genome.fa.s8016.2.7.7.80.10.50.1000.8.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  8  of  25  ( 2971 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)
1703122--1703182	19	3.0	19	76	11	59	34	0	1	63	1.04
1704835--1704876	20	2.2	19	86	4	57	33	0	2	64	1.07
1704932--1704984	27	2.0	26	85	7	72	47	0	0	52	1.00
1710508--1710537	10	3.0	10	90	0	51	83	0	16	0	0.65
1710502--1710545	23	1.9	23	90	0	70	81	0	18	0	0.68
1710506--1710539	9	3.6	9	85	14	50	85	0	14	0	0.60
1710499--1710537	20	2.0	20	89	0	60	82	0	17	0	0.68
1715454--1715505	22	2.4	22	93	0	86	36	11	15	36	1.84
1715921--1716652	113	6.6	113	86	2	1050	37	13	19	28	1.90
1715937--1717668	225	7.8	226	93	4	2918	37	14	19	29	1.91
1716550--1716748	96	2.1	96	90	0	308	36	15	20	28	1.92
1716646--1717668	113	9.2	113	90	2	1565	36	14	19	29	1.91
1716646--1717668	226	4.6	226	94	2	1745	36	14	19	29	1.91
1718007--1718055	16	3.1	16	84	0	62	22	0	0	77	0.77
1718013--1718063	10	5.3	10	86	6	70	29	0	0	70	0.87
1718013--1718063	3	16.0	3	80	11	57	29	0	0	70	0.87
1719504--1719539	18	2.0	18	88	0	54	33	0	0	66	0.92
1719618--1719655	20	1.9	20	89	10	60	42	0	0	57	0.98
1719590--1719651	26	2.4	25	82	12	65	48	0	0	51	1.00
1721195--1721335	70	2.0	71	98	1	275	48	10	8	32	1.68
1723360--1723408	19	2.6	19	84	9	57	57	10	0	32	1.32
1724217--1724269	21	2.7	19	82	5	61	13	24	5	56	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1724235--1724270	19	1.9	18	94	5	63	11	25	8	55	1.62
1724241--1724285	19	2.4	19	85	7	56	13	28	6	51	1.66
1725474--1725854	180	2.1	181	88	6	571	43	3	7	46	1.47
1726631--1726666	16	2.2	17	90	5	56	63	0	16	19	1.30
1729188--1729295	33	3.3	33	73	7	94	11	13	25	49	1.76
1735799--1735823	2	12.5	2	100	0	50	52	0	48	0	1.00
1736563--1736824	131	2.0	131	100	0	524	32	12	12	41	1.81
1738140--1738204	24	2.8	24	73	19	64	26	26	26	21	2.00
1744126--1744170	21	2.1	21	84	8	56	33	28	22	15	1.95
1744932--1745112	31	6.0	31	89	6	282	22	19	20	37	1.95
1744932--1745112	59	3.0	60	89	8	269	22	19	20	37	1.95
1748047--1748091	21	2.1	21	87	0	63	31	28	24	15	1.96
1748847--1749031	31	6.0	31	94	1	318	22	20	20	37	1.95
1751768--1751819	22	2.4	22	86	0	68	46	17	15	21	1.84
1756895--1757161	134	2.0	134	100	0	534	44	20	12	22	1.85
1761371--1761639	134	2.0	134	99	0	529	35	8	11	43	1.73
1763745--1763793	20	2.5	20	100	0	98	32	10	10	46	1.71
1766742--1766790	18	2.6	19	78	18	57	63	0	0	36	0.95
1766818--1766902	14	6.5	13	73	17	70	54	0	0	45	1.00
1766799--1766953	64	2.5	64	92	4	253	55	1	0	43	1.08
1766818--1766902	40	2.2	37	83	12	100	54	0	0	45	1.00
1766940--1766980	17	2.4	17	100	0	82	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1766920--1766975	22	2.4	24	88	8	89	64	0	0	35	0.94
1766932--1766982	12	4.4	12	78	14	54	66	0	0	33	0.92
1771287--1771325	21	1.9	21	89	5	62	41	17	17	23	1.91
1771333--1771402	19	3.5	20	81	16	83	32	22	11	32	1.90
1771354--1771402	19	2.4	21	90	10	84	34	22	10	32	1.88
1771582--1771620	16	2.6	15	84	11	53	28	5	0	66	1.12
1771985--1772032	25	1.9	25	95	0	87	39	2	20	37	1.65
1773949--1773984	18	2.0	18	88	0	54	55	19	5	19	1.62
1774319--1774403	20	4.2	20	76	0	98	23	21	21	34	1.97
1774319--1774403	40	2.1	40	86	0	116	23	21	21	34	1.97
1774466--1774610	64	2.3	64	93	2	247	50	17	0	31	1.52
1775991--1776108	21	5.6	21	80	0	119	23	19	34	22	1.96
1775991--1776111	42	2.9	42	83	0	161	24	19	33	21	1.97
1776381--1776537	63	2.5	62	82	8	167	31	33	14	21	1.93
1776494--1776533	21	1.9	21	94	0	71	35	32	17	15	1.91
1778214--1778251	20	1.9	20	100	0	76	52	18	18	10	1.73
1778213--1778257	20	2.2	20	88	0	72	53	15	17	13	1.73
1778608--1778665	22	2.7	22	81	5	75	24	8	43	24	1.82
1778788--1778890	20	5.2	20	85	3	111	17	11	28	42	1.84
1782575--1782707	51	2.6	51	79	3	160	26	10	14	48	1.75
1806010--1806043	9	3.9	9	84	7	52	61	2	0	35	1.11
1806006--1806044	17	2.4	17	95	4	71	61	5	0	33	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1807749--1807949	101	2.0	102	89	1	305	34	11	25	27	1.91
1810363--1810415	28	2.0	28	82	14	67	35	1	1	60	1.19
1815142--1815611	232	2.0	232	97	0	877	37	15	6	40	1.73
1816604--1816649	18	2.6	18	85	0	56	41	45	2	10	1.51
1817473--1817569	42	2.3	42	91	1	160	42	19	25	12	1.86
1825126--1825201	40	1.9	40	100	0	152	23	31	15	28	1.96
1826383--1826448	18	3.7	18	97	0	123	34	34	16	13	1.88
1827271--1827329	20	2.8	20	87	10	73	23	22	23	30	1.99
1834170--1834245	34	2.2	34	97	0	143	23	13	9	53	1.67
1834170--1834259	34	2.6	34	89	3	108	27	11	12	48	1.74
1834815--1834842	2	14.0	2	100	0	56	50	0	0	50	1.00
1840163--1840266	15	6.5	15	77	17	102	43	0	2	53	1.15
1840219--1840313	22	4.2	22	69	13	77	41	0	7	51	1.30
1840163--1840320	68	2.3	68	86	6	205	42	0	4	53	1.21
1840231--1840266	14	2.5	14	95	4	63	38	0	0	61	0.96
1840246--1840397	32	5.4	32	65	30	112	40	0	7	52	1.29
1840246--1840972	54	13.4	54	82	10	876	34	0	12	52	1.41
1840314--1840392	18	4.4	18	69	23	58	37	0	8	53	1.32
1840323--1840365	22	2.0	22	100	0	86	39	0	9	51	1.34
1840424--1840758	32	11.7	32	74	23	345	34	0	12	52	1.44
1840487--1840531	22	2.0	22	100	0	90	37	0	13	48	1.42
1840543--1840585	22	2.0	22	100	0	86	34	0	13	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1840289--1840892	86	7.3	83	76	15	516	34	0	12	52	1.42
1840785--1840891	32	3.7	30	72	24	104	34	0	11	54	1.36
1840818--1840860	22	2.0	22	90	0	68	39	0	9	51	1.34
1840863--1840910	22	2.4	18	73	23	51	33	0	14	52	1.42
1840872--1840962	22	4.0	22	79	10	110	30	0	17	51	1.46
1840987--1841076	31	2.9	31	96	0	162	43	10	6	40	1.64
1849965--1850014	14	3.6	14	81	5	66	58	14	2	26	1.47
1850777--1850813	19	1.9	20	94	5	67	54	8	0	37	1.30
1854359--1854412	24	2.2	24	90	0	81	20	16	20	42	1.89
1854587--1854616	3	10.0	3	92	0	51	66	0	30	3	1.07
1856856--1856938	20	4.2	20	90	3	123	33	25	20	20	1.97
1856948--1857011	34	1.9	34	93	3	112	42	18	25	14	1.88
1857194--1857230	14	2.6	14	86	0	56	48	21	0	29	1.50
1858609--1858720	42	2.7	42	76	5	111	23	18	38	19	1.93
1859182--1859285	19	5.3	20	83	6	124	38	21	18	22	1.93
1859182--1859290	39	2.8	39	87	1	148	38	21	19	21	1.94
1859311--1859405	40	2.5	37	85	11	115	20	20	20	40	1.92
1859331--1859417	20	4.3	20	95	0	147	20	19	21	37	1.94
1859410--1859448	14	2.8	14	100	0	78	12	7	23	56	1.62
1859425--1859497	33	2.2	33	82	0	83	12	19	21	46	1.82
1861391--1861460	20	3.5	20	90	0	86	41	25	17	15	1.89
1861431--1861503	33	2.2	34	82	7	87	41	26	19	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1861823--1861888	22	3.0	22	90	0	105	21	15	39	24	1.91
1862088--1862174	20	4.3	20	95	0	156	20	19	19	40	1.92
1862166--1862239	21	3.5	21	90	0	112	37	17	22	21	1.94
1862925--1862967	16	2.7	16	74	0	50	41	0	0	58	0.98
1862860--1863171	154	2.0	157	98	1	603	41	3	4	50	1.41
1863079--1863121	16	2.7	16	74	0	50	41	0	0	58	0.98
1863134--1863199	28	2.4	27	85	10	80	24	6	3	66	1.28
1863236--1863291	28	2.0	28	86	6	78	64	5	1	28	1.26
1863698--1863747	10	5.1	10	81	11	50	64	8	2	26	1.32
1867268--1867571	152	2.0	152	100	0	608	34	16	8	40	1.79

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