genome.fa.s8523.2.7.7.80.10.50.1000.6.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

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

This is table  6  of  18  ( 2060 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)
1414968--1415246	52	5.2	52	93	4	388	46	17	21	14	1.83
1415007--1415246	71	3.4	71	86	11	373	47	17	20	14	1.83
1414940--1415284	142	2.5	138	90	6	518	46	18	20	14	1.84
1414940--1415268	52	6.3	55	88	9	332	46	18	20	14	1.84
1415275--1415376	19	5.6	19	85	12	151	14	23	17	44	1.86
1415483--1415519	14	2.6	14	91	0	65	45	21	0	32	1.52
1417445--1417513	19	3.5	20	86	5	88	44	26	17	11	1.82
1417509--1417637	19	7.3	19	75	17	125	8	17	28	45	1.77
1417509--1417600	33	2.8	33	93	3	150	7	18	28	45	1.76
1417681--1418153	93	5.1	93	99	0	939	46	19	12	21	1.83
1417681--1418153	185	2.5	186	99	0	939	46	19	12	21	1.83
1419860--1419949	14	5.7	14	74	23	81	42	23	25	8	1.83
1419852--1419966	33	3.5	33	95	0	212	45	20	24	9	1.81
1419859--1419971	19	6.8	18	72	23	88	43	22	24	9	1.83
1419983--1420037	14	3.6	14	73	21	56	9	25	23	41	1.83
1419967--1420037	33	2.2	33	94	0	124	8	22	25	43	1.81
1419978--1420059	33	2.5	33	89	2	119	9	25	21	42	1.84
1419990--1420078	20	4.8	20	72	19	75	12	24	19	43	1.85
1420158--1420228	33	2.2	33	92	0	115	47	18	22	11	1.80
1420409--1420463	22	2.5	22	81	0	74	20	16	40	23	1.91
1420609--1420801	20	9.6	20	82	5	219	19	19	25	35	1.95
1420609--1420801	60	3.2	60	83	0	251	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1420857--1420908	20	2.6	20	96	0	95	21	13	26	38	1.90
1425208--1425287	42	1.9	42	94	0	142	51	16	8	23	1.72
1426103--1426156	23	2.3	23	100	0	108	35	11	11	42	1.76
1437643--1437722	42	1.9	42	94	0	142	48	16	10	25	1.76
1445904--1445959	29	1.9	29	100	0	112	48	12	14	25	1.78
1450586--1450641	29	1.9	29	96	0	103	48	12	12	26	1.77
1458656--1458726	31	2.3	31	82	4	81	36	14	2	46	1.59
1459569--1459607	18	2.1	18	86	13	53	33	0	5	61	1.18
1471127--1471209	31	2.7	31	86	0	121	30	21	9	38	1.86
1473155--1473280	31	4.1	30	75	9	112	49	6	8	35	1.59
1473455--1473507	20	2.7	20	87	0	79	37	9	26	26	1.87
1473682--1473714	15	2.2	15	94	0	57	51	0	0	48	1.00
1473663--1473740	36	2.1	37	83	6	97	51	2	1	44	1.23
1480515--1480552	2	19.0	2	100	0	76	50	0	0	50	1.00
1482599--1482632	12	2.8	12	90	0	59	50	23	0	26	1.50
1484871--1484925	23	2.4	22	78	9	56	47	14	10	27	1.78
1488599--1488797	105	1.9	105	86	2	285	28	16	19	36	1.93
1503526--1503565	21	2.0	20	86	13	57	45	5	2	47	1.38
1503955--1504005	20	2.9	17	74	20	52	41	0	0	58	0.98
1504670--1504799	58	2.2	59	80	5	138	35	19	6	38	1.78
1521454--1521532	34	2.3	34	97	0	149	24	16	11	48	1.79
1533945--1534016	38	1.9	37	83	5	92	48	4	2	44	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1535898--1535979	29	2.8	29	92	1	128	32	14	10	41	1.81
1540397--1540475	29	2.7	29	92	2	122	32	15	10	41	1.80
1555355--1555402	23	2.1	23	88	0	69	35	12	18	33	1.89
1555781--1555832	23	2.3	22	90	6	77	44	19	1	34	1.62
1555791--1555853	23	2.7	23	90	0	90	38	19	6	36	1.77
1556256--1556342	39	2.2	39	95	0	156	17	13	20	48	1.81
1557093--1557144	23	2.3	22	90	6	77	44	19	1	34	1.62
1557103--1557165	23	2.7	23	90	0	90	38	19	6	36	1.77
1557524--1557575	23	2.3	22	90	6	77	44	19	1	34	1.62
1557534--1557596	23	2.7	23	90	0	90	38	19	6	36	1.77
1556880--1557841	431	2.2	429	98	0	1854	39	12	8	39	1.73
1560371--1560715	185	1.9	184	90	1	548	33	16	14	35	1.89
1561063--1561135	23	3.2	23	82	0	83	39	19	5	35	1.75
1560719--1561498	431	1.8	431	96	1	1465	39	11	8	39	1.73
1562617--1562703	3	29.0	3	77	0	75	22	34	6	35	1.81
1564175--1565739	199	7.9	198	97	1	2859	31	15	15	36	1.90
1564175--1565739	395	3.9	397	97	1	2915	31	15	15	36	1.90
1564175--1565739	594	2.6	595	97	0	2938	31	15	15	36	1.90
1565858--1565906	19	2.6	19	93	0	80	57	10	2	30	1.43
1567457--1567511	18	3.2	18	71	23	64	1	47	0	50	1.11
1567698--1567763	33	2.0	33	87	0	96	24	45	1	28	1.62
1570069--1570111	20	2.3	18	82	17	61	18	16	11	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570074--1570120	20	2.3	20	89	10	78	17	17	10	55	1.69
1570242--1570291	20	2.5	20	84	12	66	16	14	14	56	1.69
1571762--1571790	3	9.7	3	100	0	58	68	31	0	0	0.89
1576957--1576996	20	2.1	19	90	4	62	35	7	32	25	1.84
1593043--1593107	23	2.8	23	73	0	58	53	12	12	21	1.70
1598751--1598848	49	2.0	49	87	0	142	43	17	10	28	1.81
1599110--1599174	34	1.9	34	90	0	103	43	24	9	23	1.83
1602006--1602031	9	2.9	9	100	0	52	88	0	0	11	0.52
1606191--1606236	16	2.9	16	87	6	58	52	17	10	19	1.74
1614067--1614097	11	2.7	12	90	10	55	61	0	0	38	0.96
1615033--1615057	2	12.5	2	100	0	50	52	0	0	48	1.00
1616012--1616089	41	1.9	41	97	0	147	20	17	25	35	1.95
1616016--1616147	62	2.1	62	94	2	230	21	16	25	35	1.95
1616078--1616192	41	2.8	41	90	0	194	21	17	25	35	1.95
1616009--1616195	103	1.8	103	95	0	338	21	16	25	36	1.94
1616184--1616236	22	2.4	22	83	0	79	20	16	26	35	1.94
1616856--1616890	5	7.0	5	100	0	70	0	20	60	20	1.37
1616992--1617097	41	2.7	41	87	11	143	39	21	20	17	1.92
1617077--1617113	19	2.0	19	89	5	58	45	16	21	16	1.84
1617027--1617157	61	2.2	60	91	4	210	40	20	19	19	1.92
1617088--1617196	41	2.6	41	89	4	166	39	22	19	19	1.93
1616992--1617196	102	2.1	97	93	4	347	39	21	20	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1617012--1617259	102	2.4	102	84	7	299	39	22	19	18	1.92
1617266--1617334	19	3.5	19	77	11	84	39	21	18	20	1.93
1617089--1617440	177	2.0	178	92	0	580	37	23	19	19	1.94
1617284--1617355	22	3.4	22	75	11	87	37	25	18	19	1.94
1617266--1617355	41	2.2	41	97	0	171	37	23	18	20	1.94
1617266--1617373	41	2.6	41	91	4	155	39	23	18	18	1.92
1617367--1617522	21	7.6	21	86	2	122	35	25	19	20	1.96
1617088--1617485	218	1.8	218	82	4	516	37	23	19	19	1.94
1617190--1617523	102	3.3	100	77	13	332	37	23	18	19	1.94
1620476--1620810	167	2.0	167	100	0	670	27	23	16	32	1.96
1624116--1624274	60	2.7	59	82	3	194	40	5	22	31	1.77
1628727--1629023	159	1.9	155	89	5	463	26	21	13	38	1.90
1633473--1633508	12	3.0	12	100	0	72	75	0	8	16	1.04
1633789--1633848	29	2.1	29	100	0	120	33	16	6	43	1.74
1634249--1634300	15	3.5	15	81	0	68	9	65	15	9	1.47
1635794--1636369	113	5.1	112	91	0	902	25	13	14	46	1.81
1636279--1636324	20	2.3	20	84	0	65	15	17	10	56	1.67
1645198--1645310	60	1.9	60	85	3	156	38	17	12	30	1.87
1649565--1649675	35	3.2	35	77	12	113	44	19	0	35	1.57
1650294--1650350	15	3.7	15	81	9	78	21	35	28	15	1.94
1650967--1651078	35	3.2	35	82	5	145	37	0	19	41	1.58
1651879--1651908	13	2.4	13	94	5	53	36	0	6	56	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1653641--1653727	39	2.2	39	100	0	174	26	28	12	32	1.93
1657138--1657172	12	2.9	12	91	0	52	40	20	11	28	1.87
1664315--1664467	60	2.6	59	82	6	166	37	20	3	37	1.72
1664591--1664758	60	2.8	60	76	10	155	46	2	17	33	1.63
1665149--1665199	22	2.4	22	80	12	61	49	1	3	45	1.32
1667270--1667306	19	1.9	19	100	0	74	37	5	5	51	1.48
1667433--1667467	17	2.0	18	88	5	54	37	5	5	51	1.50
1669511--1669554	23	1.9	23	90	0	70	54	2	0	43	1.12
1672210--1672241	13	2.5	13	89	0	55	46	6	3	43	1.44
1673454--1673511	28	2.1	28	93	0	98	27	22	3	46	1.68

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