genome.fa.s8311.2.7.7.80.10.50.1000.7.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: VEPZ01008311.1 Hibiscus syriacus cultivar Beakdansim tig00111002_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1790494

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 882 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)
1418087--1418134	21	2.2	22	77	3	53	50	12	14	22	1.77
1420680--1420709	14	2.1	14	93	0	51	83	10	6	0	0.81
1447712--1447764	17	3.1	17	83	5	72	39	15	7	37	1.75
1456286--1456310	13	1.9	13	100	0	50	76	0	16	8	1.02
1460369--1460399	13	2.4	13	100	0	62	35	6	22	35	1.80
1466657--1466756	33	3.0	33	94	0	182	26	17	26	31	1.97
1474977--1475118	50	2.8	50	90	2	223	41	12	16	29	1.85
1481212--1481262	21	2.5	20	93	6	93	35	11	27	25	1.91
1481716--1481815	50	2.0	50	90	0	155	38	13	20	29	1.90
1488053--1488144	9	11.6	8	68	25	54	43	1	4	51	1.29
1488116--1488173	29	2.0	30	83	10	75	36	0	5	58	1.20
1494594--1494636	19	2.2	20	87	4	61	48	6	9	34	1.62
1495338--1495379	20	2.0	21	86	4	59	47	7	16	28	1.73
1503137--1503186	20	2.5	20	90	6	75	38	2	16	44	1.59
1503289--1503346	28	2.1	28	93	0	98	37	12	13	36	1.82
1503387--1503424	20	1.9	20	94	0	67	39	13	7	39	1.73
1505129--1505198	3	23.7	3	97	2	133	32	0	0	67	0.91
1505265--1505343	39	2.0	40	85	11	110	34	12	0	53	1.39
1506858--1507037	64	2.8	63	81	9	202	29	23	17	29	1.97
1513018--1513486	232	2.0	234	96	3	867	31	17	11	40	1.84
1515733--1515854	64	1.9	64	83	6	158	30	20	17	31	1.95
1515761--1515919	63	2.5	64	83	4	187	30	22	16	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522240--1522270	14	2.2	14	94	0	53	35	3	45	16	1.63
1523035--1523099	13	4.9	13	94	1	103	1	30	0	67	1.00
1523059--1523100	21	2.0	21	85	0	57	0	30	0	69	0.89
1531745--1531978	42	5.6	42	89	0	344	27	11	18	41	1.85
1534697--1534758	6	10.3	6	77	6	63	19	4	11	64	1.43
1534697--1534764	18	3.8	18	80	0	82	20	5	10	63	1.47
1534697--1534765	24	2.9	23	84	4	84	20	5	10	63	1.45
1534702--1534765	12	5.3	12	84	0	74	21	4	9	64	1.42
1537007--1537034	14	2.0	14	100	0	56	0	14	50	35	1.43
1539015--1539056	16	2.6	16	88	3	57	47	0	2	50	1.14
1542369--1542679	163	1.9	164	92	0	525	22	19	22	36	1.95
1545760--1545857	48	2.0	49	96	2	180	30	7	16	45	1.74
1555639--1555681	21	2.1	22	83	12	56	67	0	2	30	1.03
1555632--1555685	16	3.2	16	80	14	56	64	0	1	33	1.04
1556389--1556451	19	3.2	19	75	4	54	55	12	0	31	1.37
1558092--1558121	16	1.9	15	93	6	51	6	13	13	66	1.43
1563565--1563605	21	1.9	22	90	5	66	75	0	4	19	0.98
1564244--1564390	76	2.0	76	90	2	235	59	9	2	28	1.40
1564250--1564417	76	2.2	75	86	3	230	56	9	2	31	1.44
1572817--1572867	20	2.4	21	77	9	59	25	0	33	41	1.56
1577762--1577792	11	2.8	11	95	0	53	74	3	0	22	0.96
1578617--1579217	54	11.1	54	79	5	629	35	15	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578617--1579217	163	3.7	163	84	2	751	35	15	16	32	1.90
1578617--1579217	218	2.8	217	85	2	769	35	15	16	32	1.90
1585101--1585646	55	10.1	54	82	7	624	33	16	18	31	1.93
1585101--1585640	109	5.0	108	83	4	640	33	16	18	31	1.93
1585925--1585978	22	2.6	20	77	11	63	20	27	14	37	1.92
1588973--1589028	29	1.9	29	85	7	78	33	26	7	32	1.84
1589166--1589205	14	2.9	15	82	14	50	60	0	5	35	1.19
1589468--1589512	23	2.0	23	86	0	63	48	4	0	46	1.22
1590448--1590590	76	2.0	71	83	9	182	27	2	11	58	1.44
1590481--1590543	32	2.0	32	84	12	85	22	1	11	65	1.33
1590548--1590610	19	3.2	19	75	4	54	31	1	12	53	1.48
1591231--1591279	19	2.6	18	84	9	71	22	2	2	73	1.04
1591325--1591367	7	5.9	7	78	10	50	20	2	0	76	0.89
1591337--1591372	18	1.9	19	88	5	56	19	2	0	77	0.88
1594285--1594309	11	2.3	11	100	0	50	16	0	0	84	0.63
1595959--1595996	19	2.0	19	89	0	58	31	0	13	55	1.38
1596720--1596768	19	2.6	18	81	9	62	22	2	2	73	1.04
1596809--1596860	20	2.4	21	71	12	52	28	1	0	69	0.99
1597612--1597817	32	6.6	32	76	7	113	53	18	1	25	1.53
1597641--1597812	32	5.6	29	75	12	130	54	18	1	26	1.50
1598820--1598857	17	2.2	17	90	0	58	34	15	10	39	1.82
1603244--1603285	12	3.4	12	86	3	57	69	0	7	23	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603310--1603350	22	1.9	21	90	5	64	19	2	36	41	1.65
1607480--1607572	32	3.1	27	77	18	87	9	15	3	72	1.24
1607480--1607550	15	4.6	14	73	18	52	7	16	4	71	1.24
1607492--1607573	34	2.5	32	79	13	87	8	15	2	73	1.18
1607478--1607573	29	3.1	30	75	17	90	9	15	3	71	1.24
1616612--1616664	23	2.2	24	86	3	72	11	16	11	60	1.59
1620283--1620330	24	2.0	25	84	12	64	47	8	4	39	1.53
1624928--1624966	11	3.6	11	79	6	53	38	15	5	41	1.69
1624931--1624977	21	2.2	21	100	0	94	31	17	6	44	1.73
1628094--1628133	17	2.4	17	86	0	53	30	12	10	47	1.74
1628125--1628174	17	2.9	17	84	0	64	38	16	10	36	1.82
1631668--1631701	18	1.9	17	88	5	50	26	0	20	52	1.46
1638320--1638353	17	2.0	17	88	0	50	47	0	0	52	1.00
1638640--1638674	10	3.5	10	96	0	61	45	20	14	20	1.85
1639116--1639159	21	2.1	21	82	0	52	25	27	20	27	1.99
1639126--1639166	21	2.0	21	85	0	55	21	24	24	29	1.99
1644860--1645011	65	2.4	64	86	3	207	34	17	19	28	1.94
1647585--1647699	44	2.6	44	80	9	137	30	18	20	30	1.96
1654307--1654359	21	2.5	21	84	0	70	20	26	18	33	1.96
1654349--1654482	20	6.7	20	84	1	178	37	19	20	23	1.94
1654349--1654482	60	2.2	61	90	1	207	37	19	20	23	1.94
1654349--1654502	40	3.8	39	83	5	132	35	20	20	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654678--1654739	18	3.0	22	69	26	62	30	38	12	17	1.88
1655076--1655184	20	5.5	20	86	1	121	15	16	21	46	1.83
1657057--1657140	20	4.5	20	75	17	90	39	21	19	20	1.93
1657057--1657161	54	1.9	54	92	0	174	40	20	20	18	1.91
1657185--1657326	20	7.4	20	82	9	154	16	20	22	40	1.91
1657812--1657853	21	2.2	19	87	12	59	21	35	19	23	1.96
1657807--1657928	42	2.9	42	75	9	106	22	35	18	23	1.96
1659270--1659305	14	2.6	14	90	0	54	30	0	22	47	1.52
1659406--1659492	33	2.6	33	87	3	111	42	18	24	14	1.88
1659492--1659585	19	5.2	19	80	13	117	17	20	14	47	1.82
1659596--1659682	20	4.4	19	81	5	93	24	20	20	34	1.97
1659597--1659682	39	2.2	40	87	2	120	24	20	19	34	1.96
1661895--1661924	3	10.0	3	100	0	60	0	33	0	66	0.92
1663002--1663062	20	3.0	20	88	4	70	22	21	19	36	1.95
1663012--1663126	20	5.3	20	73	19	97	21	19	20	39	1.93
1663123--1663168	21	2.2	21	88	0	65	36	17	28	17	1.92
1665903--1666120	81	2.7	80	82	2	265	27	20	19	33	1.97
1665932--1666224	42	7.1	42	74	5	215	30	20	17	31	1.96
1665941--1666222	123	2.3	120	77	7	269	29	20	18	31	1.96
1669235--1669497	43	6.1	43	86	1	359	41	19	17	21	1.90
1673511--1673564	20	2.8	19	83	10	65	29	11	29	29	1.91
1676542--1676582	13	2.9	14	89	10	66	65	0	19	14	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1680455--1680488	17	2.0	17	94	0	59	38	0	29	32	1.58
1688666--1688725	20	2.8	21	87	7	77	18	25	35	21	1.96
1700422--1700460	21	1.9	20	84	5	51	35	20	15	28	1.93
1705184--1705218	14	2.7	13	87	12	54	11	20	0	68	1.20
1712392--1712440	19	2.5	20	87	12	66	34	0	10	55	1.34
1712380--1712647	11	23.6	11	67	20	74	41	0	6	51	1.33
1712472--1712548	33	2.4	31	84	8	91	41	0	3	54	1.19
1712503--1712578	24	3.0	26	73	25	65	43	1	5	50	1.33
1712527--1712603	25	3.1	24	80	10	75	44	1	3	50	1.28
1712523--1712603	23	3.4	24	80	19	91	44	1	3	50	1.27

Tables:   1   2   3   4   5   6   7   8