genome.fa.s9001.2.7.7.80.10.50.1000.8.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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   

This is table  8  of  24  ( 2777 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)
1600011--1600240	20	11.5	20	82	3	203	20	17	24	37	1.94
1600227--1600309	21	4.0	21	73	6	78	25	16	24	33	1.96
1600207--1600305	42	2.4	43	77	11	100	21	18	23	37	1.94
1601046--1601084	14	2.7	14	88	4	60	20	0	23	56	1.42
1605379--1605405	2	13.5	2	100	0	54	51	0	0	48	1.00
1607064--1607101	3	13.0	3	88	5	60	63	0	0	36	0.95
1607063--1607100	20	1.9	20	100	0	76	60	0	0	39	0.97
1607250--1607776	116	4.5	116	89	1	757	27	20	21	30	1.98
1607707--1607817	44	2.5	43	91	2	168	25	20	25	28	1.99
1608481--1608557	22	3.5	22	86	13	106	42	10	10	36	1.73
1615993--1616017	2	12.5	2	100	0	50	48	0	0	52	1.00
1616171--1616211	2	20.5	2	94	0	73	48	0	0	51	1.00
1617668--1617708	3	14.0	3	89	5	57	60	0	0	39	0.96
1625452--1625549	32	3.0	33	94	2	164	31	7	15	45	1.73
1625535--1625587	13	4.2	13	74	13	56	35	3	11	49	1.57
1625994--1626037	17	2.8	15	77	12	52	31	13	11	43	1.80
1626001--1626034	18	1.9	18	94	5	61	38	11	11	38	1.79
1626128--1626159	16	2.0	17	88	11	50	43	21	21	12	1.86
1627345--1627458	57	2.0	57	100	0	228	35	17	19	28	1.94
1630855--1630987	7	19.3	7	74	18	77	41	2	8	48	1.46
1630858--1631104	2	133.0	2	65	25	98	41	1	5	51	1.35
1630895--1630955	13	4.7	13	76	11	54	44	0	3	52	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1630960--1631104	45	3.1	45	84	13	172	41	1	4	53	1.29
1630889--1631116	5	45.4	5	70	21	115	41	1	3	53	1.30
1630889--1631116	22	9.7	23	72	19	161	41	1	3	53	1.30
1635598--1635634	17	2.1	17	95	5	65	78	0	0	21	0.75
1638508--1638578	36	1.9	37	86	13	103	18	14	16	50	1.78
1647752--1647780	14	2.0	15	93	6	51	65	0	20	13	1.26
1650292--1650331	21	1.9	21	85	10	55	60	0	2	37	1.11
1650899--1650942	16	2.6	17	85	3	54	45	0	4	50	1.22
1651271--1651343	29	2.6	27	87	8	101	42	10	8	38	1.70
1651268--1651344	28	2.7	30	88	7	108	41	11	7	38	1.71
1651202--1651446	131	1.9	130	92	2	411	42	12	11	34	1.78
1652432--1652458	5	5.4	5	100	0	54	18	0	81	0	0.69
1652774--1652904	48	2.8	47	82	9	158	42	14	4	38	1.66
1661275--1661321	20	2.3	20	92	0	76	34	19	19	27	1.96
1662027--1662092	22	3.0	22	93	0	105	25	18	22	33	1.97
1662400--1662425	2	13.0	2	100	0	52	50	0	0	50	1.00
1663215--1663246	2	16.0	2	100	0	64	50	0	0	50	1.00
1666722--1666789	22	3.1	22	95	0	127	23	22	22	32	1.98
1668270--1668329	26	2.3	26	94	0	102	33	21	13	31	1.92
1671512--1671580	17	3.9	16	75	21	50	23	11	17	47	1.80
1673085--1673116	3	10.7	3	100	0	64	34	0	0	65	0.93
1676402--1676477	24	3.2	24	74	10	75	17	9	15	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1677643--1677717	26	2.9	26	93	0	132	34	20	16	29	1.94
1682496--1682528	6	5.5	6	100	0	66	18	0	36	45	1.49
1682637--1682695	29	2.0	29	83	0	73	38	22	8	30	1.83
1682815--1682927	35	3.2	34	87	5	163	42	22	0	34	1.60
1683939--1684012	35	2.1	35	87	5	105	35	1	20	43	1.60
1684459--1684535	20	3.8	20	80	0	100	40	24	16	18	1.91
1684414--1684538	40	3.1	42	79	8	109	33	24	16	26	1.95
1684460--1684550	40	2.3	39	86	1	119	38	23	16	21	1.93
1685295--1685328	12	2.8	12	90	0	50	55	29	0	14	1.40
1685440--1685507	24	2.8	24	86	0	91	27	19	16	36	1.93
1687837--1687882	20	2.3	20	92	0	74	41	26	17	15	1.88
1688021--1688070	25	2.0	25	88	0	73	30	6	20	44	1.75
1688457--1688493	18	2.1	18	89	0	56	32	5	10	51	1.60
1688449--1688501	24	2.2	24	86	0	70	35	3	13	47	1.61
1688804--1688890	39	2.2	39	95	0	156	48	19	14	17	1.81
1689066--1689115	20	2.5	20	87	6	66	42	22	20	16	1.89
1689154--1689206	20	2.7	20	93	0	88	18	16	20	43	1.88
1689313--1689366	14	3.9	14	82	0	72	48	18	0	33	1.49
1690796--1690891	21	4.6	21	71	8	79	23	18	34	22	1.96
1690796--1690891	42	2.3	42	80	7	113	23	18	34	22	1.96
1693126--1693153	13	2.2	13	100	0	56	78	14	7	0	0.95
1693353--1693400	22	2.2	22	92	0	78	22	14	41	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693531--1693655	20	6.2	20	77	7	137	20	16	20	42	1.89
1693531--1693655	40	3.1	40	79	8	155	20	16	20	42	1.89
1693645--1693716	20	3.5	20	77	19	69	26	9	27	36	1.88
1695878--1695917	10	4.0	10	86	0	53	27	32	0	40	1.57
1695964--1695997	9	3.9	9	84	7	52	35	0	2	61	1.11
1695963--1696001	17	2.4	17	95	4	71	33	0	5	61	1.18
1698079--1698124	9	5.1	9	80	19	60	39	17	43	0	1.49
1698079--1698124	18	2.6	18	100	0	92	39	17	43	0	1.49
1698260--1698306	13	3.6	13	82	0	58	17	2	12	68	1.31
1698327--1698402	33	2.3	34	82	11	86	23	1	14	60	1.42
1704432--1704473	20	2.1	20	86	8	59	50	0	0	50	1.00
1704442--1704504	23	2.6	24	77	7	74	44	0	0	55	0.99
1704458--1704509	20	2.4	21	75	12	52	42	0	0	57	0.98
1704556--1704656	41	2.6	38	82	14	127	51	0	1	45	1.19
1704569--1704648	41	2.0	40	92	7	135	52	0	2	45	1.14
1704579--1704672	41	2.2	41	84	5	116	54	0	2	43	1.12
1705271--1705785	256	2.0	255	98	0	985	42	14	7	35	1.73
1705988--1706038	24	2.2	23	82	10	59	0	54	3	41	1.19
1706995--1707106	35	3.2	34	82	7	127	41	19	0	37	1.58
1708125--1708237	35	3.2	34	88	5	163	33	0	23	42	1.60
1708896--1708944	2	26.0	2	84	12	68	46	0	2	51	1.12
1708896--1708947	26	2.0	26	88	7	79	46	0	1	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708896--1708947	24	2.1	24	89	7	77	46	0	1	51	1.12
1709914--1709978	19	3.5	19	72	14	64	23	6	0	70	1.09
1709958--1710040	6	13.7	6	74	12	62	24	1	1	73	0.97
1709959--1710036	3	25.7	3	73	12	52	24	1	1	73	0.99
1709957--1710030	19	3.9	19	74	12	64	25	1	1	71	1.02
1713753--1714936	106	11.2	106	93	0	1956	34	25	17	22	1.96
1714721--1715204	264	1.8	264	88	0	745	32	24	19	23	1.97
1714985--1715179	106	1.8	106	89	0	309	35	24	15	24	1.94
1714985--1715201	106	2.0	106	87	0	308	34	23	18	23	1.96
1715951--1715992	2	22.0	2	85	9	61	47	0	2	50	1.14
1716958--1717085	57	2.2	57	82	9	145	22	3	2	71	1.14
1717048--1717085	14	2.5	15	83	12	51	21	2	0	76	0.91
1717015--1717085	27	2.5	27	80	15	81	25	1	1	71	1.02
1718514--1718562	9	4.9	10	81	16	57	48	10	0	40	1.37
1718511--1718550	12	3.6	12	87	9	50	50	10	0	40	1.36
1718514--1718562	19	2.5	20	83	12	57	48	10	0	40	1.37
1720346--1720416	35	2.1	34	86	2	97	39	12	9	38	1.77
1722200--1722250	20	2.5	20	100	0	102	41	11	25	21	1.87
1722669--1723218	54	10.2	53	87	3	625	33	13	16	37	1.87
1722667--1723192	108	4.9	108	89	0	703	33	12	16	38	1.86
1722669--1723162	162	3.0	162	88	0	736	33	12	15	38	1.86
1727947--1728443	54	9.2	54	86	0	564	31	14	16	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1727942--1728416	162	2.9	162	87	0	626	32	13	16	37	1.88
1731501--1731572	22	3.1	22	78	9	65	50	0	0	50	1.00
1731512--1731587	26	3.0	26	74	11	68	52	1	0	46	1.08
1734780--1735815	138	7.5	138	90	0	1572	23	19	22	34	1.96
1736071--1736101	14	2.2	14	94	0	53	29	0	12	58	1.35
1736222--1736294	34	2.1	34	94	0	128	36	5	5	52	1.48
1736817--1736877	21	2.9	21	87	0	86	27	18	34	19	1.95
1736859--1736964	42	2.5	42	79	8	117	26	19	32	21	1.97
1738969--1739081	35	3.2	34	88	5	163	42	23	0	33	1.60
1740100--1740211	35	3.2	34	87	5	145	36	0	20	41	1.59

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