genome.fa.s8747.2.7.7.80.10.50.1000.7.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  7  of  51  ( 6054 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)
1500606--1500668	26	2.4	26	76	10	67	44	1	4	49	1.33
1501381--1501771	181	2.2	179	80	9	404	36	10	9	42	1.73
1505186--1505234	22	2.5	20	78	18	57	40	14	20	24	1.89
1505993--1506095	53	1.9	53	86	0	143	30	17	14	37	1.90
1512447--1512488	22	1.9	22	90	0	66	38	14	28	19	1.90
1512821--1513098	138	2.0	136	86	2	378	26	14	16	42	1.87
1513042--1513153	53	2.1	53	88	0	161	25	16	17	39	1.91
1522467--1522964	245	2.0	250	96	3	918	26	18	23	30	1.98
1527410--1527438	12	2.4	12	100	0	58	34	0	6	58	1.25
1531875--1532048	87	2.0	87	100	0	348	33	13	12	40	1.83
1533224--1533248	13	1.9	13	100	0	50	48	20	8	24	1.76
1547533--1547582	27	1.9	25	84	8	64	30	10	14	46	1.77
1550391--1550583	2	100.5	2	70	18	99	46	4	4	44	1.45
1551732--1551801	35	2.0	35	100	0	140	17	14	8	60	1.58
1552030--1552063	2	17.0	2	100	0	68	50	0	0	50	1.00
1556571--1556642	24	3.0	24	75	0	72	26	9	16	47	1.78
1556804--1556836	2	16.5	2	100	0	66	48	0	0	51	1.00
1561283--1561344	24	2.6	24	86	0	88	22	16	16	45	1.85
1566914--1566943	2	15.0	2	100	0	60	50	0	0	50	1.00
1573375--1573412	17	2.2	17	90	0	58	50	15	15	18	1.79
1581353--1581435	42	1.9	43	82	4	105	49	6	3	40	1.45
1591879--1591932	20	2.7	20	82	8	65	29	12	27	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594623--1594676	27	2.0	28	88	3	83	9	40	3	46	1.54
1604784--1604839	26	2.2	25	96	3	103	50	7	1	41	1.40
1605292--1605440	46	3.2	46	75	2	156	25	18	12	43	1.85
1611999--1612194	46	4.3	46	80	6	218	24	20	11	43	1.85
1611999--1612194	92	2.1	92	83	3	252	24	20	11	43	1.85
1642682--1642736	23	2.4	23	96	0	101	50	0	27	21	1.49
1643486--1643574	44	2.0	43	89	2	133	26	22	11	39	1.88
1655953--1656066	57	2.0	57	98	0	219	40	8	11	39	1.72
1658672--1658743	33	2.2	33	82	5	83	34	13	26	25	1.93
1660837--1660886	21	2.4	21	93	0	82	24	32	14	30	1.94
1663789--1663840	25	2.1	25	100	0	104	50	26	11	11	1.73
1667862--1667900	20	2.0	20	89	0	60	30	10	20	38	1.86
1669400--1669565	46	3.6	46	77	4	154	26	18	11	43	1.83
1669572--1670258	81	8.5	81	86	1	903	31	19	11	37	1.87
1670752--1670799	18	2.5	19	86	6	62	29	22	12	35	1.91
1670786--1670829	21	2.2	19	88	8	61	34	22	11	31	1.90
1677025--1677191	46	3.6	46	84	0	208	22	18	14	44	1.86
1677186--1677708	81	6.5	81	85	1	674	32	18	11	37	1.86
1680495--1681041	273	2.0	274	99	0	1087	34	22	14	28	1.94
1684810--1684854	22	2.0	23	91	8	74	53	22	2	22	1.57
1686820--1686880	20	2.9	21	87	7	79	18	26	34	21	1.96
1687917--1687975	27	2.2	27	100	0	118	18	16	18	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693823--1693866	21	2.2	20	92	8	72	50	4	11	34	1.59
1697974--1698100	66	1.9	66	85	0	173	36	21	22	20	1.95
1709613--1709893	138	2.0	137	84	3	359	40	16	11	31	1.84
1712243--1712289	17	2.7	18	83	12	62	34	17	10	38	1.84
1715849--1715895	17	2.8	17	96	0	85	34	10	6	48	1.63
1722594--1722630	2	18.5	2	100	0	74	48	0	0	51	1.00
1724005--1724039	2	17.5	2	100	0	70	51	0	0	48	1.00
1729529--1729570	20	2.1	20	86	0	57	28	26	11	33	1.92
1734760--1734796	19	1.9	19	89	10	58	29	10	27	32	1.90
1745568--1745608	16	2.6	16	84	3	57	39	14	34	12	1.84
1755633--1755676	2	22.0	2	100	0	88	50	0	0	50	1.00
1756724--1756782	31	2.0	29	83	12	75	50	0	1	47	1.11
1756747--1756983	120	2.0	116	84	4	305	45	7	8	38	1.62
1758042--1758076	14	2.5	14	80	0	52	0	20	2	77	0.90
1758475--1758544	3	24.0	3	80	11	74	62	1	1	34	1.13
1758899--1759308	113	3.6	113	86	1	561	29	18	15	37	1.91
1759303--1759525	76	2.9	76	95	0	410	35	21	18	24	1.96
1759781--1759830	20	2.5	20	96	3	93	24	18	6	52	1.67
1760222--1760273	22	2.4	22	86	0	68	38	13	9	38	1.77
1761700--1761773	36	2.1	34	85	5	94	32	21	13	32	1.92
1761707--1761773	35	1.9	35	87	6	100	32	23	11	31	1.91
1764929--1765012	17	5.2	16	74	7	62	5	20	0	73	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764910--1764984	7	10.4	7	70	23	50	2	25	0	72	0.98
1764929--1764999	24	3.0	22	84	15	88	4	22	0	73	1.01
1764928--1765012	41	2.1	41	93	0	143	5	20	0	74	1.03
1769726--1769790	22	3.0	21	84	8	87	73	0	1	24	0.91
1770382--1770423	20	2.2	19	86	4	57	64	2	0	33	1.07
1770295--1770527	120	2.0	120	82	5	294	46	8	7	38	1.61
1770552--1770610	24	2.3	27	82	8	70	54	0	0	45	0.99
1771429--1771458	12	2.5	12	94	0	51	13	23	10	53	1.69
1772033--1772093	3	21.0	3	81	6	72	63	0	1	34	1.04
1778801--1779299	81	6.2	81	83	3	619	30	21	10	36	1.88
1778822--1779297	243	2.0	242	87	3	688	30	21	10	36	1.88
1779641--1779824	46	4.0	46	84	6	248	21	24	10	44	1.83
1779741--1779890	66	2.3	66	90	2	230	22	26	9	42	1.83
1780278--1780332	22	2.7	21	76	20	62	29	21	16	32	1.95
1784054--1784528	81	6.0	81	84	3	633	31	22	11	33	1.90
1784107--1784528	155	2.7	157	86	3	580	31	23	11	33	1.90
1784055--1784497	236	1.9	236	87	2	658	31	22	11	34	1.90
1784891--1785070	46	3.9	46	84	0	243	20	24	11	43	1.84
1784991--1785136	66	2.2	66	95	0	256	20	26	10	42	1.85
1785543--1785592	20	2.5	20	96	0	91	24	32	16	28	1.96
1785559--1785626	20	3.4	19	80	13	64	27	25	16	30	1.96
1801918--1801979	16	4.1	16	72	16	60	22	16	22	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1805696--1805729	2	17.0	2	100	0	68	50	0	0	50	1.00
1805749--1805841	21	4.6	20	73	18	77	43	7	3	46	1.48
1805797--1805875	22	3.4	22	75	13	68	41	6	3	48	1.47
1805770--1806026	39	6.5	39	71	17	144	40	8	5	45	1.57
1805737--1805913	87	2.1	85	85	8	234	42	7	5	44	1.55
1805808--1805875	26	2.8	24	79	12	77	42	5	2	48	1.42
1805844--1806050	38	5.6	36	75	17	133	41	9	4	44	1.57
1805843--1806049	39	5.7	33	71	20	108	41	9	4	44	1.57
1805843--1806053	75	2.8	73	80	12	227	40	9	4	45	1.57
1805846--1806050	37	5.5	37	73	20	112	41	9	4	44	1.58
1806045--1806077	12	2.8	12	95	0	57	42	3	0	54	1.15
1813789--1813958	73	2.3	72	83	6	200	31	2	9	56	1.44
1818970--1818999	15	2.0	15	93	0	51	60	13	16	10	1.59
1820609--1820781	62	2.6	70	78	16	174	28	1	11	58	1.43
1822399--1822449	21	2.6	18	82	14	57	25	0	3	70	1.04
1832123--1832214	48	1.9	48	88	4	141	19	11	17	51	1.76
1832151--1832212	12	5.2	12	71	7	54	14	11	19	54	1.69
1832120--1832216	24	4.0	24	79	2	97	20	11	17	50	1.76
1845245--1845290	24	1.9	24	81	0	56	41	4	4	50	1.42
1849862--1849900	21	1.9	21	89	5	62	56	2	7	33	1.41
1853776--1853812	19	1.9	19	94	0	65	24	32	27	16	1.96
1853776--1853818	19	2.3	19	88	8	61	20	30	32	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1858442--1858481	15	2.7	15	84	7	55	22	22	22	32	1.98
1862097--1862142	3	15.0	3	82	13	58	60	2	0	36	1.09
1862148--1862179	2	16.0	2	100	0	64	50	0	0	50	1.00
1862199--1862289	21	4.6	20	74	18	73	42	5	4	47	1.46
1862230--1862262	17	1.9	17	93	0	57	39	6	6	48	1.53
1862268--1862320	26	2.0	26	85	10	72	37	3	5	52	1.43
1862315--1862341	14	1.9	14	100	0	54	29	7	11	51	1.64
1862292--1862500	75	2.8	75	82	7	223	42	8	3	45	1.51
1862293--1862501	36	5.6	39	74	13	149	42	8	3	45	1.51
1862494--1862527	14	2.4	14	95	0	59	44	2	0	52	1.16

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51