genome.fa.s258.2.7.7.80.10.50.1000.8.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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  ( 2900 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)
1577751--1577796	20	2.3	20	84	0	56	34	4	47	13	1.62
1577877--1577942	27	2.4	27	85	12	82	48	18	7	25	1.74
1584452--1584497	20	2.3	20	84	0	56	36	4	47	10	1.58
1585235--1585279	14	3.5	14	71	22	53	46	2	0	51	1.13
1585271--1585312	21	2.0	22	90	4	68	35	0	2	61	1.09
1588132--1588165	2	17.0	2	93	0	59	50	2	0	47	1.16
1588611--1588713	17	6.5	17	67	27	75	54	0	0	44	1.06
1588593--1588657	24	2.5	23	81	18	67	56	0	1	41	1.08
1588611--1588719	15	7.1	16	68	21	74	55	0	0	44	1.06
1588592--1588675	32	2.4	34	82	11	100	55	0	1	42	1.07
1588641--1588717	27	2.9	27	79	11	79	54	0	1	44	1.08
1592514--1592546	3	11.0	3	100	0	66	66	0	33	0	0.92
1593976--1594006	3	10.3	3	92	0	53	29	0	0	70	0.87
1598612--1598648	2	18.5	2	100	0	74	51	0	0	48	1.00
1598978--1599079	47	2.2	48	85	7	138	51	10	0	37	1.37
1599528--1599568	22	1.9	21	90	5	64	36	0	2	60	1.10
1599726--1599761	12	3.0	12	87	0	54	41	0	8	50	1.33
1600300--1600453	79	1.9	83	86	5	226	46	11	5	35	1.64
1610558--1610601	21	2.0	23	86	8	65	56	0	0	43	0.99
1610575--1610709	15	9.6	14	66	23	54	57	0	0	42	0.98
1610635--1610663	13	2.1	14	93	6	51	58	0	0	41	0.98
1610640--1610711	18	3.6	20	77	17	62	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610658--1610711	20	2.5	23	74	17	62	57	0	0	42	0.98
1610564--1610694	27	4.7	30	70	19	72	57	0	0	42	0.98
1610563--1610728	55	3.0	54	74	20	150	58	0	0	40	1.02
1611136--1611242	28	3.8	28	79	6	92	52	0	2	44	1.15
1611167--1611221	22	2.6	22	80	5	69	54	0	0	45	0.99
1612077--1612116	21	1.9	21	84	0	53	35	7	5	52	1.51
1613783--1613834	13	3.8	13	76	16	52	46	0	0	53	1.00
1613781--1613833	15	3.7	15	80	14	58	45	0	0	54	0.99
1613809--1613914	20	5.1	22	72	17	75	37	0	0	61	1.03
1613807--1613889	43	1.9	44	83	11	109	40	1	0	57	1.06
1613859--1613907	18	2.7	19	84	6	57	30	0	0	69	0.89
1615511--1615537	2	13.5	2	100	0	54	48	0	0	51	1.00
1615715--1615761	23	2.0	23	87	0	67	31	6	27	34	1.82
1624868--1624918	26	2.0	26	100	0	102	35	9	11	43	1.75
1631001--1631077	29	2.8	28	84	11	97	63	0	2	33	1.08
1631002--1631077	27	2.8	26	79	14	84	64	0	2	32	1.07
1632154--1632178	2	12.5	2	100	0	50	0	52	0	48	1.00
1633289--1633315	2	13.5	2	100	0	54	48	0	0	51	1.00
1634307--1634354	18	2.7	19	84	15	59	56	0	0	43	0.99
1637741--1637781	2	21.0	2	85	5	57	51	0	0	48	1.00
1640571--1640609	16	2.4	16	91	8	62	71	0	0	28	0.86
1640803--1640832	2	15.0	2	92	0	51	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644259--1644301	3	14.0	3	95	4	77	65	2	0	32	1.06
1644333--1644434	52	2.0	51	83	9	127	46	0	0	52	1.07
1645531--1645555	2	12.5	2	100	0	50	48	0	0	52	1.00
1647216--1647304	42	2.1	42	97	0	169	17	14	15	51	1.76
1647560--1647598	20	2.0	20	84	0	51	58	0	5	35	1.20
1647960--1648019	23	2.4	23	78	21	59	56	3	0	40	1.16
1648039--1648261	23	9.3	23	67	19	93	64	1	2	31	1.16
1648165--1648261	11	8.4	12	73	16	80	68	1	2	28	1.08
1648166--1648258	48	1.9	48	85	12	129	67	1	2	29	1.09
1648102--1648278	11	16.7	10	68	18	65	63	1	2	33	1.14
1657362--1657400	20	2.0	20	84	0	51	35	5	2	56	1.35
1659285--1659331	20	2.3	20	88	0	67	78	2	10	8	1.04
1660162--1660200	19	2.0	19	85	5	51	41	0	0	58	0.98
1660719--1660860	76	1.9	76	87	0	212	42	6	13	37	1.69
1661546--1661570	5	5.0	5	100	0	50	20	0	0	80	0.72
1661761--1661812	27	1.9	27	84	7	70	50	0	5	44	1.26
1662235--1662282	21	2.3	21	86	13	64	58	2	2	37	1.22
1672633--1672663	16	2.0	16	93	6	55	32	19	29	19	1.96
1682333--1682384	23	2.1	26	86	10	74	50	0	0	50	1.00
1683443--1683478	11	3.3	11	88	0	54	13	5	0	80	0.88
1683685--1683717	17	1.9	17	93	0	57	30	0	0	69	0.88
1684800--1684845	18	2.6	18	82	0	56	39	2	0	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1685108--1685190	35	2.4	36	82	13	104	60	0	0	39	0.97
1685129--1685181	25	2.1	25	82	6	63	64	0	0	35	0.94
1686626--1686660	17	1.9	19	88	11	56	22	2	0	74	0.95
1691647--1691692	20	2.3	20	85	7	58	50	0	2	47	1.13
1695650--1695711	31	2.0	31	96	0	115	19	6	14	59	1.56
1698647--1698687	2	20.5	2	100	0	82	51	0	0	48	1.00
1702257--1702286	2	15.0	2	100	0	60	50	0	0	50	1.00
1708118--1708142	2	12.5	2	100	0	50	52	0	0	48	1.00
1710493--1710522	2	15.0	2	100	0	60	50	0	0	50	1.00
1714242--1714270	2	14.5	2	100	0	58	51	0	0	48	1.00
1715814--1715862	14	3.3	14	85	8	53	59	2	2	36	1.21
1715836--1715934	18	5.7	18	67	22	68	59	0	0	40	0.97
1715829--1715882	14	3.6	14	77	18	54	55	0	0	44	0.99
1715835--1715927	32	2.8	32	76	17	84	59	0	0	40	0.98
1715900--1715935	11	3.5	11	78	21	51	66	0	0	33	0.92
1717462--1717522	20	3.2	19	81	15	72	57	1	0	40	1.08
1717859--1717907	17	2.8	18	81	6	64	40	0	0	59	0.98
1718147--1718213	24	2.9	23	78	15	75	58	1	2	37	1.23
1718965--1718998	3	11.3	3	100	0	68	0	32	0	67	0.91
1730191--1730234	23	2.0	23	86	4	63	52	0	0	47	1.00
1730950--1730976	2	13.5	2	100	0	54	48	0	0	51	1.00
1733861--1733893	3	11.0	3	100	0	66	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1734539--1734563	4	6.2	4	100	0	50	24	24	0	52	1.48
1735173--1735245	21	3.6	21	71	17	64	61	0	0	38	0.96
1735153--1735243	11	8.3	11	70	18	64	60	0	0	39	0.97
1735165--1735247	29	2.8	29	84	15	107	62	0	0	37	0.95
1737450--1737485	2	18.0	2	94	0	63	47	0	52	0	1.00
1740229--1740261	2	16.5	2	100	0	66	48	0	0	51	1.00
1744858--1744915	28	2.1	27	81	9	64	48	0	0	51	1.00
1750559--1750843	155	1.9	151	82	4	365	30	10	16	42	1.83
1751055--1751108	17	3.3	17	82	5	58	59	0	0	40	0.98
1751055--1751093	15	2.5	15	87	8	51	56	0	0	43	0.99
1751055--1751121	32	2.1	30	81	10	80	55	0	0	44	0.99
1754100--1754132	7	4.9	7	96	3	59	15	30	15	39	1.88
1758472--1758507	18	2.0	18	88	0	54	50	8	19	22	1.74
1760119--1760143	2	12.5	2	100	0	50	52	0	0	48	1.00
1761955--1762081	16	7.9	16	71	9	80	40	12	3	42	1.61
1761952--1762073	64	1.9	63	81	5	147	40	12	4	42	1.64
1762660--1762684	6	4.2	6	100	0	50	48	0	16	36	1.46
1762864--1762888	2	12.5	2	100	0	50	52	0	0	48	1.00
1765926--1765971	22	2.1	22	100	0	92	36	17	17	28	1.92
1782977--1783033	30	1.9	30	96	0	105	31	15	17	35	1.92
1788430--1788474	21	2.1	21	88	8	65	73	4	0	22	1.01
1788432--1788485	26	2.0	28	85	10	76	70	7	0	22	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1793312--1793342	16	1.9	16	93	0	53	48	0	3	48	1.17
1795597--1795646	26	1.9	26	87	0	73	42	0	2	56	1.11
1796368--1796392	5	5.0	5	100	0	50	0	20	0	80	0.72
1797017--1797064	25	1.9	25	86	0	69	54	4	4	37	1.39
1798335--1798382	16	2.9	16	75	3	51	68	2	0	29	1.01
1799692--1799748	29	2.0	29	85	0	78	42	26	8	22	1.83
1799903--1799935	3	11.0	3	100	0	66	66	0	0	33	0.92
1800492--1800541	22	2.3	22	96	0	91	26	24	4	46	1.70
1803152--1803190	20	1.9	21	94	5	71	48	0	0	51	1.00
1804208--1804237	2	15.0	2	100	0	60	50	0	0	50	1.00

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