genome.fa.s8301.2.7.7.80.10.50.1000.9.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: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3376434

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  ( 2065 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)
1628165--1628290	40	3.2	40	83	8	184	40	24	16	18	1.90
1628421--1628482	22	2.8	22	95	0	106	19	45	16	19	1.86
1628804--1628857	20	2.7	19	80	8	63	14	14	24	46	1.83
1630603--1630652	21	2.4	21	80	6	57	18	10	34	38	1.84
1630992--1631110	21	5.7	21	76	9	109	23	36	19	21	1.95
1630992--1631110	42	2.8	42	82	7	143	23	36	19	21	1.95
1632428--1632600	66	2.7	62	81	14	199	28	1	16	53	1.53
1632703--1632799	20	5.2	20	69	14	89	17	20	22	39	1.93
1632975--1633061	39	2.2	39	95	0	156	18	13	20	47	1.83
1634195--1634230	18	2.0	18	88	0	54	16	2	22	58	1.51
1636339--1636388	24	2.1	24	96	0	91	38	16	20	26	1.92
1636345--1636396	24	2.2	24	89	0	77	38	19	17	25	1.93
1636508--1636541	12	2.8	12	90	0	50	14	0	29	55	1.40
1637289--1637357	19	3.6	19	80	9	77	26	14	23	36	1.93
1637289--1637437	20	7.6	20	69	13	94	24	12	26	36	1.91
1640077--1640210	42	3.1	42	76	4	151	23	15	23	37	1.93
1640079--1640210	21	6.2	21	76	6	104	24	15	21	37	1.93
1644361--1644447	21	4.1	21	86	0	120	19	13	27	39	1.90
1644361--1644500	42	3.3	42	80	4	147	17	16	28	37	1.91
1644361--1644500	21	6.6	21	80	3	82	17	16	28	37	1.91
1647314--1648594	340	3.8	338	84	9	1596	26	18	14	40	1.89
1648591--1648686	3	32.0	3	97	0	120	66	8	0	25	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652481--1652565	24	3.6	23	79	7	98	15	15	17	51	1.76
1652480--1652565	12	7.2	12	74	10	50	16	15	17	51	1.77
1657039--1657107	24	2.9	23	80	6	84	17	13	14	55	1.70
1657040--1657108	12	5.8	12	74	6	50	17	13	15	53	1.73
1661501--1661584	24	3.5	24	76	16	93	16	13	16	53	1.73
1661501--1661583	12	6.9	12	72	14	64	15	13	16	54	1.72
1664152--1664184	2	16.5	2	100	0	66	48	0	0	51	1.00
1670424--1670455	2	16.5	2	93	6	57	50	0	0	50	1.00
1676037--1676074	17	2.2	18	85	4	51	23	0	2	73	0.95
1680429--1680464	18	2.0	18	100	0	72	38	27	11	22	1.88
1681934--1682052	63	1.9	63	84	3	159	26	17	21	34	1.96
1688869--1688967	12	8.2	12	70	18	55	50	3	0	46	1.16
1688898--1688966	11	6.3	11	72	8	52	55	4	0	40	1.20
1689115--1689169	23	2.4	21	77	16	56	52	3	0	43	1.18
1689131--1689177	21	2.1	23	84	7	62	48	0	0	51	1.00
1689318--1689371	22	2.5	20	80	16	63	46	0	1	51	1.11
1691074--1691100	13	2.1	13	100	0	54	70	0	14	14	1.17
1696282--1696348	7	9.4	7	72	18	50	68	1	2	26	1.12
1696280--1696328	22	2.2	22	89	7	73	69	0	2	28	1.00
1696295--1696350	21	2.7	21	77	5	60	67	1	1	28	1.10
1697245--1697278	18	1.9	18	88	5	52	14	26	32	26	1.95
1697570--1697603	16	2.1	16	88	5	50	35	2	0	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701283--1701331	25	2.0	25	84	8	64	63	0	2	34	1.06
1701259--1701332	17	4.4	18	74	20	56	62	2	1	33	1.18
1701609--1702028	182	2.3	182	89	0	642	42	14	16	26	1.86
1701858--1702193	162	2.1	162	90	1	539	42	13	16	28	1.85
1702182--1702220	20	2.0	20	84	0	51	48	15	28	7	1.72
1701676--1703103	344	4.0	348	88	2	1809	41	13	17	27	1.87
1702020--1703168	182	6.3	182	88	1	1608	41	14	17	26	1.87
1702364--1702402	20	2.0	20	89	0	60	48	17	28	5	1.68
1702727--1702765	20	2.0	20	84	0	51	51	17	25	5	1.66
1702020--1703168	545	2.1	546	89	1	1750	41	14	17	26	1.87
1705120--1705175	24	2.4	23	80	8	69	44	0	3	51	1.18
1705558--1705615	21	2.8	21	94	0	98	43	12	29	15	1.83
1705652--1705718	33	2.0	33	91	0	107	32	0	43	23	1.54
1705902--1705940	18	2.2	18	90	0	60	56	0	38	5	1.22
1707599--1707631	12	2.8	12	100	0	66	30	18	9	42	1.81
1707844--1709191	200	6.7	200	83	6	1508	36	14	17	32	1.90
1710634--1710673	18	2.2	18	90	0	62	42	5	32	20	1.73
1710634--1710673	6	6.7	6	91	0	53	42	5	32	20	1.73
1712115--1712276	64	2.5	64	84	5	186	32	20	19	27	1.97
1712846--1712908	18	3.4	18	72	8	63	23	19	26	30	1.98
1715303--1715372	2	34.5	2	97	2	131	50	1	0	48	1.09
1715737--1715804	22	3.0	23	77	12	77	32	23	25	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1715751--1715804	23	2.4	22	84	3	81	31	25	27	14	1.95
1716035--1716093	30	2.0	29	83	3	73	35	20	6	37	1.79
1717946--1718018	2	36.5	2	94	5	130	49	1	0	49	1.09
1718391--1718445	23	2.4	23	81	0	74	32	25	25	16	1.96
1718676--1718734	30	2.0	29	83	3	73	33	22	6	37	1.80
1719904--1719973	20	3.5	20	98	0	131	20	35	17	27	1.94
1724559--1724680	64	1.9	64	83	6	158	33	21	18	26	1.96
1725289--1725346	18	3.1	19	78	9	73	22	20	29	27	1.99
1725289--1725347	20	3.1	19	79	16	68	23	20	28	27	1.99
1726299--1726351	25	2.1	25	96	0	97	33	3	11	50	1.56
1726608--1726646	15	2.6	15	87	0	51	38	17	7	35	1.79
1726647--1727592	193	4.8	196	75	10	714	39	13	15	31	1.86
1726647--1727549	391	2.3	388	83	7	1109	40	13	15	30	1.86
1729990--1730026	17	2.2	17	95	0	65	18	29	13	37	1.90
1731673--1732562	202	4.5	199	78	11	847	39	13	14	31	1.86
1735380--1735416	14	2.6	14	95	4	65	48	8	5	37	1.56
1735443--1735485	22	2.0	22	95	0	77	51	11	0	37	1.39
1735433--1735960	54	9.6	54	71	13	421	53	13	0	32	1.41
1735445--1735493	22	2.2	22	85	3	62	55	12	0	32	1.37
1735448--1735768	80	4.0	80	87	5	491	53	13	0	32	1.40
1735542--1735685	32	4.8	32	79	16	182	54	12	0	33	1.38
1735542--1735620	14	5.0	15	66	22	54	54	10	0	35	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1735608--1735650	22	2.0	22	95	0	77	53	13	0	32	1.41
1735610--1735658	22	2.2	22	85	3	62	57	14	0	28	1.38
1735710--1736117	32	14.4	32	73	24	357	53	13	0	33	1.44
1735630--1736117	112	4.4	112	80	14	582	53	13	0	32	1.44
1735776--1735850	22	3.2	22	75	14	78	54	17	1	26	1.51
1735497--1736117	166	3.8	158	85	7	737	53	13	0	32	1.43
1735884--1735928	22	2.1	22	95	4	83	53	13	0	33	1.40
1735889--1735937	22	2.2	22	89	7	73	57	14	0	28	1.38
1735942--1736016	22	3.2	22	75	14	69	56	16	0	28	1.41
1735662--1736216	54	10.4	53	73	17	343	52	12	0	34	1.42
1736020--1736062	22	2.0	22	100	0	86	51	13	0	34	1.42
1736022--1736070	22	2.2	22	88	3	71	55	14	0	30	1.40
1736011--1736173	46	3.2	48	79	11	159	50	8	0	39	1.37
1736107--1736296	39	5.0	39	77	4	183	51	4	0	44	1.21
1736065--1736313	15	16.5	15	67	23	132	51	4	0	43	1.25
1736107--1736283	76	2.3	76	98	0	338	50	4	0	44	1.22
1736160--1736315	54	3.0	54	78	9	193	53	2	0	44	1.14
1739973--1740108	63	2.1	64	85	4	177	32	10	4	52	1.55
1744395--1744453	8	7.4	8	75	19	52	77	0	20	1	0.85
1744395--1744453	26	2.4	24	81	15	68	77	0	20	1	0.85
1746150--1746325	75	2.3	75	89	1	264	31	14	23	30	1.94
1747801--1747907	51	2.1	51	91	0	169	29	16	14	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747981--1748047	23	3.2	23	60	27	58	43	8	28	19	1.81
1747956--1748176	39	5.7	39	88	0	291	43	10	23	22	1.84
1747964--1748176	117	1.8	117	89	0	336	43	11	22	23	1.85
1748117--1748376	119	2.2	117	80	8	294	42	17	16	23	1.89
1752132--1752195	28	2.2	30	86	13	98	73	0	10	15	1.09
1752257--1752288	3	10.7	3	100	0	64	68	0	0	31	0.90
1752951--1753058	37	2.9	37	92	0	180	33	10	12	43	1.77
1753639--1754499	84	10.4	84	78	6	885	25	19	24	31	1.98
1753639--1754499	249	3.5	249	90	0	1337	25	19	24	31	1.98
1754625--1754925	110	2.8	110	88	5	415	24	19	22	33	1.97

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