genome.fa.s59.2.7.7.80.10.50.1000.10.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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  10  of  25  ( 2913 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)
1574105--1574153	19	2.3	20	80	16	55	48	6	0	44	1.27
1575834--1575889	17	3.1	17	73	17	51	3	16	1	78	0.97
1576763--1577053	160	1.8	159	98	0	564	32	18	19	29	1.95
1578669--1578719	22	2.4	22	86	3	77	43	17	3	35	1.68
1580762--1580790	3	9.7	3	100	0	58	65	0	34	0	0.93
1581947--1581977	2	15.5	2	93	0	53	48	3	0	48	1.17
1582177--1582249	17	4.4	18	75	14	68	56	0	1	42	1.08
1582151--1582225	33	2.2	34	83	6	91	57	0	0	42	0.98
1582227--1582284	22	2.7	21	77	15	64	53	1	3	41	1.28
1582707--1582735	14	2.1	14	93	6	51	44	0	0	55	0.99
1592027--1592084	21	2.7	22	84	12	77	44	0	0	55	0.99
1592027--1592103	24	3.5	23	82	10	83	44	0	0	55	0.99
1592610--1592641	2	16.0	2	100	0	64	50	0	0	50	1.00
1593113--1593152	18	2.2	19	86	13	57	67	0	2	30	1.04
1594083--1594127	22	1.9	25	86	13	69	40	4	0	55	1.20
1596548--1596586	17	2.3	17	86	8	53	41	2	0	56	1.13
1596548--1596586	9	4.6	8	81	12	51	41	2	0	56	1.13
1597072--1597109	13	3.0	13	92	3	60	47	0	2	50	1.15
1597465--1597490	2	13.0	2	100	0	52	50	0	0	50	1.00
1600200--1600236	2	18.5	2	100	0	74	51	0	0	48	1.00
1600579--1600605	3	9.0	3	100	0	54	66	0	33	0	0.92
1602894--1602926	2	16.5	2	100	0	66	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)
1603975--1604079	50	2.1	51	90	1	167	40	8	10	40	1.70
1604206--1604248	2	21.5	2	100	0	86	51	0	0	48	1.00
1606618--1606645	5	5.6	5	100	0	56	39	39	21	0	1.54
1606750--1606776	3	9.0	3	100	0	54	33	0	0	66	0.92
1607359--1607397	17	2.4	17	86	4	53	61	0	2	35	1.10
1608360--1608406	21	2.4	19	77	19	51	53	2	2	42	1.25
1611328--1611359	2	16.0	2	93	0	55	46	0	3	50	1.17
1611802--1611827	5	5.2	5	100	0	52	61	0	0	38	0.96
1612033--1612078	22	2.2	20	79	17	58	54	0	0	45	0.99
1612002--1612064	25	2.5	26	75	17	69	55	0	0	44	0.99
1612037--1612077	22	1.9	21	90	5	64	53	0	0	46	1.00
1623080--1623114	18	1.9	18	88	0	52	51	2	0	45	1.16
1627232--1627290	23	2.5	22	78	10	64	67	1	0	30	1.00
1629499--1629536	2	19.0	2	94	0	67	52	0	0	47	1.00
1635008--1635062	19	2.6	22	77	11	62	56	0	1	41	1.10
1639859--1639935	38	2.0	38	85	12	104	40	1	0	58	1.06
1639977--1640011	14	2.5	14	90	0	52	57	0	0	42	0.99
1640495--1640532	3	12.7	3	100	0	76	65	0	0	34	0.93
1640824--1640873	22	2.2	22	85	7	64	40	0	0	60	0.97
1641533--1641677	13	10.9	13	65	16	57	47	0	1	50	1.14
1650685--1650742	30	1.9	31	85	3	82	32	0	1	65	1.03
1651202--1651231	2	15.5	2	93	6	53	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1651967--1652051	33	2.6	32	85	10	111	37	1	3	57	1.23
1656085--1656124	16	2.3	19	87	12	59	30	5	2	62	1.29
1656960--1656991	15	2.1	15	94	0	55	65	0	0	34	0.93
1657811--1657858	12	4.0	12	81	5	53	43	2	41	12	1.54
1661426--1661464	16	2.7	14	88	11	53	64	0	0	35	0.94
1661482--1661525	20	2.2	20	84	11	56	50	0	0	50	1.00
1670859--1670894	2	18.0	2	100	0	72	50	0	50	0	1.00
1673313--1673345	16	2.0	17	88	5	50	72	3	0	24	0.98
1673698--1673729	4	8.0	4	92	0	55	25	3	0	71	1.00
1679396--1679606	100	2.1	99	85	3	282	39	15	5	39	1.71
1684163--1684248	42	2.0	42	90	0	136	47	5	10	36	1.62
1684706--1684769	6	10.8	6	77	6	60	32	1	1	64	1.13
1684789--1684868	35	2.3	35	82	4	90	48	8	0	42	1.34
1691114--1691145	3	10.7	3	100	0	64	34	31	0	34	1.58
1692728--1692753	2	13.0	2	100	0	52	0	0	50	50	1.00
1694363--1694396	3	11.0	3	93	6	59	64	2	0	32	1.08
1695675--1695708	13	2.5	13	85	4	50	61	2	0	35	1.11
1695809--1695891	41	2.0	40	82	11	98	46	7	4	40	1.52
1695971--1696014	18	2.4	19	88	7	72	61	0	0	38	0.96
1695921--1696016	49	1.9	50	82	4	122	54	1	1	43	1.14
1697351--1697385	18	1.9	18	88	11	54	45	0	0	54	0.99
1697356--1697402	11	4.4	11	76	15	53	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1697823--1697851	13	2.1	14	93	6	51	31	0	6	62	1.22
1698462--1698524	19	3.6	17	72	20	58	36	0	0	63	0.95
1698464--1698524	27	2.3	27	81	13	65	37	0	0	62	0.96
1698553--1698590	16	2.4	16	86	8	51	60	2	0	36	1.11
1705703--1705733	2	15.5	2	100	0	62	48	0	0	51	1.00
1708464--1708556	19	5.0	20	65	27	62	56	0	0	43	0.99
1708492--1708558	32	2.1	33	91	8	111	53	0	0	46	1.00
1709096--1709161	33	2.0	33	94	5	116	48	0	1	50	1.10
1709099--1709176	33	2.5	32	86	12	101	52	0	1	46	1.08
1710541--1710572	16	2.0	16	100	0	64	31	37	18	12	1.88
1710706--1710741	16	2.2	17	90	5	56	33	0	0	66	0.92
1710721--1710798	28	2.9	27	72	18	65	47	0	1	51	1.09
1711535--1711615	28	2.9	28	73	15	85	30	1	1	66	1.07
1711654--1711700	20	2.5	18	80	16	51	63	0	0	36	0.94
1712110--1712164	25	2.0	27	83	13	69	52	0	0	47	1.00
1712129--1712175	24	1.9	25	86	4	69	51	0	0	48	1.00
1712108--1712166	27	2.3	25	77	16	66	52	0	0	47	1.00
1712961--1712998	13	2.8	14	84	8	51	39	0	0	60	0.97
1712960--1713000	14	3.0	14	82	7	57	39	0	0	60	0.96
1712991--1713041	24	2.3	22	83	16	61	43	1	1	52	1.23
1713030--1713090	21	3.2	19	80	13	63	42	0	0	57	0.98
1713038--1713098	19	3.2	19	73	26	58	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1713478--1713510	8	4.1	8	85	14	50	57	0	3	39	1.14
1713477--1713507	16	1.9	16	100	0	62	58	0	3	38	1.15
1713744--1713823	29	2.7	29	79	9	74	45	0	0	55	0.99
1713781--1713836	30	2.0	28	86	13	80	50	0	0	50	1.00
1713866--1713924	3	20.3	3	82	6	77	32	1	1	64	1.13
1714402--1714431	3	10.0	3	100	0	60	66	0	0	33	0.92
1714370--1714420	25	2.0	25	85	7	68	52	0	3	43	1.19
1717367--1717404	2	19.0	2	100	0	76	50	0	0	50	1.00
1718528--1718570	20	2.3	19	84	11	61	46	0	2	51	1.13
1722797--1722888	1	92.0	1	76	0	76	86	5	7	0	0.69
1722797--1722888	14	6.8	13	79	10	96	86	5	7	0	0.69
1722797--1722888	36	2.8	34	83	12	129	86	5	7	0	0.69
1730218--1730308	1	91.0	1	76	0	74	86	5	7	0	0.69
1730218--1730308	13	6.8	13	81	6	101	86	5	7	0	0.69
1734806--1734854	25	2.0	25	87	0	71	34	10	24	30	1.89
1736325--1736357	15	2.3	15	89	5	50	45	0	3	51	1.16
1737414--1737488	33	2.3	33	90	0	123	48	2	4	45	1.35
1737414--1737488	17	4.6	16	73	5	69	48	2	4	45	1.35
1739188--1739220	16	2.1	16	88	11	50	54	0	0	45	0.99
1740537--1740565	2	14.5	2	100	0	58	51	0	0	48	1.00
1741776--1741810	3	11.7	3	100	0	70	68	0	0	31	0.90
1742640--1742697	10	5.8	10	76	15	57	29	0	1	68	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1742636--1742710	29	2.6	29	82	6	80	32	0	1	66	1.00
1742660--1742722	20	3.2	20	76	19	60	38	0	0	61	0.96
1742669--1742731	20	3.3	20	72	16	53	39	0	0	60	0.97
1742703--1742757	16	3.4	16	76	20	60	47	0	0	52	1.00
1742713--1742764	16	3.2	16	73	10	52	53	0	0	46	1.00
1742697--1742781	32	2.5	33	81	7	100	48	0	0	51	1.00
1743911--1743939	13	2.1	14	93	6	51	44	0	0	55	0.99
1743911--1743946	16	2.4	16	86	13	51	44	0	0	55	0.99
1744039--1744069	16	1.9	16	93	0	53	45	0	6	48	1.28
1744125--1744173	11	4.5	11	80	10	55	30	4	2	63	1.24

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