genome.fa.s8005.2.7.7.80.10.50.1000.6.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: VEPZ01008005.1 Hibiscus syriacus cultivar Beakdansim tig00110467_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778185

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 727 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)
1524532--1524558	13	2.1	13	100	0	54	37	14	25	22	1.93
1528172--1528211	15	2.6	15	81	18	55	72	7	2	17	1.19
1531801--1531853	26	2.0	26	100	0	106	50	11	22	15	1.75
1535612--1535686	31	2.5	30	82	4	87	45	1	8	45	1.41
1535612--1535701	30	3.0	30	81	3	90	45	1	7	45	1.39
1543610--1543654	24	1.9	24	86	4	65	24	0	4	71	1.05
1543790--1543879	31	3.0	30	83	3	99	44	1	7	46	1.39
1550324--1550371	21	2.3	21	96	0	87	35	14	12	37	1.84
1554384--1554426	20	2.2	20	86	0	59	23	20	18	37	1.94
1557246--1557310	3	21.0	3	87	6	94	36	0	0	63	0.95
1560907--1560992	43	2.0	43	90	0	136	30	10	24	34	1.89
1561249--1561287	15	2.7	15	88	4	53	20	15	12	51	1.76
1564609--1564685	17	4.2	18	81	14	86	79	2	16	1	0.92
1566922--1567144	114	2.0	114	92	0	374	34	15	20	30	1.93
1569679--1569754	22	3.5	22	85	3	109	32	14	13	39	1.85
1570162--1571032	113	7.9	113	82	7	929	37	14	18	29	1.90
1570306--1571032	329	2.2	316	85	7	938	38	13	18	29	1.89
1570841--1571024	101	1.8	101	92	0	314	41	11	19	28	1.85
1570994--1571184	84	2.3	83	88	2	274	38	15	16	29	1.89
1571435--1571499	3	21.0	3	87	6	94	36	0	0	63	0.95
1572216--1572244	13	2.2	13	100	0	58	0	31	62	6	1.22
1572968--1573173	114	1.8	114	81	8	258	36	11	9	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573901--1573963	29	2.2	29	97	2	119	20	4	17	57	1.58
1574351--1574387	20	2.0	19	85	15	51	43	0	43	13	1.44
1576744--1576806	31	2.0	31	100	0	126	33	6	9	50	1.60
1576849--1576886	19	2.1	19	85	5	51	39	5	0	55	1.23
1577022--1577077	16	3.5	16	92	0	94	12	8	28	50	1.70
1577017--1577087	32	2.2	32	80	5	81	21	9	22	46	1.80
1579861--1579899	21	1.9	20	85	15	53	38	12	7	41	1.72
1582853--1582899	16	3.1	16	76	11	55	31	6	61	0	1.21
1602174--1602248	32	2.3	33	79	9	82	46	5	0	48	1.25
1607857--1607894	17	2.2	17	95	0	67	47	26	0	26	1.52
1608131--1608163	9	3.3	10	91	8	50	33	0	0	66	0.92
1613007--1613724	194	3.7	193	88	4	984	41	12	14	31	1.84
1619515--1619548	16	2.0	18	88	11	54	76	0	2	20	0.92
1621028--1621132	53	2.0	53	96	0	192	32	16	20	31	1.94
1627531--1627569	17	2.3	17	90	0	60	33	0	30	35	1.58
1629048--1629077	13	2.3	13	94	0	51	70	23	0	6	1.11
1629343--1629385	21	2.1	21	95	4	79	53	13	18	13	1.73
1631026--1631072	24	2.0	24	86	0	67	17	19	10	53	1.72
1634784--1634914	3	43.7	3	92	0	217	32	1	1	64	1.12
1636230--1636986	113	6.7	113	95	1	1261	37	14	19	29	1.91
1637230--1637355	3	41.7	3	91	1	207	32	1	1	64	1.13
1637824--1637876	27	2.0	27	84	0	70	73	3	18	3	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638667--1638707	19	2.2	19	83	12	50	19	2	4	73	1.13
1641214--1641250	16	2.3	16	90	9	58	32	8	5	54	1.53
1641757--1643123	83	16.5	83	97	0	2518	26	13	23	36	1.91
1643774--1644530	113	6.7	113	95	1	1261	37	14	19	29	1.91
1644774--1644913	3	46.7	3	92	0	235	32	1	1	64	1.11
1646230--1646270	19	2.2	19	83	12	50	19	2	4	73	1.13
1649006--1649079	12	6.2	12	73	6	51	48	17	16	17	1.81
1649033--1649083	6	8.5	6	86	0	57	56	15	7	19	1.63
1649008--1649073	24	2.8	24	85	0	78	46	16	18	18	1.84
1649015--1649079	30	2.2	30	85	0	85	50	16	13	18	1.78
1649029--1649078	24	2.1	24	96	0	91	52	18	12	18	1.75
1652383--1652417	16	2.2	16	89	0	52	42	14	2	40	1.60
1652584--1652612	14	2.1	14	100	0	58	6	20	27	44	1.77
1656056--1656099	20	2.1	21	87	4	63	38	4	0	56	1.20
1657722--1657852	21	6.2	21	84	3	174	29	25	20	23	1.99
1658408--1658631	42	5.3	42	93	0	394	35	23	20	20	1.96
1659483--1659621	60	2.3	60	84	7	167	33	24	5	35	1.79
1659772--1659905	60	2.2	59	88	2	187	42	6	20	30	1.77
1660933--1660981	24	2.0	25	84	11	66	38	10	0	51	1.36
1663519--1663582	19	3.2	20	72	14	53	43	1	1	53	1.19
1663528--1663577	20	2.5	20	78	12	59	40	2	2	56	1.22
1663495--1663581	31	2.8	30	79	10	95	41	1	3	54	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1664149--1664236	20	4.4	19	70	20	54	51	2	2	44	1.26
1664144--1664230	31	2.8	31	77	10	88	52	2	2	42	1.26
1664163--1664212	19	2.4	21	77	12	59	48	2	4	46	1.32
1667546--1667624	19	3.9	19	73	12	68	46	2	7	43	1.45
1667564--1667649	24	3.8	24	72	21	78	46	2	6	44	1.43
1667543--1667649	42	2.5	41	80	7	124	47	1	7	42	1.42
1667616--1667737	37	3.3	38	73	21	125	49	1	10	38	1.48
1667618--1667813	69	2.8	69	85	8	238	47	3	11	37	1.55
1668837--1668877	10	4.1	10	84	12	57	21	0	2	75	0.92
1668839--1668877	15	2.6	14	80	11	51	20	0	2	76	0.90
1671023--1671062	19	2.1	20	86	9	57	22	15	12	50	1.77
1672041--1672096	13	4.2	13	78	15	53	21	7	5	66	1.37
1672053--1672107	26	2.1	27	86	10	78	21	7	5	65	1.38
1672727--1672925	86	2.3	86	88	0	310	36	26	15	21	1.93
1673726--1673759	9	3.9	9	84	7	52	35	0	2	61	1.11
1673725--1673763	17	2.4	17	95	4	71	33	0	5	61	1.18
1679200--1679230	16	1.9	16	93	0	53	64	3	3	29	1.25
1680689--1680752	31	2.0	32	84	3	85	35	12	7	43	1.71
1681712--1681745	17	2.0	17	100	0	68	41	29	5	23	1.78
1683775--1683801	2	13.5	2	100	0	54	51	0	0	48	1.00
1686547--1686572	2	13.0	2	100	0	52	50	0	0	50	1.00
1696677--1696717	3	13.7	3	89	0	64	29	2	2	65	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1704564--1704642	38	2.1	38	83	4	99	31	20	11	36	1.88
1704942--1705102	27	5.9	27	90	7	252	26	11	14	47	1.77
1706067--1706127	28	2.2	28	85	8	81	24	13	13	49	1.77
1706083--1706147	28	2.3	28	81	5	78	26	15	13	44	1.84
1706205--1706538	43	7.7	44	73	11	260	25	30	19	23	1.98
1706173--1706627	43	10.6	40	69	15	180	26	30	18	24	1.98
1706191--1706627	130	3.4	130	95	1	754	26	30	18	24	1.98
1706824--1706858	3	11.7	3	87	0	52	28	2	2	65	1.21
1718279--1718305	9	3.0	9	100	0	54	11	0	0	88	0.50
1718818--1718861	23	1.9	23	85	0	61	34	2	11	52	1.50
1719600--1719630	16	1.9	16	93	0	53	38	25	19	16	1.92
1725998--1726088	43	2.1	43	83	0	110	36	24	20	18	1.95
1733651--1733778	59	2.2	59	84	0	157	29	25	16	28	1.97
1737897--1737941	22	2.0	22	100	0	90	37	8	13	40	1.76
1738222--1738337	42	2.8	42	89	2	173	22	10	20	46	1.81
1742421--1742642	105	2.1	104	82	2	257	41	12	12	34	1.80
1743692--1743799	31	3.5	30	70	9	83	37	13	16	31	1.88
1744106--1744155	24	2.1	24	85	7	66	40	14	0	46	1.44
1744109--1744163	25	2.2	25	78	18	62	41	16	0	41	1.48
1744650--1744806	63	2.5	63	80	5	172	24	24	19	31	1.98
1748402--1748451	24	2.1	24	85	7	66	40	14	0	46	1.44
1748405--1748459	25	2.2	25	78	18	62	41	16	0	41	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750940--1751021	37	2.2	37	80	0	92	34	30	8	26	1.86
1751943--1751989	23	2.0	23	95	0	85	48	25	2	23	1.62
1754623--1754673	25	2.0	25	85	14	68	45	3	3	47	1.40
1758914--1758942	2	14.5	2	100	0	58	51	0	0	48	1.00
1759111--1759144	4	8.5	4	93	0	59	23	0	23	52	1.47
1759570--1759620	21	2.4	21	96	0	93	58	11	1	27	1.44
1765046--1765102	29	2.0	29	92	0	96	38	8	21	31	1.84
1766314--1766362	24	2.1	23	92	3	80	42	14	14	28	1.84
1766857--1766981	57	2.2	57	91	0	196	36	22	15	26	1.93
1766954--1766995	20	2.1	20	90	0	66	33	23	14	28	1.94

Tables:   1   2   3   4   5   6   7