genome.fa.s7930.2.7.7.80.10.50.1000.9.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: VEPZ01007930.1 Hibiscus syriacus cultivar Beakdansim tig00110338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2280901

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  9  of  12  ( 1413 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)
1531382--1531459	20	3.7	20	93	6	120	30	20	23	25	1.98
1531366--1531459	40	2.3	43	85	12	126	29	19	24	26	1.98
1533092--1533123	2	15.5	2	93	6	55	46	0	3	50	1.17
1539825--1539883	30	1.9	31	93	3	102	32	6	5	55	1.48
1543636--1543737	52	2.0	51	82	1	123	34	17	17	30	1.93
1545597--1545657	18	3.3	18	80	13	52	72	6	8	13	1.28
1556981--1557020	20	2.0	20	90	9	64	45	25	5	25	1.73
1557101--1557131	16	1.9	16	93	0	53	74	0	0	25	0.82
1562545--1562589	23	2.0	23	82	8	56	51	0	6	42	1.28
1563926--1563967	22	1.9	22	95	0	75	33	11	21	33	1.90
1564359--1564412	24	2.2	24	93	0	90	18	35	20	25	1.95
1565854--1565898	16	2.8	16	93	0	72	60	22	11	6	1.54
1566105--1566182	34	2.3	34	84	0	111	30	19	15	34	1.93
1566526--1566581	14	4.3	14	82	17	84	50	26	16	7	1.70
1566519--1566580	24	2.6	24	92	0	106	51	25	14	8	1.69
1566808--1566833	12	2.2	12	100	0	52	42	15	19	23	1.89
1570344--1570383	19	2.0	20	85	4	55	20	32	25	22	1.98
1576891--1576969	32	2.5	32	85	4	97	17	20	30	31	1.96
1579966--1580085	30	4.0	30	95	0	213	33	22	20	24	1.97
1580816--1580959	64	2.3	63	82	12	163	25	22	19	33	1.97
1590726--1590777	14	3.6	14	75	10	52	23	19	25	32	1.97
1591361--1591397	2	18.5	2	100	0	74	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593162--1593186	12	2.1	12	100	0	50	48	8	0	44	1.32
1595773--1595812	14	2.7	15	82	17	57	20	20	25	35	1.96
1602814--1602859	24	1.9	24	100	0	92	17	2	19	60	1.46
1605984--1606018	2	17.5	2	100	0	70	48	0	0	51	1.00
1606223--1606301	32	2.5	33	84	12	103	36	18	13	30	1.90
1608393--1608455	21	3.0	21	90	0	99	28	26	17	26	1.98
1616431--1616483	21	2.5	21	84	0	61	28	28	18	24	1.98
1618972--1619004	17	1.9	17	93	0	57	39	6	9	45	1.61
1619060--1619100	15	2.7	15	80	0	55	48	19	9	21	1.77
1624320--1624472	81	1.9	82	94	1	272	33	5	14	46	1.67
1627393--1627553	60	2.8	56	77	10	160	41	6	19	32	1.77
1633285--1633712	213	2.0	214	99	0	849	25	16	25	32	1.96
1634373--1634427	23	2.4	21	77	16	56	54	0	0	45	0.99
1634389--1634435	21	2.1	23	84	7	62	48	0	0	51	1.00
1635364--1635425	22	2.8	22	90	0	97	25	38	14	20	1.91
1635823--1635862	20	2.0	20	90	0	62	10	12	17	60	1.59
1637746--1637795	20	2.5	20	90	0	73	38	20	18	24	1.93
1637840--1637968	60	2.2	60	94	0	222	19	18	22	39	1.92
1637842--1637959	20	5.9	20	94	0	200	20	18	21	39	1.92
1639936--1639971	14	2.6	14	90	0	54	30	0	22	47	1.52
1640171--1640238	14	4.5	14	79	16	82	10	23	20	45	1.81
1640185--1640247	33	1.9	33	93	0	108	12	22	19	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1640230--1640318	20	4.4	20	90	2	135	17	22	24	34	1.96
1642749--1642802	24	2.2	24	93	0	90	40	20	18	20	1.91
1642749--1642816	24	2.8	24	84	0	64	38	20	17	23	1.93
1643645--1643711	20	3.3	20	87	0	98	23	19	23	32	1.97
1643644--1643731	40	2.2	40	85	4	115	25	19	21	34	1.96
1643727--1643773	21	2.2	20	85	10	67	36	17	25	21	1.94
1648236--1648274	3	12.3	3	89	10	60	33	0	0	66	0.92
1652230--1652283	2	27.5	2	96	3	101	50	0	0	50	1.00
1653624--1653657	17	2.0	17	88	0	50	73	2	2	20	1.09
1661529--1661562	16	2.1	16	94	0	59	44	11	23	20	1.84
1667362--1667391	12	2.5	12	94	0	51	30	10	10	50	1.69
1672216--1672246	1	31.0	1	93	0	53	96	0	3	0	0.21
1672239--1672302	28	2.3	28	76	15	71	60	4	20	14	1.51
1673479--1673517	9	4.4	9	93	6	71	56	23	0	20	1.42
1673483--1673516	17	2.0	17	100	0	68	58	17	0	23	1.38
1675772--1675832	21	2.9	20	90	4	86	13	24	36	26	1.92
1679685--1679724	21	1.9	21	85	10	55	35	10	2	52	1.48
1682942--1682971	12	2.5	12	94	0	51	30	10	10	50	1.69
1684990--1685041	21	2.5	21	83	0	68	32	21	7	38	1.82
1685435--1685565	54	2.4	54	84	3	165	29	19	17	34	1.94
1685549--1685600	20	2.6	21	78	6	54	30	26	11	30	1.92
1690665--1690775	23	4.9	23	82	10	131	28	23	22	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1690769--1690818	21	2.4	21	93	0	82	40	30	8	22	1.82
1691373--1691498	54	2.3	54	87	0	171	27	22	19	30	1.97
1691508--1691557	20	2.5	20	93	0	91	36	24	10	30	1.88
1710871--1710915	14	3.2	14	80	0	54	51	22	0	26	1.49
1710885--1710932	21	2.3	21	82	7	62	50	20	2	27	1.60
1711016--1711063	21	2.3	21	82	7	62	50	29	0	20	1.49
1712135--1712186	11	4.7	11	83	9	61	34	15	19	30	1.93
1713111--1713190	31	2.6	30	80	11	90	42	1	3	52	1.27
1713135--1713197	19	3.2	20	72	16	53	44	1	1	52	1.20
1713144--1713193	20	2.5	20	78	12	59	40	2	2	56	1.22
1713912--1713997	31	2.8	29	81	11	100	53	2	1	43	1.21
1718357--1718395	4	9.8	4	83	10	53	28	0	0	71	0.86
1718347--1718395	16	3.1	16	85	11	57	30	0	0	69	0.89
1718745--1718784	16	2.4	16	91	4	62	55	0	0	45	0.99
1721283--1721462	20	8.9	20	68	14	73	40	20	20	18	1.92
1721387--1721464	20	3.8	20	81	5	75	33	17	26	21	1.96
1721533--1721569	6	6.2	6	100	0	74	35	32	0	32	1.58
1721566--1721607	6	7.5	6	97	2	63	28	54	16	0	1.42
1721536--1721587	12	4.3	12	90	0	50	34	40	5	19	1.75
1721536--1721575	18	2.2	18	90	0	62	35	37	2	25	1.69
1721570--1721610	5	7.6	5	97	2	55	26	53	19	0	1.45
1721566--1721616	15	3.1	16	83	8	59	29	50	19	0	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1723048--1723137	46	2.0	46	90	0	144	38	14	17	28	1.89
1723048--1723150	46	2.2	46	87	0	143	38	12	17	31	1.87
1723048--1723137	23	3.9	23	86	0	126	38	14	17	28	1.89
1723308--1723347	13	3.1	13	96	0	71	10	15	0	75	1.05
1723572--1723632	25	2.5	25	75	12	65	44	4	4	45	1.46
1724903--1724933	12	2.6	12	94	0	53	9	19	48	22	1.78
1724931--1725005	33	2.3	34	84	13	95	49	0	0	50	1.00
1725068--1725150	36	2.3	35	85	6	112	16	38	13	31	1.87
1730142--1730240	23	4.3	23	80	12	98	17	25	23	34	1.96
1730177--1730249	22	3.2	23	79	13	80	15	28	24	31	1.95
1733132--1733207	36	2.1	37	82	7	93	32	1	18	47	1.57
1733167--1733201	15	2.2	17	90	10	56	34	0	17	48	1.47
1733234--1733274	2	21.0	2	90	5	66	46	2	0	51	1.14
1733407--1733451	15	3.0	15	100	0	90	40	6	20	33	1.78
1733465--1733492	8	3.5	8	100	0	56	39	0	25	35	1.56
1737630--1737659	15	2.0	15	93	0	51	43	6	20	30	1.77
1741294--1741318	2	12.5	2	100	0	50	52	0	0	48	1.00
1744616--1744724	35	3.1	35	93	0	182	33	24	30	11	1.91
1744811--1744877	12	5.7	12	70	22	52	37	23	17	20	1.94
1744801--1744877	23	3.3	22	82	10	91	37	22	18	22	1.94
1744802--1744892	47	1.9	48	84	2	121	38	21	17	21	1.93
1747339--1747403	18	3.6	18	81	8	78	13	15	46	24	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749388--1749479	35	2.6	35	87	0	121	35	25	26	13	1.92
1749562--1749632	23	3.0	23	87	4	97	38	21	14	26	1.91
1749559--1749648	24	3.8	24	85	2	101	41	21	12	25	1.87
1752079--1752108	13	2.4	12	89	10	51	16	23	43	16	1.87
1754329--1754425	51	1.9	51	95	0	176	26	10	30	31	1.90
1771469--1771494	3	8.7	3	100	0	52	34	0	0	65	0.93
1772782--1772830	19	2.5	20	83	6	64	48	0	2	48	1.12
1772948--1772998	26	1.9	27	88	4	77	39	0	0	60	0.97
1773244--1773334	47	2.0	46	80	8	105	43	3	5	47	1.42
1780643--1780957	83	3.8	83	90	2	465	33	19	21	26	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12