genome.fa.s9344.2.7.7.80.10.50.1000.10.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  10  of  24  ( 2784 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)
1622781--1622951	50	3.4	50	92	0	270	15	35	30	17	1.92
1625574--1625735	64	2.5	65	76	8	161	32	20	20	25	1.98
1626522--1626739	103	2.1	103	96	0	400	25	13	23	37	1.92
1626754--1626818	22	2.9	23	86	4	87	23	26	26	24	2.00
1628340--1628560	110	2.0	111	92	0	372	46	9	8	35	1.66
1628684--1628724	10	4.1	10	84	12	57	39	0	29	31	1.57
1628836--1628960	50	2.5	50	85	5	155	20	32	31	15	1.94
1629515--1629557	17	2.5	17	80	3	50	51	2	2	44	1.27
1629757--1629821	22	2.8	24	71	19	57	47	3	1	47	1.27
1634440--1634495	20	2.9	19	75	19	62	66	1	8	23	1.30
1634583--1634696	24	4.9	23	71	26	89	64	0	4	30	1.19
1634580--1634706	22	6.2	19	71	20	71	66	0	4	28	1.17
1634827--1634872	19	2.4	18	82	10	56	56	0	4	39	1.19
1635347--1635431	37	2.3	37	83	0	107	34	9	14	42	1.77
1636193--1637547	106	13.0	106	87	5	1818	23	17	24	35	1.95
1637953--1638172	115	1.9	115	100	0	440	35	9	18	37	1.82
1639259--1639325	17	4.0	17	77	11	75	1	10	8	79	1.01
1639244--1639319	34	2.3	34	79	9	84	1	14	7	76	1.07
1639256--1639324	16	4.4	14	78	20	66	1	10	7	81	0.94
1639261--1639333	33	2.2	34	80	11	80	1	13	8	76	1.07
1643583--1643638	20	2.9	19	75	19	62	66	1	8	23	1.30
1643739--1643845	23	4.3	26	68	20	77	63	0	3	31	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644491--1644592	37	2.8	37	83	3	125	32	10	13	43	1.79
1651957--1652001	23	1.9	25	86	13	69	24	6	15	53	1.66
1655018--1655074	29	1.9	30	85	3	80	52	15	10	21	1.72
1659672--1659725	24	2.2	24	100	0	108	35	18	27	18	1.94
1675232--1675309	19	3.7	19	73	23	68	23	19	28	29	1.98
1675229--1675319	45	2.0	45	93	4	157	26	17	26	29	1.98
1678017--1678094	23	3.5	22	73	8	77	24	21	26	26	1.99
1678017--1678079	21	2.9	22	76	4	65	22	23	25	28	1.99
1679160--1679561	201	2.0	201	100	0	804	35	17	12	34	1.87
1683624--1683675	19	2.7	19	94	5	88	19	19	30	30	1.96
1683703--1683760	20	2.9	20	92	0	80	18	13	32	34	1.91
1686792--1686853	2	31.0	2	100	0	124	50	0	0	50	1.00
1692336--1692376	19	2.2	19	87	12	59	36	2	0	60	1.10
1693270--1693420	75	2.0	75	100	0	302	35	10	10	43	1.74
1699946--1700019	21	3.7	20	79	17	73	9	37	2	50	1.49
1710835--1710905	21	3.4	20	78	5	79	26	23	25	23	2.00
1716038--1716087	26	1.9	26	87	0	73	62	2	2	34	1.18
1718032--1718996	182	5.3	181	85	3	1249	44	11	16	27	1.82
1718027--1718996	364	2.7	364	89	2	1421	44	11	16	27	1.82
1719429--1719497	19	3.6	19	92	3	111	47	0	17	34	1.48
1721032--1721085	9	6.0	9	82	0	54	33	5	51	9	1.57
1721032--1721073	18	2.3	18	91	0	66	35	4	52	7	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1721041--1721082	9	4.7	9	84	0	57	33	7	54	4	1.49
1721499--1721533	18	1.9	18	94	0	61	57	0	37	5	1.23
1722915--1722960	19	2.4	19	92	0	74	30	2	8	58	1.40
1723337--1724636	199	6.5	199	90	0	1945	42	15	14	27	1.86
1723337--1724636	397	3.3	398	90	0	1981	42	15	14	27	1.86
1723337--1724632	596	2.2	599	90	0	2051	42	15	14	27	1.86
1724986--1725043	15	3.7	15	81	6	62	24	46	0	29	1.53
1727572--1727624	24	2.2	24	89	0	79	37	1	13	47	1.54
1727797--1728763	200	4.8	198	90	1	1326	41	16	14	27	1.87
1728447--1729214	201	3.8	197	80	4	682	37	16	14	32	1.88
1727845--1729133	600	2.1	598	80	4	1373	40	16	13	29	1.87
1728247--1729177	200	4.7	201	84	4	704	38	16	14	30	1.88
1733327--1733371	23	2.0	23	86	0	63	37	15	8	37	1.79
1733243--1733409	87	1.9	86	93	1	289	32	13	12	41	1.82
1734134--1734389	40	6.4	40	82	6	288	39	24	15	19	1.91
1734210--1734391	20	9.1	20	83	2	222	42	23	15	18	1.88
1734489--1734536	22	2.2	22	84	0	60	22	43	12	20	1.86
1736870--1736968	21	4.7	22	76	8	107	23	34	19	23	1.97
1736870--1736966	42	2.3	42	85	0	131	23	35	17	23	1.96
1738197--1738249	24	2.2	24	100	0	106	22	0	33	43	1.54
1738341--1738513	66	2.6	67	85	10	230	30	2	15	52	1.56
1738565--1738605	20	2.0	20	100	0	82	41	19	24	14	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1738672--1738722	20	2.6	19	90	9	84	17	17	23	41	1.90
1738978--1739004	14	1.9	14	100	0	54	66	0	0	33	0.92
1739673--1739709	18	2.1	18	89	0	56	51	10	5	32	1.60
1740091--1740140	25	2.0	25	92	0	82	44	20	8	28	1.79
1740090--1740139	14	3.8	13	72	17	50	44	22	8	26	1.80
1740243--1740291	20	2.5	20	86	0	71	14	18	20	46	1.83
1742842--1742895	24	2.2	24	93	0	90	40	16	18	24	1.90
1743724--1743778	19	2.9	19	89	5	76	34	9	18	38	1.82
1743734--1743794	19	3.1	19	79	15	61	32	11	19	36	1.88
1743782--1743868	20	4.3	20	85	5	122	17	13	26	42	1.86
1743741--1743868	60	2.1	59	80	8	143	21	13	25	40	1.89
1743782--1743889	40	2.7	40	85	5	130	18	14	25	40	1.89
1743902--1743950	19	2.5	19	86	3	62	20	12	32	34	1.90
1745255--1745305	24	2.1	24	100	0	102	25	31	23	19	1.98
1749196--1749241	17	2.7	17	80	12	58	36	0	0	63	0.95
1749373--1749399	14	1.9	14	100	0	54	25	29	14	29	1.95
1757493--1757555	31	2.0	31	93	0	108	30	17	15	36	1.91
1759705--1759838	65	2.0	66	91	1	216	36	6	18	38	1.77
1759924--1759990	30	2.2	31	89	2	100	40	4	4	50	1.43
1762168--1762206	18	2.1	18	85	4	51	43	0	5	51	1.24
1762482--1762520	20	1.9	21	85	15	55	28	15	5	51	1.64
1767627--1768080	182	2.5	182	90	1	696	27	15	12	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1767940--1768521	112	5.3	112	88	3	829	25	15	13	45	1.82
1767953--1768521	223	2.6	224	88	3	848	25	15	13	45	1.82
1770274--1770352	21	3.8	21	96	3	151	48	5	0	46	1.24
1770274--1770352	41	1.9	42	97	2	151	48	5	0	46	1.24
1785726--1785812	35	2.5	34	80	12	97	55	10	8	26	1.61
1785817--1785881	24	2.6	25	80	2	78	67	6	3	23	1.27
1788050--1788090	18	2.3	18	87	4	57	60	0	7	31	1.24
1788130--1788161	10	2.8	12	81	18	50	43	0	28	28	1.55
1789749--1789802	20	2.7	20	94	0	90	31	22	18	27	1.97
1791069--1791135	21	3.2	21	68	4	55	19	20	35	23	1.95
1791069--1791191	42	2.9	41	79	7	113	22	18	36	21	1.95
1793280--1793444	19	9.1	19	74	15	143	44	20	22	12	1.85
1793305--1793439	33	3.9	33	84	10	162	42	22	22	11	1.86
1793289--1793444	33	4.3	38	78	15	152	42	21	23	12	1.87
1793280--1793445	71	2.3	73	85	3	237	43	20	22	13	1.86
1793440--1793484	19	2.4	19	88	0	63	11	15	24	48	1.77
1794038--1794088	20	2.5	20	93	0	84	25	21	27	25	1.99
1794250--1794295	19	2.3	20	81	7	58	26	15	30	28	1.96
1797311--1797382	18	3.8	18	75	10	72	29	31	18	20	1.96
1797863--1797928	2	33.0	2	95	0	114	46	1	0	51	1.10
1798216--1798256	21	2.0	21	85	9	57	24	31	31	12	1.92
1800174--1800228	17	3.2	17	86	0	83	32	21	23	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1804192--1804238	21	2.2	21	88	0	67	19	2	8	70	1.24
1805532--1805806	131	2.1	132	84	3	345	28	14	21	34	1.93
1805565--1805890	136	2.4	131	79	6	339	27	13	20	37	1.91
1811020--1811045	2	13.0	2	100	0	52	50	0	0	50	1.00
1817040--1817101	20	3.1	20	86	9	74	30	1	0	67	1.00
1821391--1821642	125	2.0	125	100	0	504	30	20	21	26	1.98
1821598--1822712	105	10.5	106	92	2	1648	34	24	18	23	1.96
1821598--1822708	211	5.2	211	91	1	1654	34	24	18	23	1.96
1821598--1822712	316	3.5	316	90	1	1680	34	24	18	23	1.96
1822718--1822962	124	2.0	124	90	0	382	31	26	18	23	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24