genome.fa.s8129.2.7.7.80.10.50.1000.7.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: VEPZ01008129.1 Hibiscus syriacus cultivar Beakdansim tig00110684_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2577775

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  7  of  10  ( 1095 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)
1425467--1425522	21	2.7	21	97	0	103	25	23	7	44	1.78
1425898--1425953	24	2.3	25	88	11	82	32	0	1	66	1.03
1425913--1425963	24	2.1	24	82	7	59	33	3	0	62	1.13
1429843--1430164	90	3.6	90	93	0	518	32	22	19	25	1.97
1430165--1430414	43	5.8	43	88	3	317	31	28	14	25	1.95
1430167--1430421	129	2.0	129	88	1	377	30	29	14	25	1.95
1430424--1430785	36	9.7	38	82	7	268	35	16	20	27	1.94
1430521--1430590	21	3.6	21	65	21	62	34	14	25	25	1.94
1430468--1430785	36	8.6	36	83	7	336	35	16	21	27	1.94
1430710--1430774	21	3.4	21	64	24	61	36	13	26	23	1.92
1430420--1430785	184	2.0	189	86	5	530	35	16	20	27	1.94
1430804--1430924	34	3.6	34	86	0	152	36	9	21	32	1.86
1431059--1431172	32	3.5	32	87	1	156	35	23	11	29	1.90
1432186--1432281	12	7.6	12	73	19	54	8	14	1	76	1.07
1432204--1432235	11	3.0	11	95	4	57	6	9	0	84	0.78
1432252--1432310	21	2.7	22	79	12	68	1	16	1	79	0.89
1432196--1432310	21	5.3	21	68	18	67	6	15	1	76	1.06
1433499--1433527	13	2.2	13	100	0	58	58	13	13	13	1.63
1440800--1440844	23	2.0	23	86	0	63	22	4	11	62	1.46
1447227--1447448	112	2.0	112	99	0	435	4	20	26	48	1.67
1447921--1447978	18	3.2	18	76	11	57	77	3	1	17	0.99
1447916--1447978	5	12.8	5	79	12	51	79	3	1	15	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1447935--1447991	26	2.2	26	81	6	62	77	7	0	15	0.98
1448040--1448140	35	2.8	37	83	10	127	45	4	1	47	1.35
1448101--1448225	29	4.3	28	64	24	80	44	4	4	46	1.43
1448164--1448308	38	3.8	38	81	9	179	42	6	7	44	1.58
1451004--1451253	123	2.0	125	98	1	486	38	7	19	35	1.80
1451374--1451404	15	2.1	15	100	0	62	38	0	6	54	1.26
1453739--1453771	15	2.1	16	88	5	50	69	0	3	27	1.03
1456181--1456230	25	2.0	25	88	0	73	74	6	2	18	1.12
1457261--1457318	21	3.0	19	78	14	73	50	8	12	29	1.69
1457261--1457318	18	3.1	17	81	16	62	50	8	12	29	1.69
1459685--1459727	18	2.3	20	80	15	56	20	20	20	37	1.95
1459971--1460041	34	2.1	34	86	2	99	22	29	15	32	1.95
1463329--1463365	13	3.2	12	82	17	51	75	0	8	16	1.02
1468224--1468269	24	1.9	24	86	0	65	23	10	17	47	1.79
1469761--1469808	21	2.3	21	100	0	96	29	22	14	33	1.94
1470030--1470085	21	2.7	21	94	0	103	32	16	21	30	1.95
1481530--1481599	37	1.9	37	85	8	99	30	21	24	24	1.99
1482285--1482336	22	2.3	23	83	6	70	28	19	13	38	1.89
1488225--1488296	37	2.0	36	83	8	92	33	19	23	23	1.97
1488984--1489035	22	2.3	23	83	6	70	26	19	17	36	1.94
1491843--1491877	18	2.0	17	88	5	52	11	5	22	60	1.52
1499186--1499220	18	1.9	18	88	11	54	65	5	0	28	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1499979--1500027	18	2.7	18	90	0	80	12	14	18	55	1.69
1503030--1503116	31	2.8	31	82	5	97	28	10	17	43	1.81
1503386--1503448	29	2.2	29	88	5	92	22	11	12	53	1.69
1503414--1503657	118	2.1	119	87	2	348	27	13	6	52	1.65
1507184--1507254	37	1.9	37	91	0	115	45	1	7	46	1.39
1520503--1520625	44	2.8	43	72	12	117	26	19	26	27	1.99
1526194--1526336	64	2.2	65	82	6	166	25	16	25	32	1.96
1528142--1528181	21	1.9	20	89	5	53	10	7	5	77	1.11
1534992--1535154	50	3.1	53	83	6	206	35	20	15	28	1.93
1538534--1538638	2	53.0	2	98	1	203	49	0	0	50	1.00
1542541--1542586	20	2.2	21	85	11	60	30	17	23	28	1.97
1542627--1542695	20	3.5	20	80	5	70	30	20	21	27	1.98
1542627--1542674	18	2.6	18	86	6	60	31	18	20	29	1.97
1548060--1548103	20	2.2	20	84	12	54	25	13	25	36	1.92
1549186--1549221	18	1.9	19	88	5	56	50	0	5	44	1.25
1567979--1568027	23	2.1	23	85	7	64	26	2	14	57	1.48
1578149--1578196	22	2.2	22	85	7	62	29	2	14	54	1.52
1589084--1589132	20	2.4	21	72	3	55	32	34	8	24	1.85
1589209--1589265	20	2.8	21	81	5	71	36	10	14	38	1.80
1591070--1591192	39	3.2	39	86	0	183	33	22	27	16	1.95
1591196--1591346	44	3.4	44	85	1	196	32	18	24	24	1.97
1592957--1593179	94	2.4	95	83	2	270	31	14	26	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593505--1594328	59	14.0	59	89	0	1218	33	13	20	32	1.92
1594609--1594651	22	1.9	23	90	4	70	30	2	9	58	1.42
1595491--1595527	17	2.2	17	95	0	65	29	8	37	24	1.84
1600385--1600605	94	2.4	94	83	3	275	34	16	23	26	1.95
1600941--1601173	59	4.0	59	83	6	314	34	13	18	33	1.90
1601089--1601261	87	2.0	87	88	0	256	33	13	19	33	1.91
1601176--1601432	59	4.4	59	84	2	320	35	14	19	29	1.92
1600973--1601379	205	2.0	203	85	3	550	34	14	19	31	1.92
1601176--1601432	118	2.2	118	86	0	354	35	14	19	29	1.92
1612349--1612374	2	13.0	2	100	0	52	50	0	0	50	1.00
1612414--1612462	2	24.5	2	91	0	80	51	44	0	4	1.20
1612413--1612460	16	3.0	16	100	0	96	50	43	0	6	1.27
1616442--1616797	90	4.0	90	78	10	300	22	20	14	42	1.88
1616452--1616607	46	3.4	46	71	7	147	21	22	15	40	1.91
1616640--1616798	83	1.9	83	90	2	257	23	20	12	42	1.86
1616447--1616845	180	2.2	184	80	8	449	20	20	14	43	1.87
1619638--1620101	233	2.0	232	95	0	829	23	18	16	40	1.90
1620430--1620466	17	2.2	16	90	4	56	54	2	0	43	1.14
1620528--1620552	11	2.3	11	100	0	50	24	0	32	44	1.54
1623803--1623858	23	2.7	20	75	16	51	76	3	3	16	1.06
1623823--1623860	20	1.9	20	88	0	58	78	2	0	18	0.86
1625658--1625704	19	2.4	19	78	3	58	27	23	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1626485--1626532	22	2.1	23	88	3	71	47	18	25	8	1.76
1626764--1626806	20	2.1	21	83	12	54	51	6	6	34	1.56
1628546--1628589	2	22.0	2	100	0	88	50	0	0	50	1.00
1649675--1649976	152	2.0	152	91	2	491	30	21	11	36	1.89
1657949--1657978	15	2.1	15	93	6	53	23	26	0	50	1.50
1665514--1665696	95	1.9	95	82	4	226	30	17	24	27	1.97
1665729--1666125	195	2.0	195	96	0	731	37	12	17	31	1.88
1666214--1666372	55	2.9	55	86	0	212	30	20	18	30	1.96
1668277--1668321	22	2.0	22	86	0	63	33	8	13	44	1.75
1673347--1673387	21	2.1	19	86	9	55	31	21	19	26	1.97
1680211--1680314	47	2.3	45	82	9	129	42	7	18	31	1.78
1688353--1688392	21	1.9	21	89	0	62	25	40	25	10	1.86
1688422--1688446	8	3.1	8	100	0	50	48	52	0	0	1.00
1699248--1699319	37	1.9	37	88	0	108	25	13	6	54	1.64
1699418--1699493	37	2.1	37	94	0	134	27	32	7	31	1.85
1702610--1702638	13	2.1	14	93	6	51	20	34	3	41	1.69
1710125--1710151	13	2.1	13	100	0	54	40	14	29	14	1.86
1710294--1710331	18	2.1	19	85	5	51	15	5	5	73	1.19
1717148--1717188	20	2.0	20	90	0	64	19	9	0	70	1.14
1719028--1719057	10	3.0	10	100	0	60	40	0	20	40	1.52
1724227--1724273	18	2.6	18	77	12	51	25	4	0	70	1.05
1727476--1727728	138	1.8	137	82	2	328	42	15	12	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1730823--1730860	18	2.2	18	90	4	60	21	10	5	63	1.46
1737023--1737064	15	2.6	16	81	11	50	69	2	26	2	1.13
1738217--1738266	24	2.1	24	85	7	66	58	12	2	28	1.45
1740587--1740629	14	3.0	15	83	10	54	76	6	0	16	0.99
1743755--1743804	24	2.1	24	85	7	66	58	12	2	28	1.45
1745888--1745926	18	2.2	18	90	4	62	23	10	5	61	1.48
1751913--1751954	21	2.1	19	91	8	66	30	23	11	33	1.91
1752875--1752988	29	4.0	29	85	8	144	50	14	4	30	1.61
1752910--1753075	87	1.9	85	81	8	201	52	13	3	30	1.58
1752903--1753068	29	5.7	29	82	4	122	49	14	3	33	1.59

Tables:   1   2   3   4   5   6   7   8   9   10