genome.fa.s8007.2.7.7.80.10.50.1000.10.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: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1953294

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

This is table  10  of  11  ( 1251 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)
1680136--1680209	22	3.3	22	81	14	73	27	1	4	67	1.16
1680643--1680719	31	2.5	31	84	0	100	32	10	28	28	1.90
1681441--1681500	29	2.1	29	83	0	75	31	1	26	40	1.66
1682560--1682664	37	2.8	37	86	0	138	41	15	11	31	1.82
1683118--1683144	2	13.5	2	100	0	54	48	0	0	51	1.00
1683220--1683263	2	22.5	2	95	4	81	47	0	0	52	1.00
1683217--1683269	10	5.7	9	93	6	72	45	0	0	54	0.99
1683483--1683535	21	2.5	20	77	17	54	28	1	1	67	1.11
1684798--1684834	19	1.9	19	89	10	58	8	24	0	67	1.17
1688255--1688322	23	2.8	24	77	16	70	77	7	11	2	1.07
1689899--1691167	106	12.0	106	91	0	1910	34	25	17	22	1.96
1691924--1692028	37	2.8	37	86	0	147	40	14	14	31	1.86
1692551--1692693	39	3.6	38	72	13	96	30	5	1	62	1.27
1692620--1692650	11	2.8	11	90	0	53	25	3	0	70	1.02
1692805--1692836	2	16.5	2	93	6	57	46	0	0	53	1.00
1692965--1693035	25	2.9	25	79	10	76	22	7	2	67	1.28
1694141--1694177	19	1.9	19	89	10	58	8	24	0	67	1.17
1697598--1697663	23	2.8	24	84	8	75	80	4	13	1	0.94
1697600--1697676	10	7.5	10	70	18	52	81	3	11	2	0.92
1697614--1697654	10	4.1	10	90	6	57	82	2	14	0	0.76
1697623--1697676	13	4.2	13	81	13	58	83	3	11	1	0.85
1697623--1697670	23	2.1	22	84	3	60	83	4	10	2	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1698499--1698558	24	2.7	21	75	14	57	33	13	5	48	1.64
1699223--1700529	106	12.3	106	90	0	1954	34	25	18	22	1.96
1701280--1701383	37	2.8	37	86	0	136	40	14	13	31	1.85
1704082--1704198	60	2.0	60	87	3	173	41	14	17	26	1.88
1704145--1704285	36	3.8	36	83	5	129	40	14	19	25	1.89
1704157--1704221	21	3.4	20	66	25	59	36	12	23	27	1.90
1704212--1704415	39	5.2	39	92	0	255	36	14	18	30	1.91
1705329--1705823	136	3.7	136	88	0	699	27	22	16	33	1.95
1706077--1706237	61	2.6	61	90	1	259	39	12	17	30	1.86
1706569--1706787	40	5.5	40	96	0	402	40	11	17	29	1.86
1706701--1706769	23	3.3	23	61	23	60	39	14	14	31	1.86
1709012--1709083	1	72.0	1	76	0	54	1	5	6	86	0.77
1709031--1709082	15	3.9	14	83	14	65	0	5	9	84	0.77
1709012--1709083	18	3.8	19	80	18	80	1	5	6	86	0.77
1710558--1710627	2	35.0	2	97	0	131	50	1	0	48	1.09
1717023--1717070	18	2.7	17	79	17	53	16	10	2	70	1.24
1717901--1717925	13	1.9	13	100	0	50	72	0	20	8	1.10
1735543--1735598	20	2.7	21	75	10	62	12	23	37	26	1.90
1742208--1742291	34	2.5	33	81	12	91	61	13	2	22	1.43
1742204--1742280	34	2.2	34	84	11	95	61	15	1	22	1.42
1744577--1744609	11	3.1	11	82	8	50	72	0	0	27	0.85
1747720--1747744	3	8.3	3	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1748398--1748538	60	2.4	59	81	2	147	37	4	21	36	1.73
1749410--1749465	18	2.9	18	71	19	51	48	0	0	51	1.00
1749463--1749509	22	2.1	22	96	0	85	48	0	2	48	1.13
1749435--1749521	31	2.9	29	83	11	95	49	0	1	49	1.08
1749469--1749546	22	3.3	24	84	7	90	50	0	1	48	1.09
1751094--1751133	14	2.9	14	92	0	62	42	25	2	30	1.68
1751556--1751611	26	2.2	25	93	3	94	7	50	0	42	1.30
1752187--1752239	26	2.0	26	96	0	97	35	22	11	30	1.89
1756037--1756102	24	2.8	24	90	0	96	40	9	19	30	1.83
1756037--1756105	12	5.8	12	73	0	57	40	8	20	30	1.82
1756214--1756283	33	2.1	33	89	0	104	7	24	18	50	1.72
1757863--1757907	23	2.0	23	82	8	56	20	13	13	53	1.72
1759310--1759415	45	2.3	44	84	9	133	32	18	18	30	1.96
1759380--1759415	18	2.1	18	89	5	56	33	22	19	25	1.97
1766797--1766840	21	2.1	21	82	0	52	9	38	15	36	1.80
1767187--1767246	30	2.0	30	81	9	70	20	3	20	56	1.56
1767914--1768039	65	2.0	63	83	10	157	32	22	17	27	1.96
1767983--1768086	45	2.3	45	85	8	131	30	21	18	29	1.97
1770824--1770897	36	2.0	38	92	5	125	32	10	10	45	1.74
1775317--1775364	14	3.7	14	71	21	50	18	12	18	50	1.78
1775312--1775386	24	3.1	24	80	3	89	17	12	17	53	1.73
1776718--1776762	23	2.0	23	90	0	72	28	26	26	17	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777262--1777306	2	23.0	2	90	4	74	51	0	0	48	1.00
1779791--1779819	11	2.6	11	100	0	58	24	20	27	27	1.99
1780050--1780127	16	4.9	16	90	0	111	7	17	24	50	1.73
1780193--1780223	16	1.9	16	100	0	62	6	12	22	58	1.58
1783042--1783095	21	2.6	21	93	0	90	29	27	22	20	1.98
1783104--1783175	21	3.4	21	92	0	117	22	22	27	27	1.99
1783222--1783319	42	2.3	42	89	0	151	24	18	20	36	1.94
1783246--1783308	21	3.0	21	69	17	67	22	19	20	38	1.94
1783254--1783320	21	3.3	19	71	15	62	25	19	20	34	1.96
1783415--1783475	6	10.5	6	98	1	108	31	52	16	0	1.44
1784291--1784334	21	2.1	21	86	0	61	29	27	27	15	1.96
1784360--1784404	22	2.0	22	86	4	63	31	33	26	8	1.87
1784827--1784894	21	3.2	21	68	15	68	39	5	16	38	1.73
1784818--1784897	42	2.0	40	95	5	142	41	5	17	36	1.71
1785349--1785566	103	2.1	103	95	0	391	26	13	22	37	1.91
1785582--1785642	23	2.7	23	89	0	95	19	26	27	26	1.99
1789378--1789421	21	2.1	21	91	0	70	29	25	27	18	1.98
1789448--1789492	22	2.0	22	86	4	63	31	33	26	8	1.87
1790598--1790815	103	2.1	103	95	1	393	26	13	22	37	1.92
1790831--1790891	23	2.7	23	89	0	95	19	26	27	26	1.99
1794630--1794673	21	2.1	21	86	0	61	29	27	27	15	1.96
1794700--1794744	22	2.0	22	86	4	63	31	33	26	8	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1795850--1796170	103	3.1	103	97	0	597	26	13	23	36	1.92
1796186--1796246	23	2.7	23	89	0	95	19	26	27	26	1.99
1797315--1797357	5	8.0	5	97	2	59	0	18	55	25	1.42
1797454--1797563	21	5.3	21	72	12	111	38	20	19	21	1.94
1797450--1797586	42	3.3	41	91	2	213	36	21	19	21	1.95
1797483--1797653	21	8.1	21	73	13	120	35	22	20	21	1.96
1797515--1797653	63	2.2	63	90	0	215	35	23	20	21	1.96
1797450--1797653	42	4.9	42	84	7	149	36	21	20	22	1.95
1797922--1797955	2	17.0	2	100	0	68	50	0	0	50	1.00
1798009--1798043	15	2.3	15	90	9	54	57	2	8	31	1.44
1800314--1800342	11	2.7	11	94	5	51	93	0	6	0	0.36
1801927--1802000	37	2.0	37	84	7	98	47	4	1	47	1.29
1802614--1802669	24	2.3	25	79	14	64	46	0	3	50	1.19
1807620--1807644	2	12.5	2	100	0	50	52	0	0	48	1.00
1814759--1814840	29	2.7	30	75	7	87	54	7	9	28	1.59
1814837--1814916	28	2.8	29	81	9	92	58	5	2	33	1.33
1814913--1814977	28	2.3	29	86	2	87	64	9	1	24	1.31
1814933--1815001	29	2.4	28	81	11	77	68	2	0	28	1.04
1822825--1822891	34	1.9	34	82	14	84	22	11	17	47	1.80
1830484--1830513	2	15.0	2	100	0	60	50	0	0	50	1.00
1832176--1832214	15	2.5	15	91	4	60	28	5	0	66	1.12
1833014--1833063	24	2.1	23	85	3	64	34	2	2	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1834668--1834720	14	3.7	14	85	5	70	22	13	9	54	1.67
1840291--1840513	114	2.0	114	92	0	374	33	14	20	30	1.93
1843040--1843223	22	8.4	22	90	0	287	33	13	11	41	1.81
1843038--1843223	66	2.8	66	98	0	354	32	13	11	41	1.82
1843901--1844082	76	2.4	76	92	0	292	26	20	19	34	1.96
1844093--1844508	111	3.8	113	93	3	704	36	15	20	27	1.93
1845791--1845828	4	9.8	4	82	5	51	28	2	0	68	1.03
1846859--1846905	23	2.1	23	84	4	60	74	4	2	19	1.09
1847972--1848018	22	2.1	22	96	0	85	46	19	14	19	1.84
1850527--1850552	2	13.0	2	100	0	52	50	0	0	50	1.00

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