genome.fa.s851.2.7.7.80.10.50.1000.6.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   25   26   27   28   29   30   31   

This is table  6  of  31  ( 3618 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)
1578697--1579194	85	5.8	86	85	5	645	36	18	17	27	1.93
1578723--1579267	170	3.2	170	80	6	613	37	18	16	27	1.92
1580067--1580156	40	2.2	39	86	7	117	48	2	7	41	1.44
1580050--1580108	29	2.1	28	90	9	93	50	1	5	42	1.34
1580081--1580222	36	3.9	35	75	15	119	44	1	9	45	1.44
1580218--1580252	8	4.1	8	89	10	52	14	0	0	85	0.59
1584091--1584133	23	1.9	21	81	13	50	32	18	13	34	1.90
1586748--1586788	21	2.0	21	90	0	64	53	2	0	43	1.13
1587129--1587211	27	3.1	27	89	3	134	45	2	7	44	1.44
1587191--1587283	43	2.2	42	83	11	111	46	0	7	46	1.31
1587236--1587337	34	2.9	34	80	11	116	42	0	9	47	1.43
1587236--1587337	36	2.9	35	80	10	118	42	0	9	47	1.43
1587332--1587364	17	1.9	17	100	0	66	18	0	0	81	0.68
1589795--1589883	32	2.8	31	75	20	78	23	3	2	70	1.13
1589800--1589881	28	2.8	29	80	15	89	23	3	2	70	1.15
1589839--1589889	17	3.0	17	74	8	50	29	1	1	66	1.13
1589951--1589979	12	2.3	13	94	5	51	31	0	0	68	0.89
1590854--1590893	16	2.5	16	87	0	62	22	10	40	27	1.86
1595136--1595366	72	3.2	72	93	0	372	27	16	13	41	1.87
1595151--1595361	36	5.8	37	68	5	135	27	16	12	43	1.84
1595437--1595533	37	2.6	37	83	3	115	27	19	12	40	1.88
1595349--1595552	102	2.0	104	87	2	295	31	19	13	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1595511--1595585	30	2.5	28	81	14	80	34	17	12	36	1.87
1595571--1595675	36	2.9	36	94	2	176	27	19	10	42	1.83
1595569--1595694	36	3.5	36	87	1	162	27	19	11	41	1.86
1595386--1595777	138	2.9	137	79	10	419	29	18	11	40	1.86
1595607--1595844	102	2.3	101	89	2	368	27	18	10	42	1.84
1595818--1595932	36	3.2	36	79	6	124	29	19	13	38	1.89
1595910--1596039	35	3.8	35	87	8	178	44	17	8	29	1.78
1597236--1597312	31	2.5	31	80	2	91	27	31	27	14	1.95
1597189--1597312	63	2.0	63	80	6	144	25	28	28	17	1.98
1598214--1598288	17	4.4	17	96	0	123	17	24	41	17	1.90
1598181--1598224	7	6.4	7	78	5	54	29	27	25	18	1.98
1598284--1598333	9	5.1	10	74	13	50	28	30	22	20	1.98
1598282--1598333	20	2.7	19	87	3	68	26	28	25	19	1.98
1605441--1605465	13	1.9	13	100	0	50	32	28	24	16	1.96
1605461--1605540	17	4.4	17	83	14	106	16	25	41	17	1.89
1605461--1605537	39	2.0	39	94	0	136	14	24	42	18	1.87
1605467--1605520	22	2.5	22	96	0	99	11	25	44	18	1.83
1605534--1605586	19	2.8	19	82	0	70	26	28	24	20	1.99
1607192--1607273	27	2.8	29	85	12	98	20	3	2	73	1.11
1609145--1609201	15	3.9	14	77	13	62	42	19	1	36	1.62
1611053--1611150	35	2.8	35	98	1	187	18	16	8	57	1.63
1611654--1611855	99	2.0	99	90	0	314	33	15	17	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1612578--1613050	237	2.0	238	90	0	750	34	17	17	30	1.93
1613443--1613927	85	5.7	86	86	0	607	36	18	17	26	1.94
1613432--1613933	171	2.9	170	83	3	616	36	19	17	27	1.94
1614273--1614316	10	4.2	11	80	19	58	25	0	0	75	0.81
1614273--1614316	16	2.9	15	83	13	54	25	0	0	75	0.81
1614272--1614333	27	2.3	27	78	18	67	20	3	0	75	0.94
1614285--1614328	19	2.4	18	81	7	52	18	4	0	77	0.94
1616888--1616945	15	3.9	15	83	0	80	43	18	0	37	1.51
1617999--1618056	15	3.9	15	88	0	89	44	18	0	36	1.50
1619107--1619164	15	3.9	15	84	8	82	43	18	0	37	1.51
1620216--1620270	15	3.7	15	87	0	83	43	18	0	38	1.50
1620620--1621634	510	2.0	509	88	2	1527	31	12	16	40	1.85
1621839--1621883	15	2.9	16	87	6	58	46	17	0	35	1.49
1622863--1622920	15	3.9	15	83	0	71	44	18	0	36	1.50
1623481--1623533	15	3.5	15	84	0	70	45	18	0	35	1.50
1624499--1624547	15	3.2	16	80	11	59	42	20	0	36	1.52
1628417--1628446	15	2.0	15	93	0	51	46	16	0	36	1.47
1629302--1629344	15	2.9	15	82	0	50	46	16	0	37	1.47
1630362--1630419	15	3.9	15	83	0	80	43	18	0	37	1.51
1631470--1631542	15	4.9	15	87	0	101	43	17	0	38	1.50
1632588--1632630	15	2.9	15	82	0	50	46	18	0	34	1.50
1633262--1633603	171	2.0	171	97	2	652	32	8	21	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636762--1636815	15	3.6	15	82	0	72	44	16	1	37	1.59
1638775--1638814	15	2.7	15	84	0	53	42	17	0	40	1.49
1639834--1639887	15	3.6	15	82	0	72	44	16	1	37	1.59
1640923--1640977	15	3.7	15	77	0	56	41	18	0	40	1.50
1642029--1642083	15	3.7	15	77	0	56	41	18	0	40	1.50
1643136--1643190	15	3.7	15	77	0	56	41	18	0	40	1.50
1644243--1644297	15	3.7	15	77	0	56	41	18	0	40	1.50
1645348--1645401	15	3.6	15	82	0	72	44	16	1	37	1.59
1646457--1646511	15	3.7	15	77	0	56	41	18	0	40	1.50
1647561--1647614	15	3.6	15	82	0	72	44	16	1	37	1.59
1648673--1648727	15	3.7	15	77	0	56	41	18	0	40	1.50
1649776--1649830	15	3.7	15	77	0	56	41	18	0	40	1.50
1650880--1650937	15	3.9	15	83	0	80	43	18	1	36	1.61
1651987--1652044	15	3.9	15	77	8	64	43	15	1	39	1.57
1653107--1653150	15	2.9	15	82	0	61	47	11	2	38	1.52
1654208--1654262	15	3.7	15	80	0	65	43	16	0	40	1.48
1656608--1656882	140	2.0	140	89	4	430	52	3	4	40	1.37
1657121--1657176	2	28.0	2	100	0	112	50	0	0	50	1.00
1657161--1657246	34	2.5	35	90	5	138	48	3	2	45	1.32
1657229--1657260	2	16.5	2	93	6	57	53	0	0	46	1.00
1657143--1657329	86	2.2	88	84	10	244	45	2	4	46	1.38
1657248--1657341	34	2.7	36	83	8	131	41	2	9	46	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1661793--1661993	98	2.0	99	89	0	305	36	15	17	29	1.91
1663418--1663442	12	2.1	12	100	0	50	20	16	24	40	1.91
1670902--1670932	16	1.9	16	93	0	53	19	9	16	54	1.68
1674284--1674321	20	1.9	19	94	5	67	36	18	15	28	1.92
1674374--1674411	20	1.9	20	84	10	51	34	7	26	31	1.85
1677407--1677479	24	3.2	24	64	25	66	31	23	9	35	1.87
1677407--1677493	45	1.9	45	90	4	140	31	24	8	36	1.84
1684543--1684615	24	3.2	24	64	25	66	31	23	9	35	1.87
1684543--1684663	45	2.7	46	93	2	201	31	21	9	37	1.86
1684756--1684893	60	2.3	58	78	3	150	28	23	18	28	1.98
1685183--1685219	16	2.4	16	90	4	58	43	13	10	32	1.79
1692041--1692076	17	2.2	17	90	5	56	16	2	5	75	1.12
1700621--1700744	54	2.3	54	90	0	185	36	16	18	28	1.93
1706306--1706416	54	2.1	54	87	0	159	37	18	17	26	1.93
1729311--1729354	21	2.1	21	100	0	88	13	29	25	31	1.94
1740662--1740705	23	1.9	23	90	0	70	34	20	18	27	1.96
1754461--1754498	20	1.9	20	88	0	58	28	26	21	23	1.99
1758186--1758235	5	10.2	5	77	12	50	20	6	0	74	1.03
1758186--1758235	9	5.1	10	74	11	50	20	6	0	74	1.03
1759815--1760061	56	4.4	56	88	1	334	31	19	12	36	1.89
1760489--1760537	20	2.5	20	86	6	64	16	26	18	38	1.91
1763458--1763523	32	2.1	32	100	0	132	37	25	12	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764028--1764134	53	2.0	53	96	0	196	27	16	14	41	1.88
1766968--1767141	90	2.0	88	91	2	285	46	6	10	36	1.63
1770299--1770339	20	2.0	20	95	0	73	26	36	26	9	1.88
1770373--1770417	23	2.0	23	86	0	63	20	40	24	15	1.91
1771653--1771868	117	1.8	118	81	6	269	50	6	16	25	1.70
1786513--1786544	12	2.7	12	100	0	64	37	9	6	46	1.61
1793370--1793419	17	3.0	17	97	2	93	40	6	24	30	1.79
1802616--1802656	17	2.4	17	87	0	64	29	0	0	70	0.87
1803228--1803261	18	1.9	17	88	5	50	20	5	5	67	1.33
1808129--1808171	21	2.0	22	86	4	61	34	6	4	53	1.49

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   25   26   27   28   29   30   31