genome.fa.s7721.2.7.7.80.10.50.1000.7.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: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3738426

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

This is table  7  of  16  ( 1904 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)
1483086--1483141	20	2.9	20	69	17	55	71	0	7	21	1.09
1483083--1483178	18	5.3	18	67	6	59	71	0	7	20	1.09
1483086--1483159	37	1.9	37	83	8	94	70	0	6	22	1.11
1483164--1483239	5	13.8	5	73	14	53	76	3	6	13	1.12
1483163--1483247	46	2.0	44	86	13	124	72	3	10	12	1.23
1483379--1483421	18	2.4	18	80	0	50	67	2	6	23	1.27
1484053--1484082	2	15.5	2	93	6	53	53	0	0	46	1.00
1486851--1486899	18	2.7	19	72	18	50	36	16	12	34	1.86
1488746--1488827	39	2.1	39	93	0	137	37	2	14	45	1.58
1491571--1491653	42	2.0	42	95	4	150	31	9	36	22	1.87
1492001--1492064	3	21.0	3	78	9	67	35	3	1	59	1.23
1493342--1493384	22	2.0	22	90	0	68	44	2	0	53	1.13
1493483--1493517	2	18.0	2	94	5	63	51	0	0	48	1.00
1496428--1496456	7	4.3	7	95	4	51	44	24	0	31	1.54
1500575--1500626	24	2.2	24	85	0	68	57	21	13	7	1.61
1503448--1503478	10	3.2	10	90	9	55	0	12	0	87	0.55
1503451--1503476	9	2.9	9	100	0	52	0	7	0	92	0.39
1513453--1513500	23	2.1	23	96	0	87	27	25	22	25	2.00
1513456--1513510	23	2.4	23	87	0	74	23	23	21	30	1.99
1516034--1516141	20	5.4	20	90	0	144	23	23	9	44	1.82
1520309--1520366	24	2.4	24	100	0	116	55	17	17	10	1.69
1520714--1520758	21	2.1	21	83	0	54	48	6	4	40	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1523592--1523674	33	2.5	34	90	3	125	50	1	2	45	1.22
1524788--1524821	15	2.3	15	94	0	59	11	8	26	52	1.67
1525420--1525466	21	2.2	21	84	0	67	21	25	14	38	1.92
1525462--1525555	20	4.7	20	80	2	116	41	20	18	20	1.91
1526133--1526223	20	4.6	20	87	1	103	14	17	23	45	1.85
1526187--1526230	20	2.2	20	91	0	70	11	13	20	54	1.69
1528093--1528232	20	6.6	20	76	15	129	40	22	18	18	1.92
1528275--1528456	20	9.3	20	79	9	169	19	20	21	39	1.93
1528277--1528456	40	4.6	40	75	10	192	18	20	21	39	1.93
1529965--1530000	14	2.6	14	90	0	54	30	0	22	47	1.52
1530183--1530254	33	2.1	34	94	2	128	12	22	18	47	1.81
1530194--1530266	33	2.2	34	85	2	94	16	20	15	47	1.82
1530257--1530363	20	5.3	20	88	2	162	17	19	24	38	1.93
1532769--1532823	24	2.2	25	90	3	85	40	20	18	21	1.92
1532786--1532837	24	2.2	24	82	0	59	36	21	19	23	1.95
1533665--1533731	20	3.3	20	95	0	116	22	19	26	31	1.98
1533718--1533806	20	4.4	20	95	0	160	20	20	19	40	1.92
1533808--1533852	21	2.1	21	91	0	72	40	17	24	17	1.91
1541777--1541817	2	20.5	2	100	0	82	51	0	0	48	1.00
1543254--1543295	12	3.3	12	83	16	50	50	0	2	47	1.14
1543446--1543489	22	2.0	22	82	4	54	31	0	15	52	1.44
1543526--1543702	84	2.1	83	80	10	211	50	3	5	40	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1543835--1543876	16	2.6	16	78	14	50	45	0	4	50	1.23
1545853--1546087	42	5.7	42	71	13	173	31	15	22	30	1.95
1545862--1546045	41	4.5	42	73	12	130	29	15	22	32	1.95
1545862--1546114	82	3.0	81	85	2	290	31	15	22	31	1.94
1545934--1546195	82	3.2	82	81	4	199	30	14	22	32	1.93
1547603--1547833	41	5.5	42	81	7	245	32	24	15	28	1.95
1547621--1547833	85	2.5	82	82	3	246	31	25	15	27	1.95
1552085--1552161	21	3.7	21	76	0	91	41	15	38	3	1.66
1552151--1552210	21	2.9	21	82	0	75	41	18	36	3	1.67
1552544--1552626	42	1.9	42	83	9	105	32	22	14	30	1.94
1552617--1552793	86	2.1	86	81	3	214	32	25	18	23	1.97
1552635--1552792	86	1.8	85	86	4	228	32	28	17	21	1.96
1552635--1552793	43	3.7	43	80	2	160	32	28	17	22	1.96
1561968--1562008	21	2.0	21	86	9	59	46	2	24	26	1.65
1563413--1563455	20	2.2	20	86	0	59	34	18	11	34	1.87
1570961--1571003	20	2.2	20	91	0	68	34	20	11	32	1.89
1575067--1575359	146	2.0	147	87	2	419	37	14	11	36	1.82
1576448--1576542	50	1.9	50	86	0	136	35	24	21	18	1.95
1580136--1580224	36	2.4	36	83	7	108	26	1	10	61	1.35
1583225--1583284	25	2.3	25	75	18	59	65	6	1	26	1.27
1584948--1584984	17	2.3	16	90	9	58	83	5	10	0	0.79
1589203--1589274	19	3.7	19	74	7	65	50	8	13	27	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589226--1589274	20	2.5	20	80	3	64	53	6	14	26	1.64
1592166--1592351	75	2.5	76	88	6	267	31	26	20	21	1.98
1598071--1598124	21	2.6	21	90	0	81	24	31	16	27	1.96
1598113--1598170	23	2.6	22	81	7	73	24	27	13	34	1.93
1600759--1600945	76	2.5	76	92	2	308	29	29	19	21	1.98
1605377--1605442	19	3.5	19	91	0	114	45	6	16	31	1.72
1613907--1613948	18	2.3	18	84	8	50	45	2	2	50	1.27
1622583--1622621	17	2.3	17	100	0	78	41	7	15	35	1.76
1623040--1623080	8	5.2	8	88	5	66	36	0	26	36	1.57
1623040--1623080	15	2.6	16	84	7	66	36	0	26	36	1.57
1623161--1623767	128	4.7	128	95	0	1088	21	24	21	33	1.97
1624163--1624235	34	2.1	34	92	0	119	36	4	6	52	1.48
1624766--1624864	21	4.7	21	81	10	114	25	24	31	19	1.98
1624756--1624864	42	2.6	42	92	2	175	25	25	30	18	1.98
1624874--1624921	21	2.3	21	88	0	69	20	12	41	25	1.87
1626447--1626500	17	3.2	17	78	2	56	59	1	0	38	1.08
1626644--1626731	33	2.7	31	80	5	95	57	1	0	40	1.06
1626644--1626721	32	2.4	33	83	10	90	58	0	0	41	0.98
1638468--1638525	21	2.8	21	81	0	71	25	17	27	29	1.97
1644550--1644620	32	2.2	32	80	5	81	30	2	4	61	1.29
1644781--1644819	2	18.5	2	94	5	60	46	5	0	48	1.24
1644774--1644825	26	2.0	26	88	0	77	44	7	1	46	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644945--1644986	18	2.5	17	82	17	52	14	4	2	78	1.01
1651903--1651940	18	2.1	19	85	14	53	13	15	0	71	1.16
1656848--1656880	2	17.0	2	93	6	59	51	0	0	48	1.00
1656904--1657072	85	2.0	86	84	3	225	31	18	18	31	1.95
1657051--1657095	13	3.5	13	84	0	63	33	17	22	26	1.96
1657044--1657095	26	2.0	26	88	0	77	36	15	21	26	1.93
1659592--1659647	11	5.3	11	83	8	64	82	0	16	1	0.76
1659592--1659644	17	3.2	16	89	5	72	81	0	16	1	0.79
1659591--1659627	5	7.0	5	93	6	56	81	0	18	0	0.70
1661348--1661380	2	17.0	2	93	6	59	48	0	0	51	1.00
1662061--1662100	20	2.0	20	90	0	62	27	37	30	5	1.78
1662210--1662237	6	4.7	6	100	0	56	64	0	17	17	1.30
1662534--1662710	5	34.6	5	74	16	141	17	5	0	77	0.94
1662534--1662709	9	19.3	9	72	19	118	17	5	0	77	0.95
1662509--1662710	14	14.5	14	78	16	190	15	6	0	77	1.00
1662756--1662798	14	3.2	13	78	12	50	16	2	2	79	0.95
1662754--1662810	15	3.8	14	76	19	53	15	3	1	78	0.96
1666482--1666672	105	1.8	105	83	1	258	37	11	10	40	1.77
1666482--1666694	105	2.0	104	81	0	246	38	11	11	38	1.78
1666618--1666767	74	2.0	74	88	2	221	39	12	10	37	1.78
1666530--1666871	178	1.9	178	79	4	386	38	13	12	36	1.82
1667352--1667442	45	2.0	47	85	12	127	45	5	3	46	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667412--1667505	35	2.7	35	76	14	95	48	6	3	41	1.44
1681016--1681104	42	2.2	40	80	11	103	50	5	3	40	1.42
1681053--1681280	71	3.3	69	76	8	205	46	7	4	41	1.53
1681494--1681531	2	19.0	2	100	0	76	50	0	0	50	1.00
1686397--1686429	14	2.4	14	100	0	66	39	15	21	24	1.91
1686815--1686872	23	2.5	23	91	0	89	29	18	18	32	1.96
1688443--1688478	12	3.1	12	88	8	56	44	0	0	55	0.99
1690070--1690238	70	2.4	70	86	1	232	48	7	4	39	1.51
1693546--1693588	2	21.5	2	95	0	77	48	2	0	48	1.14
1697353--1697469	54	2.2	54	100	0	234	26	28	18	26	1.98

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