genome.fa.s2890.2.7.7.80.10.50.1000.7.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

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

This is table  7  of  21  ( 2516 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)
1536932--1537063	45	2.9	45	97	0	246	39	18	15	27	1.90
1539018--1539089	34	2.1	36	84	5	94	68	1	1	29	1.07
1540792--1540896	25	4.5	24	77	12	103	39	1	20	38	1.64
1541283--1541328	21	2.2	21	100	0	92	30	8	26	34	1.86
1543833--1544218	79	4.9	79	89	0	558	33	11	25	29	1.90
1548656--1548855	94	2.1	96	86	8	275	33	17	22	27	1.96
1549232--1549618	79	4.9	79	91	2	555	33	12	24	29	1.92
1554280--1554326	10	5.5	8	82	14	51	14	34	27	23	1.94
1554283--1554316	15	2.1	16	89	10	52	11	35	29	23	1.90
1556840--1556907	24	2.8	24	88	4	93	25	14	19	41	1.89
1556837--1556917	24	3.4	24	84	3	74	27	12	19	40	1.87
1557026--1557120	43	2.2	43	96	0	172	16	10	35	36	1.84
1559224--1559284	13	4.3	13	71	18	50	18	42	19	19	1.89
1559238--1559278	18	2.3	18	86	0	55	19	46	19	14	1.84
1559220--1559284	31	2.1	31	91	0	103	18	44	18	18	1.87
1561818--1561885	24	2.8	24	88	4	93	25	14	19	41	1.89
1561846--1561895	24	2.1	24	88	0	73	30	10	20	40	1.85
1562929--1562954	11	2.4	11	100	0	52	26	0	0	73	0.84
1568319--1568361	21	2.0	23	86	9	63	74	0	6	18	1.04
1575391--1575416	3	8.7	3	100	0	52	34	0	0	65	0.93
1581192--1581240	22	2.4	20	90	10	73	36	18	20	24	1.94
1582720--1582764	23	1.9	24	95	4	83	26	22	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1584672--1584733	31	2.0	30	81	3	70	27	12	35	24	1.92
1594274--1594603	81	4.1	81	88	0	446	26	22	12	38	1.90
1594745--1595425	54	12.5	54	86	2	749	28	19	17	34	1.95
1594767--1595425	109	6.1	108	85	2	759	28	19	17	34	1.95
1594767--1595425	163	4.0	163	88	1	912	28	19	17	34	1.95
1595776--1595994	95	2.3	95	83	6	275	24	23	16	34	1.95
1597071--1597105	17	2.1	17	100	0	70	31	5	34	28	1.81
1600923--1600995	20	3.6	20	88	1	101	34	13	21	30	1.92
1611099--1611583	54	9.0	54	89	1	641	30	11	18	39	1.86
1611504--1611618	55	2.1	54	83	1	140	35	13	14	36	1.85
1618985--1619023	21	1.9	21	84	5	53	25	12	23	38	1.90
1624401--1624472	20	3.6	20	68	20	60	37	15	12	34	1.85
1630039--1630098	31	1.9	31	89	0	93	30	8	20	41	1.81
1630084--1630154	31	2.3	31	90	0	115	36	18	9	35	1.84
1631186--1631960	81	9.6	81	91	0	1183	31	22	10	34	1.89
1631187--1631954	404	1.9	404	90	0	1241	31	22	10	34	1.88
1632128--1632385	55	4.7	55	94	0	435	36	17	10	36	1.83
1635620--1635662	2	21.5	2	100	0	86	48	0	0	51	1.00
1637407--1638222	81	10.1	81	88	0	1114	32	22	10	34	1.88
1648086--1648170	11	9.0	9	80	19	102	40	0	24	35	1.56
1648086--1648170	28	3.0	28	100	0	170	40	0	24	35	1.56
1648086--1648170	20	4.5	18	83	16	102	40	0	24	35	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648504--1648563	21	2.9	21	80	5	59	46	3	18	31	1.65
1661585--1661616	7	4.4	7	96	4	55	71	0	3	25	1.00
1664078--1664123	19	2.5	19	89	3	67	56	2	2	39	1.24
1677007--1677051	10	4.2	10	81	15	54	66	0	4	28	1.11
1677013--1677046	13	2.6	13	90	0	59	67	0	2	29	1.05
1677110--1677184	30	2.4	30	82	12	82	46	8	4	41	1.52
1677125--1677184	32	1.9	31	86	10	86	45	6	3	45	1.46
1677173--1677423	39	6.6	37	75	15	212	44	3	3	47	1.39
1677180--1677465	39	7.6	36	74	15	154	44	4	3	47	1.40
1677543--1677655	56	2.0	56	94	0	199	43	9	25	21	1.83
1677876--1677933	29	2.0	30	96	3	109	44	0	12	43	1.41
1677881--1677938	14	4.1	14	85	12	82	43	0	12	44	1.41
1677927--1678108	90	2.0	89	89	3	276	53	0	9	37	1.33
1678487--1678644	21	7.8	20	72	7	86	38	25	17	18	1.92
1678611--1678860	20	12.5	20	87	1	268	37	24	18	19	1.94
1679542--1679588	24	2.0	24	87	8	69	25	14	21	38	1.92
1679763--1679787	12	2.1	12	100	0	50	72	0	28	0	0.86
1682123--1682239	19	6.4	19	87	10	181	14	22	17	46	1.84
1682142--1682239	33	2.8	35	86	11	146	15	21	17	45	1.84
1682104--1682221	53	2.2	53	98	1	229	13	23	17	44	1.85
1682316--1682370	14	3.6	14	73	21	56	45	20	23	10	1.82
1682298--1682389	33	2.8	33	98	1	175	44	18	23	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682330--1682446	52	2.2	52	95	0	207	44	17	21	16	1.87
1682453--1682552	19	5.5	19	84	12	147	15	23	17	45	1.85
1682436--1682552	53	2.2	53	95	1	209	14	24	17	43	1.86
1684662--1684718	14	3.7	14	77	20	60	45	22	21	10	1.82
1684643--1684735	33	2.8	33	95	0	168	47	21	20	10	1.80
1684606--1684740	19	7.6	19	76	16	128	45	23	19	11	1.82
1684736--1684864	19	7.3	19	74	17	116	9	17	28	44	1.79
1684736--1684827	33	2.8	33	90	3	141	8	18	28	44	1.79
1684908--1685474	93	6.1	93	99	0	1107	45	19	12	22	1.83
1687173--1687262	14	5.7	14	74	23	81	42	23	25	8	1.83
1687165--1687279	33	3.5	33	95	0	212	45	20	24	9	1.81
1687172--1687284	19	6.8	18	72	23	88	43	22	24	9	1.83
1687296--1687352	14	3.7	14	75	20	60	8	24	22	43	1.81
1687310--1687398	19	4.9	19	72	15	89	11	23	20	44	1.83
1687280--1687398	33	3.4	33	90	6	166	10	22	21	45	1.82
1687490--1687560	33	2.2	33	94	0	124	47	16	23	11	1.79
1687742--1687796	22	2.5	22	81	0	74	20	16	40	23	1.91
1687942--1688135	20	9.6	20	82	5	221	19	19	25	35	1.95
1687942--1688135	60	3.2	60	83	0	253	19	19	25	35	1.95
1688122--1688204	21	4.0	21	73	6	78	25	16	24	33	1.96
1688102--1688200	42	2.4	43	77	11	100	21	18	23	37	1.94
1688700--1688773	33	2.3	31	80	11	87	36	6	0	56	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1688697--1688768	32	2.2	34	85	5	94	34	6	0	58	1.25
1688782--1688815	13	2.6	13	85	0	50	26	0	0	73	0.83
1688860--1688892	17	1.9	17	93	0	57	75	0	0	24	0.80
1694470--1694663	20	9.6	20	73	8	178	15	21	24	37	1.93
1694445--1694666	41	5.5	41	95	3	387	18	20	24	36	1.94
1694613--1694696	22	4.0	21	78	10	100	16	21	26	35	1.94
1694657--1694707	22	2.3	22	93	0	84	21	17	23	37	1.94
1694807--1694849	6	7.2	6	100	0	86	34	48	16	0	1.46
1694846--1694887	5	8.6	5	97	2	77	38	21	40	0	1.53
1695523--1695661	41	3.4	41	91	0	224	38	25	19	16	1.92
1695547--1695665	21	5.8	21	70	4	89	36	26	18	17	1.93
1695501--1695636	20	6.6	20	72	5	110	40	25	21	13	1.89
1697104--1697161	16	3.6	16	80	0	62	53	8	13	24	1.68
1701826--1701897	24	3.0	24	97	2	135	38	44	8	8	1.65
1704892--1705157	129	2.1	129	96	0	487	31	18	14	36	1.90
1709024--1709074	22	2.3	22	89	3	75	31	19	19	29	1.97
1715017--1715072	20	2.8	20	83	5	69	32	19	23	25	1.98
1715101--1715159	23	2.6	23	89	5	84	27	16	16	38	1.91
1718405--1718429	6	4.2	6	100	0	50	84	0	0	16	0.63
1734755--1734872	61	2.0	60	89	5	184	38	9	17	34	1.82
1740642--1740697	22	2.7	20	79	15	60	30	16	26	26	1.96
1740569--1740770	95	2.1	96	83	2	246	31	17	21	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1741203--1741516	45	7.0	45	85	1	369	40	9	19	30	1.83
1747862--1747902	21	1.9	21	95	5	73	39	12	9	39	1.76
1753088--1753115	3	9.3	3	100	0	56	67	0	0	32	0.91
1753267--1753946	134	5.1	134	83	5	792	31	15	20	32	1.93
1753267--1753943	262	2.6	265	82	5	825	31	15	20	33	1.93
1760647--1760959	131	2.4	131	80	2	333	41	15	8	34	1.78
1764090--1764128	20	2.0	20	94	0	69	10	12	33	43	1.77
1764398--1764442	20	2.3	20	85	7	58	46	0	6	46	1.29
1768346--1768377	16	2.0	16	100	0	64	37	18	0	43	1.51
1771001--1771104	39	2.7	38	82	10	113	18	23	25	33	1.96

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