genome.fa.s8654.2.7.7.80.10.50.1000.9.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: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3533819

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2052 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)
1630746--1630781	18	2.0	18	94	0	63	16	0	25	58	1.38
1633050--1633095	24	1.9	24	95	0	83	32	23	21	21	1.98
1633884--1633935	22	2.4	22	96	3	97	28	7	38	25	1.83
1634039--1634176	69	2.0	69	97	0	258	37	16	18	27	1.92
1634144--1634243	20	4.9	20	73	16	73	36	14	22	28	1.92
1634124--1634243	40	3.0	39	75	12	109	35	13	21	29	1.91
1634248--1634331	20	4.2	20	100	0	168	20	20	26	33	1.97
1636588--1636632	17	2.7	16	86	13	56	53	2	0	44	1.13
1637730--1637775	23	2.0	23	100	0	92	43	21	4	30	1.72
1641537--1641573	6	6.2	6	100	0	74	35	0	0	64	0.94
1642433--1642479	14	3.2	14	88	8	67	59	23	10	6	1.53
1643554--1643602	14	3.8	14	74	20	61	57	24	10	8	1.59
1643548--1643619	24	3.0	24	93	0	126	55	23	11	9	1.64
1643554--1643608	14	4.2	14	73	17	55	56	23	10	9	1.62
1653260--1653305	7	6.4	7	82	12	58	73	0	13	13	1.09
1653262--1653313	14	3.8	13	78	14	52	71	0	15	13	1.15
1653309--1653355	11	4.5	10	84	10	58	87	2	8	2	0.71
1654638--1654842	106	2.0	104	90	5	324	28	15	27	28	1.96
1654665--1654842	51	3.4	52	85	9	249	28	15	27	28	1.96
1654857--1655362	50	10.5	50	83	13	613	28	15	25	30	1.96
1654857--1655362	98	5.3	99	88	7	639	28	15	25	30	1.96
1654855--1655362	240	2.1	236	85	10	660	28	15	25	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1655604--1655668	14	4.9	13	77	17	62	41	3	0	55	1.15
1655615--1655684	3	24.3	3	77	8	56	41	2	1	54	1.24
1655617--1655650	11	3.1	11	95	0	59	35	2	0	61	1.11
1655643--1655676	14	2.4	14	90	5	50	47	2	0	50	1.16
1655628--1655684	23	2.5	23	76	0	60	42	1	1	54	1.21
1658557--1658581	2	12.5	2	100	0	50	52	0	0	48	1.00
1658568--1658651	42	2.0	42	84	8	111	54	7	5	32	1.52
1658667--1658743	41	1.9	39	86	5	109	50	6	25	16	1.69
1658857--1658885	2	14.5	2	100	0	58	51	0	0	48	1.00
1659056--1659086	2	15.5	2	100	0	62	51	0	0	48	1.00
1659145--1659180	18	2.1	18	89	5	56	66	2	5	25	1.27
1659558--1659629	35	2.1	35	100	0	144	27	20	11	40	1.87
1660107--1660950	106	8.0	106	84	4	1052	24	19	22	34	1.97
1668947--1668972	13	2.0	13	100	0	52	23	7	38	30	1.83
1669619--1669669	2	25.5	2	100	0	102	50	0	0	49	1.00
1669662--1669731	32	2.1	35	84	15	94	55	8	5	30	1.53
1669895--1669942	23	2.1	23	84	0	60	75	2	4	18	1.07
1670213--1670248	18	2.1	18	89	5	56	66	2	5	25	1.27
1670626--1670697	35	2.1	35	94	0	126	30	20	8	40	1.82
1685014--1685073	23	2.9	20	87	9	77	21	33	26	18	1.96
1688778--1689416	219	2.9	220	81	7	647	35	11	14	38	1.81
1688984--1689414	226	1.9	227	85	5	593	35	10	14	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1695749--1695790	18	2.3	18	95	0	75	23	45	0	30	1.53
1708625--1708692	31	2.2	31	89	5	102	33	16	19	30	1.93
1708683--1708751	31	2.2	31	86	0	93	30	27	11	30	1.92
1709678--1710338	167	4.0	168	85	3	839	29	18	12	39	1.87
1712224--1712286	32	1.9	33	90	3	101	41	9	4	44	1.58
1716150--1716254	53	2.0	53	88	0	156	26	20	24	27	1.99
1716801--1716926	21	5.8	22	79	13	93	23	18	26	31	1.97
1716843--1716926	23	3.7	23	83	13	104	20	19	27	33	1.96
1724102--1724147	20	2.3	20	96	0	83	21	23	13	41	1.88
1730550--1730779	116	2.0	117	85	0	318	30	16	19	34	1.94
1730660--1730950	134	2.2	134	85	0	393	28	15	21	34	1.94
1732156--1732186	10	3.1	10	100	0	62	0	9	0	90	0.46
1732151--1732236	7	11.4	7	81	15	59	4	16	0	79	0.90
1732154--1732228	26	2.9	26	80	7	91	4	14	0	81	0.83
1732156--1732221	9	7.3	9	76	10	64	3	13	0	83	0.76
1732156--1732234	34	2.3	33	84	4	95	5	13	0	81	0.86
1732154--1732221	8	8.0	8	77	22	68	2	14	0	82	0.79
1732211--1732244	7	4.9	7	92	0	50	11	17	0	70	1.16
1732166--1732242	34	2.4	34	75	20	83	6	15	0	77	0.95
1735714--1735744	16	1.9	16	93	0	53	70	0	12	16	1.16
1737059--1737116	26	2.2	26	93	0	98	34	32	13	18	1.91
1750007--1750065	10	5.9	10	77	20	61	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750010--1750065	15	3.8	14	77	17	60	67	0	0	32	0.91
1749988--1750066	3	27.0	3	69	23	53	69	0	1	29	0.96
1749995--1750067	7	10.3	7	76	22	64	71	0	0	28	0.87
1749999--1750067	25	2.9	23	81	14	86	71	0	0	28	0.87
1749988--1750068	35	2.4	33	82	13	103	70	0	1	28	0.95
1750193--1750254	25	2.5	25	84	5	72	70	1	1	25	1.05
1750197--1750257	13	4.6	13	78	15	63	70	1	1	26	1.06
1750005--1750381	190	2.0	186	86	6	528	42	12	14	30	1.83
1756531--1756580	23	2.2	23	82	7	57	72	2	14	12	1.22
1759248--1759405	21	7.8	20	70	7	77	37	25	17	18	1.93
1759373--1759545	20	8.6	20	89	3	90	34	27	19	19	1.95
1759373--1759544	40	4.3	40	89	1	238	33	27	19	19	1.96
1759392--1759544	60	2.5	60	90	2	236	32	28	18	19	1.96
1759925--1760040	33	3.3	33	82	11	133	11	25	16	47	1.79
1759976--1760040	21	3.1	21	82	4	96	10	26	15	47	1.78
1761702--1762017	93	3.4	93	99	0	623	22	13	18	45	1.85
1762147--1762238	19	5.4	18	72	24	83	47	27	17	7	1.74
1762115--1762238	33	3.7	33	90	1	176	46	26	17	8	1.77
1762131--1762222	14	5.9	14	69	22	58	47	25	19	7	1.75
1762234--1762406	19	9.6	19	76	12	150	10	20	23	45	1.82
1762256--1762312	14	3.7	14	75	20	51	10	22	22	43	1.84
1762234--1762406	33	4.8	38	80	8	159	10	20	23	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764328--1764363	14	2.6	14	95	0	63	33	0	22	44	1.53
1764469--1764566	20	5.4	19	82	15	127	44	17	23	14	1.85
1764469--1764583	54	2.2	53	95	4	207	43	18	24	13	1.86
1764575--1764836	19	14.7	19	78	17	303	14	22	17	45	1.84
1764576--1764808	72	3.2	72	82	11	257	15	23	16	45	1.84
1764585--1764850	105	2.5	108	91	7	424	13	22	17	46	1.83
1764603--1764836	72	3.3	72	80	10	288	14	21	17	46	1.83
1764585--1764850	53	5.1	52	88	8	398	13	22	17	46	1.83
1767134--1767158	12	2.1	12	100	0	50	0	28	0	72	0.86
1767333--1767379	24	2.0	24	87	8	69	38	21	14	25	1.92
1768071--1768299	20	11.4	20	86	1	244	18	18	25	37	1.94
1771932--1772066	36	3.8	36	89	0	207	28	14	15	42	1.86
1773528--1773752	49	4.6	49	85	0	288	37	15	22	24	1.92
1780637--1780851	49	4.4	50	81	8	269	39	13	20	26	1.90
1781565--1781634	27	2.7	25	70	12	61	42	7	4	45	1.51
1781552--1781622	27	2.7	25	82	8	70	45	8	4	42	1.54
1781623--1781657	15	2.4	14	90	4	52	45	5	2	45	1.41
1781780--1781991	18	12.3	18	72	13	169	45	7	6	41	1.56
1781780--1781991	69	3.1	69	90	0	336	45	7	6	41	1.56
1781845--1782009	51	3.2	51	75	9	149	45	7	6	40	1.58
1781797--1782009	33	6.3	33	78	10	216	45	7	6	40	1.58
1782091--1782214	34	3.8	34	65	17	84	46	4	9	39	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1782077--1782215	61	2.2	61	85	2	197	47	4	9	38	1.56
1782369--1782559	103	1.9	103	93	2	330	34	29	5	30	1.81
1787368--1787408	20	2.0	20	100	0	82	46	0	14	39	1.45
1788829--1788874	16	2.9	16	100	0	92	45	19	15	19	1.85
1789842--1789879	14	2.7	14	91	0	58	42	0	5	52	1.24
1794953--1795062	58	1.9	58	92	1	186	30	12	20	36	1.90
1798971--1799015	24	1.9	24	86	4	65	62	6	24	6	1.44
1799701--1799733	6	5.7	6	89	7	50	72	9	0	18	1.10
1799700--1799733	11	3.0	11	91	4	50	73	8	0	17	1.08
1801762--1801802	5	8.0	5	86	13	57	78	0	0	21	0.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18