genome.fa.s8709.2.7.7.80.10.50.1000.8.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: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3030657

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

This is table  8  of  15  ( 1745 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)
1534416--1534453	20	1.9	20	94	0	67	31	34	15	18	1.92
1534473--1534582	45	2.5	45	84	8	147	26	24	20	29	1.99
1540253--1540334	23	3.6	22	78	8	94	25	26	24	23	2.00
1543035--1543128	45	2.1	46	84	9	122	31	23	18	26	1.97
1544912--1544945	12	2.7	13	86	9	52	44	8	5	41	1.60
1545285--1545440	65	2.4	65	88	3	226	28	22	17	31	1.97
1548540--1548618	2	39.5	2	97	0	131	46	49	3	0	1.19
1548618--1548655	2	19.0	2	100	0	76	50	0	0	50	1.00
1549240--1549281	20	2.1	20	86	0	57	57	19	4	19	1.58
1549341--1549404	33	1.9	33	96	0	119	31	26	17	25	1.97
1554391--1554527	74	1.9	74	85	1	195	26	13	15	45	1.82
1560946--1560984	20	2.0	20	94	0	69	38	7	17	35	1.79
1560949--1560992	20	2.2	20	87	0	61	36	6	18	38	1.77
1570260--1570300	17	2.3	18	84	16	59	41	7	0	51	1.30
1570251--1570355	41	2.4	43	81	10	117	43	7	0	48	1.31
1570591--1570683	21	4.6	20	78	4	96	38	18	24	18	1.92
1570588--1570683	41	2.3	41	98	0	183	39	17	23	18	1.92
1570591--1570683	20	4.6	20	78	4	96	38	18	24	18	1.92
1570610--1570744	41	3.3	41	81	6	123	37	20	21	20	1.94
1570672--1570766	20	4.7	20	80	2	91	34	24	17	23	1.96
1571242--1571279	20	1.9	20	88	0	58	13	15	21	50	1.78
1572599--1572643	18	2.5	18	85	0	63	26	42	15	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573116--1573182	20	3.4	20	81	2	73	38	23	22	14	1.92
1573195--1573243	18	2.7	18	83	3	71	8	16	26	48	1.73
1573206--1573328	20	6.7	19	76	12	105	13	19	24	43	1.86
1573195--1573328	39	3.6	37	71	18	111	12	18	25	43	1.85
1575176--1575211	14	2.6	14	90	0	54	30	0	22	47	1.52
1575328--1575427	14	5.8	19	78	21	123	47	18	22	13	1.82
1575299--1575415	51	2.3	52	89	1	182	45	19	22	12	1.84
1575348--1575427	33	2.4	33	100	0	160	47	18	21	12	1.81
1575446--1575503	20	2.9	20	92	0	89	18	22	20	37	1.94
1575862--1575897	14	2.6	14	90	0	54	30	0	22	47	1.52
1577136--1577194	24	2.5	24	82	0	73	28	16	18	35	1.93
1577369--1577393	12	2.1	12	100	0	50	72	0	28	0	0.86
1579689--1579786	19	5.7	19	67	22	81	43	18	24	13	1.85
1579689--1579782	33	2.8	33	96	0	170	43	18	24	13	1.86
1579945--1579981	14	2.6	14	91	0	65	45	24	0	29	1.53
1581337--1581403	21	3.2	21	68	4	55	19	20	35	23	1.95
1581337--1581459	42	2.9	41	80	7	113	22	17	36	22	1.95
1583467--1583565	33	3.0	33	89	1	144	39	26	23	11	1.88
1583442--1583607	20	9.1	19	73	16	127	43	22	21	12	1.86
1583603--1583647	19	2.4	19	92	0	72	8	17	26	46	1.78
1584201--1584294	20	4.7	20	77	2	80	23	17	24	35	1.95
1584283--1584378	41	2.3	41	98	0	147	18	23	17	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1584283--1584375	20	4.6	20	78	4	96	18	24	18	38	1.92
1592985--1593089	37	2.8	37	85	0	138	40	15	13	31	1.85
1593626--1593668	2	22.0	2	85	4	61	44	0	0	55	0.99
1593936--1593976	2	20.5	2	100	0	82	48	0	0	51	1.00
1593982--1594047	26	2.4	29	77	7	75	16	10	0	72	1.11
1594022--1594064	16	2.4	19	74	25	56	16	13	0	69	1.19
1594038--1594068	8	3.9	8	91	0	53	19	12	0	67	1.22
1594029--1594070	16	2.5	17	92	7	77	16	11	0	71	1.14
1598487--1598571	31	2.7	32	79	18	99	82	4	12	0	0.82
1598493--1598571	9	9.2	8	80	13	86	83	3	12	0	0.77
1598495--1598593	27	3.7	26	80	8	92	81	5	12	1	0.89
1598508--1598567	13	4.4	14	79	6	70	85	5	10	0	0.75
1598505--1598594	27	3.4	27	77	7	96	81	5	12	1	0.92
1598493--1598574	32	2.7	30	76	14	96	82	3	13	0	0.79
1598491--1598593	45	2.3	45	76	17	108	81	5	11	0	0.91
1599199--1599272	22	3.4	22	92	3	114	37	27	12	22	1.90
1600100--1601580	106	14.0	106	90	1	2181	33	24	18	23	1.96
1602311--1602407	37	2.6	37	88	0	149	40	16	11	31	1.84
1602885--1602980	23	4.3	23	69	19	69	32	3	3	61	1.27
1603119--1603207	29	2.8	31	76	13	92	24	3	5	66	1.29
1603180--1603215	18	1.9	19	88	5	56	30	5	0	63	1.17
1603252--1603282	2	15.5	2	100	0	62	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)
1603286--1603335	4	12.2	4	80	16	50	18	6	0	76	0.99
1603292--1603360	12	5.8	12	75	11	61	15	7	0	76	0.99
1603288--1603360	28	2.8	26	78	15	71	15	8	0	76	1.00
1604046--1604099	24	2.3	23	84	9	65	46	1	1	50	1.23
1604128--1604160	14	2.3	15	89	5	50	45	3	0	51	1.16
1604185--1604236	24	2.2	24	86	6	70	42	0	1	55	1.10
1610766--1610826	3	21.0	3	80	12	74	65	1	3	29	1.18
1612234--1612267	18	1.9	17	94	5	59	44	5	2	47	1.42
1612665--1614014	84	16.3	84	79	4	1326	25	19	24	31	1.98
1612673--1614014	249	5.4	249	92	0	2110	25	19	24	30	1.98
1616054--1616743	345	2.0	345	99	0	1353	32	16	19	31	1.94
1617306--1617339	14	2.4	14	85	14	52	76	5	2	14	1.09
1618359--1618410	3	18.0	3	77	15	56	65	1	3	28	1.21
1619818--1619851	18	1.9	17	94	5	59	44	5	2	47	1.42
1624496--1624556	20	3.3	18	76	14	54	13	6	4	75	1.16
1629008--1629051	20	2.1	21	84	12	56	25	13	4	56	1.56
1636705--1636737	15	2.2	15	94	0	57	54	15	24	6	1.63
1640032--1640058	12	2.2	12	100	0	54	37	18	29	14	1.91
1649546--1649600	27	2.0	27	82	0	65	30	27	21	20	1.98
1649884--1649926	15	3.0	13	76	23	50	53	0	2	44	1.13
1650200--1650226	2	13.5	2	100	0	54	48	0	0	51	1.00
1651071--1651111	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1659033--1659157	54	2.3	54	78	4	124	53	4	1	40	1.29
1664649--1664777	63	2.0	63	92	0	213	27	24	23	24	2.00
1664745--1664834	45	2.0	45	95	0	162	23	25	26	24	2.00
1664685--1664884	108	1.9	108	86	4	287	26	24	25	23	2.00
1667326--1667359	18	1.9	18	88	5	52	26	29	26	17	1.98
1668035--1668075	22	1.9	21	90	5	64	26	0	2	70	0.99
1679072--1679146	36	2.1	36	92	0	123	38	10	17	33	1.84
1683850--1683918	30	2.2	30	82	15	86	36	7	15	40	1.76
1683859--1683918	29	2.0	30	90	6	95	35	8	15	41	1.77
1683998--1684095	21	4.8	19	84	9	106	23	34	20	21	1.96
1684040--1684081	22	1.9	22	90	0	66	28	28	21	21	1.99
1684135--1684177	21	2.0	21	86	8	61	23	25	27	23	2.00
1684272--1684311	20	1.9	22	90	10	66	37	40	10	12	1.77
1686277--1686330	26	2.2	24	83	12	65	38	9	11	40	1.73
1686911--1686988	21	3.7	22	80	14	85	26	33	17	21	1.96
1687418--1687487	34	2.1	32	86	5	95	31	14	28	25	1.95
1689323--1689398	35	2.2	35	85	0	107	44	21	1	32	1.60
1689393--1689468	36	2.1	36	82	2	100	46	0	10	43	1.38
1689954--1690128	60	2.9	60	82	5	194	36	17	14	32	1.89
1695677--1695721	23	2.0	23	90	0	72	48	2	11	37	1.51
1704589--1704671	29	2.8	29	92	1	139	42	13	13	31	1.82
1707428--1707466	15	2.6	15	95	0	69	38	7	30	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711448--1711487	20	2.0	20	85	9	55	20	32	25	22	1.98
1717659--1717688	15	2.0	15	93	0	51	13	0	30	56	1.37
1717687--1717737	24	2.0	24	85	7	66	19	43	11	25	1.85
1718962--1719044	29	2.8	29	92	1	139	42	13	13	31	1.82
1719279--1719318	16	2.5	16	95	0	71	35	27	17	20	1.95
1722609--1722660	27	1.9	27	92	0	86	17	7	30	44	1.77
1722941--1722979	21	1.9	20	85	15	53	61	2	15	20	1.45
1729090--1729114	11	2.3	11	100	0	50	16	8	8	68	1.38
1738734--1738782	23	2.1	23	85	7	64	26	2	14	57	1.48
1743208--1743251	20	2.1	21	91	4	72	54	0	9	36	1.32

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