20	2.5	20	90	6	77	37	17	27	17	1.93
1857573--1857609	19	1.9	19	94	0	65	35	16	21	27	1.94
1858127--1858524	45	8.9	45	89	1	566	34	13	23	28	1.92
1876779--1876819	18	2.3	18	87	4	57	36	19	21	21	1.95
1890214--1890251	19	2.1	19	90	9	62	10	28	0	60	1.30
1892954--1893018	5	12.8	5	75	15	53	6	18	52	23	1.67
1892947--1892984	17	2.2	17	100	0	76	10	23	47	18	1.79
1892940--1892988	22	2.1	23	88	7	73	12	22	46	18	1.82
1900188--1900243	29	1.9	29	85	7	78	28	28	23	19	1.98
1901313--1901362	20	2.5	20	96	0	91	32	6	14	48	1.67
1904054--1904121	35	1.9	36	90	3	111	27	2	36	32	1.72
1904071--1904119	11	4.2	11	78	21	55	26	2	36	34	1.68
1907898--1907950	16	3.2	16	77	17	56	66	0	18	15	1.26
1916687--1916711	13	1.9	13	100	0	50	32	4	8	56	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1919398--1919435	18	2.2	17	86	13	51	21	0	0	78	0.74
1922233--1922378	37	4.0	34	77	15	107	78	2	15	2	0.98
1922271--1922344	22	3.3	22	74	20	64	81	1	14	2	0.88
1922236--1922378	32	4.1	33	75	16	103	79	2	15	2	0.97
1922244--1922370	9	13.8	9	72	16	68	79	1	15	3	0.93
1922244--1922378	17	8.1	16	74	15	105	79	1	16	2	0.93
1922244--1922378	67	2.0	65	80	10	150	79	1	16	2	0.93
1922246--1922373	39	3.0	40	77	12	116	78	1	16	3	0.95
1922233--1922373	73	1.9	76	81	8	173	78	2	15	2	0.98
1924095--1924744	4	162.5	4	97	1	1223	49	24	0	25	1.52
1924916--1925342	55	7.8	55	84	2	477	33	9	14	41	1.79
1924929--1925370	163	2.7	163	82	2	458	33	9	15	41	1.79
1924916--1925318	218	1.8	220	84	3	553	34	9	14	41	1.77
1925599--1925799	36	5.4	36	70	7	152	32	18	9	38	1.83
1925574--1925751	37	4.9	36	72	2	131	30	20	12	37	1.89
1925570--1925813	73	3.3	73	85	2	328	29	18	12	38	1.88
1926233--1926863	139	4.6	139	81	5	774	35	17	21	25	1.95
1926233--1926863	275	2.3	276	85	3	817	35	17	21	25	1.95
1935300--1935368	19	3.4	19	75	16	68	36	1	1	60	1.14
1958877--1958969	44	2.1	45	84	6	118	77	0	16	6	0.97
1958862--1959002	62	2.4	58	82	10	160	74	0	17	8	1.05
1958877--1959022	15	9.8	15	73	15	81	73	0	17	8	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1958877--1959067	62	3.2	59	77	19	166	74	0	16	8	1.06
1958874--1959047	14	11.7	15	73	19	95	74	0	16	8	1.05
1958875--1959043	7	22.9	7	72	18	80	75	0	16	8	1.04
1960397--1960741	55	6.3	55	86	3	446	27	15	24	32	1.95
1963177--1963232	27	2.0	28	93	3	96	17	25	14	42	1.87
1963175--1963238	27	2.4	26	87	7	92	18	23	17	40	1.91
1969844--1969868	13	1.9	13	100	0	50	36	16	8	40	1.77
1988580--1988613	17	2.1	17	94	5	61	20	20	29	29	1.98
1989586--1989623	18	2.2	18	86	13	53	44	13	2	39	1.57
1990959--1991002	19	2.3	19	96	0	79	40	4	15	38	1.68
1991581--1991605	6	4.2	6	100	0	50	36	48	16	0	1.46
1992106--1992137	6	5.5	6	96	3	57	0	15	53	31	1.43
1992249--1992301	22	2.4	22	100	0	106	35	28	18	16	1.93
1992293--1992365	20	3.6	20	75	3	74	36	24	24	13	1.92
1992313--1992386	21	3.6	21	74	3	87	32	27	21	18	1.97
1992290--1992387	41	2.4	41	96	0	178	35	25	21	17	1.95
1994906--1994930	7	3.6	7	100	0	50	88	0	0	12	0.53
1994911--1994975	16	4.0	16	87	2	76	80	6	0	13	0.90
1994929--1994963	7	4.7	7	86	13	52	77	11	0	11	1.00
1994972--1995001	6	5.0	6	100	0	60	50	0	0	50	1.00
2001154--2001232	23	3.4	23	94	0	140	22	17	21	37	1.94
2004374--2004447	35	2.1	35	92	0	121	16	32	6	44	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2006964--2007221	49	5.2	49	88	0	372	39	14	19	27	1.90
2011622--2011664	18	2.4	18	88	7	61	20	6	2	69	1.23
2011735--2011764	15	1.9	16	93	6	53	13	6	3	76	1.11
2011731--2011803	38	1.9	38	83	5	94	16	12	1	69	1.25
2011773--2011802	16	1.9	15	93	6	51	23	3	0	73	0.98
2011772--2011828	19	3.2	19	76	16	52	21	7	0	71	1.08
2020951--2021286	139	2.4	139	85	4	448	42	14	14	29	1.85
2021602--2021671	23	3.0	23	73	10	61	67	20	4	8	1.35
2021925--2021985	14	4.6	14	76	15	76	59	11	14	14	1.62
2021932--2022004	24	3.0	24	84	8	76	56	12	16	15	1.68

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