genome.fa.s8716.2.7.7.80.10.50.1000.6.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  6  of  24  ( 2813 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)
1368209--1368246	15	2.5	15	100	0	76	26	26	34	13	1.93
1368247--1368281	18	1.9	18	94	0	61	17	22	42	17	1.88
1368236--1368297	13	4.5	13	78	21	72	16	22	45	16	1.85
1368275--1368319	18	2.6	18	96	3	83	11	17	53	17	1.72
1368265--1368296	12	2.6	12	95	5	55	12	18	50	18	1.78
1372073--1372107	18	1.9	18	88	0	52	28	17	0	54	1.43
1373207--1373244	7	5.1	7	87	12	58	26	26	34	13	1.93
1373207--1373278	8	9.4	8	76	18	73	22	25	37	15	1.93
1373207--1373244	15	2.5	15	100	0	76	26	26	34	13	1.93
1373234--1373296	13	4.5	13	78	18	72	17	22	44	15	1.86
1373245--1373279	18	1.9	18	94	0	61	17	22	42	17	1.88
1373219--1373314	31	3.2	30	85	7	124	18	21	43	15	1.87
1373273--1373318	18	2.6	18	100	0	92	13	17	52	17	1.75
1381553--1381609	25	2.3	25	96	0	105	28	14	15	42	1.86
1390250--1390276	10	2.7	10	100	0	54	40	0	51	7	1.30
1405350--1405395	22	2.0	22	83	4	56	63	2	6	28	1.31
1406136--1406195	23	2.8	22	85	7	79	58	13	16	11	1.63
1406498--1406524	2	13.5	2	100	0	54	48	0	0	51	1.00
1418483--1418524	21	1.9	23	85	9	61	33	7	2	57	1.39
1424462--1424504	21	2.0	21	86	0	59	30	27	25	16	1.97
1425199--1425243	23	2.0	23	86	0	63	20	26	26	26	1.99
1431274--1431316	21	2.0	21	86	0	59	30	27	25	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1431343--1431380	20	1.9	20	88	0	58	23	34	31	10	1.89
1436257--1438611	4	601.5	4	90	6	3704	47	25	0	25	1.57
1438619--1438689	37	1.9	37	100	0	142	45	7	9	38	1.65
1446160--1446276	61	1.9	61	87	0	171	52	13	8	24	1.68
1456842--1456895	23	2.2	24	77	6	56	29	9	0	61	1.27
1478868--1478948	42	1.9	42	97	0	153	41	7	32	18	1.78
1482387--1482450	11	5.2	13	69	27	50	39	0	0	60	0.97
1482481--1482518	19	2.0	19	89	0	58	10	15	42	31	1.81
1482455--1482516	25	2.5	25	76	12	65	11	12	38	37	1.80
1484233--1484297	23	2.8	23	88	0	103	35	6	20	38	1.77
1484402--1484441	21	1.9	21	84	0	53	50	7	15	27	1.70
1484455--1484514	20	2.7	22	80	15	70	38	21	5	35	1.75
1484876--1484938	23	2.7	23	92	0	99	38	20	4	36	1.74
1484293--1485555	421	3.0	426	94	3	2179	39	13	7	39	1.73
1485290--1485361	23	3.2	22	86	4	90	40	22	2	34	1.68
1485766--1485852	39	2.2	39	93	0	147	18	13	19	48	1.81
1486097--1486133	18	2.1	18	89	0	56	51	10	5	32	1.60
1486515--1486562	25	1.9	25	95	0	87	43	20	8	27	1.80
1486848--1486906	23	2.6	23	91	0	91	42	16	3	37	1.66
1487272--1487615	183	1.9	183	89	3	532	34	16	14	35	1.89
1487951--1488026	23	3.5	21	85	10	91	39	22	3	34	1.73
1489598--1489681	9	9.3	9	78	0	87	23	33	5	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489598--1489693	12	8.2	12	82	6	90	22	33	7	36	1.82
1489598--1489681	6	14.0	6	83	0	87	23	33	5	36	1.79
1489602--1489685	24	3.4	24	82	9	105	22	33	7	36	1.82
1489602--1489696	6	15.3	6	78	6	73	21	33	7	37	1.81
1491147--1492490	200	6.7	199	95	0	2354	31	16	13	37	1.88
1491147--1492490	399	3.4	399	96	0	2390	31	16	13	37	1.88
1491147--1492489	599	2.2	597	95	0	2411	31	16	13	37	1.88
1492625--1492669	19	2.4	19	88	0	63	57	6	2	33	1.37
1494445--1494510	33	2.0	33	90	0	105	22	48	0	28	1.51
1494543--1494586	21	2.1	21	86	0	61	15	29	11	43	1.82
1496791--1496837	20	2.4	19	79	10	58	21	17	8	53	1.70
1496972--1497017	20	2.3	20	89	10	76	17	17	10	54	1.70
1497066--1498237	229	5.1	229	95	1	2088	39	7	7	44	1.63
1497066--1498237	455	2.6	458	95	0	2088	39	7	7	44	1.63
1499251--1499298	21	2.3	21	96	0	87	27	18	12	41	1.86
1503900--1503948	21	2.3	21	96	0	89	26	18	12	42	1.85
1510861--1510932	22	3.1	23	78	11	58	54	0	4	41	1.20
1510885--1510934	22	2.3	22	85	0	73	56	0	4	40	1.18
1513592--1513783	95	2.0	95	94	0	339	24	14	21	39	1.91
1518198--1518255	29	2.0	29	93	0	98	39	17	6	36	1.76
1523772--1523826	25	2.2	25	96	0	101	29	25	5	40	1.78
1523780--1523833	25	2.2	25	89	0	81	33	25	5	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1523831--1523884	26	2.0	27	89	10	85	37	42	7	12	1.72
1533290--1533334	23	2.0	23	100	0	90	26	22	35	15	1.94
1533292--1533342	23	2.2	23	92	0	84	27	23	31	17	1.97
1533567--1533600	18	1.9	17	94	5	59	26	29	26	17	1.98
1534830--1534871	22	2.0	21	85	4	57	33	0	16	50	1.46
1536607--1536644	12	2.9	14	84	15	62	36	26	13	23	1.91
1542166--1542228	22	2.9	22	76	6	74	17	15	12	53	1.72
1542168--1542228	23	2.7	22	75	7	61	18	14	13	54	1.72
1543868--1543984	29	4.0	29	94	0	180	12	35	31	20	1.90
1543992--1544033	22	1.9	22	90	0	66	7	42	19	30	1.78
1545523--1545559	20	1.9	19	89	10	58	45	10	24	18	1.81
1551609--1551837	119	1.9	119	90	1	361	44	8	4	42	1.55
1566926--1566955	4	7.2	4	96	3	51	46	0	0	53	1.00
1574825--1574856	14	2.2	15	94	5	57	43	3	0	53	1.16
1583896--1583940	2	22.5	2	100	0	90	51	0	48	0	1.00
1590864--1590900	19	2.0	20	89	10	60	45	0	0	54	1.00
1591210--1591271	31	1.9	33	83	6	83	32	25	4	37	1.77
1592080--1592124	17	2.6	18	92	3	74	0	35	4	60	1.17
1592092--1592130	17	2.2	17	90	4	60	2	33	5	58	1.33
1595570--1595610	20	2.0	20	86	9	57	34	9	4	51	1.56
1596997--1597069	31	2.4	30	79	4	94	36	8	27	27	1.85
1604300--1604492	30	6.5	30	82	5	203	8	6	53	31	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604300--1604480	59	3.1	60	88	5	253	8	6	53	31	1.56
1605832--1605909	30	2.6	30	78	13	79	43	1	3	51	1.28
1605851--1605916	30	2.2	30	86	8	89	42	1	3	53	1.25
1606630--1606690	31	2.0	31	83	6	79	54	3	1	40	1.27
1610585--1610940	180	2.0	183	87	6	528	44	7	4	43	1.53
1610880--1610976	44	2.3	42	75	13	99	38	1	2	58	1.16
1616069--1616346	82	3.4	80	80	4	281	37	14	13	34	1.86
1624222--1624261	4	10.0	4	88	0	53	22	5	27	45	1.73
1632328--1632388	31	2.0	31	83	6	79	40	4	18	36	1.72
1633556--1633603	20	2.5	20	89	3	71	35	0	20	43	1.52
1634922--1635137	121	1.8	118	84	3	297	22	14	20	43	1.88
1644268--1644307	5	7.6	5	97	2	62	0	20	55	25	1.44
1644428--1644501	21	3.6	21	72	7	80	33	25	20	20	1.97
1644403--1644497	40	2.3	42	94	3	167	34	23	20	22	1.96
1644514--1644627	20	5.7	20	78	8	115	26	21	20	31	1.98
1644532--1644627	40	2.4	40	92	0	165	25	21	18	34	1.96
1644942--1645043	51	2.0	51	86	0	141	34	7	19	38	1.81
1646733--1646758	3	8.7	3	100	0	52	0	0	30	69	0.89
1656962--1657004	20	2.2	20	86	0	59	27	4	9	58	1.49
1662499--1662528	15	1.9	16	93	6	53	6	16	0	76	0.99
1663296--1663680	192	2.0	192	100	0	770	30	22	23	23	1.99
1669036--1669082	20	2.5	18	80	13	51	44	0	2	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669869--1670002	60	2.2	60	85	1	169	39	8	12	39	1.73
1673902--1673996	31	3.1	31	68	8	95	52	10	11	25	1.69
1673911--1674007	31	3.2	30	68	10	88	50	9	12	27	1.70
1673902--1674032	61	2.2	59	89	5	192	51	7	12	28	1.68
1682282--1682633	121	2.9	119	77	9	320	46	8	13	30	1.74
1693360--1693434	31	2.5	30	80	8	80	38	8	2	50	1.46
1696830--1696869	14	2.9	14	88	0	53	37	30	7	25	1.83
1700750--1700801	22	2.4	22	80	6	61	48	5	0	46	1.26
1714450--1714486	15	2.5	15	95	0	65	8	70	16	5	1.30
1725951--1726018	34	2.0	34	100	0	136	32	8	14	44	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24