genome.fa.s223.2.7.7.80.10.50.1000.9.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  9  of  26  ( 3021 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)
1554933--1554961	2	14.5	2	100	0	58	51	0	0	48	1.00
1561585--1561615	6	5.2	6	96	0	53	19	16	48	16	1.81
1562080--1562143	21	3.0	21	70	17	60	25	15	25	34	1.95
1568716--1568767	23	2.3	23	83	6	61	46	0	0	53	1.00
1568728--1568767	20	2.0	21	85	5	55	45	0	0	55	0.99
1569211--1569260	24	2.1	24	81	7	57	40	4	0	56	1.18
1569729--1569766	17	2.2	18	90	4	60	36	0	0	63	0.95
1569731--1569789	21	3.0	21	83	16	74	40	0	0	59	0.97
1576204--1576254	22	2.3	23	80	16	63	56	0	0	43	0.99
1576787--1576814	2	14.0	2	100	0	56	0	50	0	50	1.00
1579177--1579215	19	2.0	20	90	5	62	64	0	0	35	0.94
1579448--1579525	31	2.5	31	78	17	92	51	1	1	46	1.17
1584477--1584524	22	2.3	20	83	16	55	35	0	2	62	1.07
1584478--1584524	19	2.3	20	78	14	51	36	0	2	61	1.08
1584798--1584834	2	19.0	2	94	5	67	48	0	0	51	1.00
1585150--1585181	2	16.0	2	100	0	64	50	0	50	0	1.00
1586422--1586471	2	25.0	2	100	0	100	50	0	0	50	1.00
1587244--1587278	3	11.7	3	87	0	52	5	34	0	60	1.21
1587497--1587542	3	15.7	3	86	13	69	71	0	0	28	0.86
1590702--1590753	2	26.0	2	88	0	77	50	5	0	44	1.26
1591006--1591050	12	3.5	14	93	6	62	48	4	0	46	1.22
1591015--1591057	2	21.5	2	100	0	86	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)
1591974--1592193	34	6.5	33	84	7	282	40	25	7	25	1.82
1591974--1592193	102	2.2	100	89	2	350	40	25	7	25	1.82
1596599--1596820	34	6.6	33	84	5	273	40	25	8	25	1.83
1596601--1596825	68	3.3	67	85	3	301	40	25	8	25	1.83
1596599--1596820	102	2.2	101	89	1	354	40	25	8	25	1.83
1596822--1596884	31	2.0	31	100	0	126	39	12	28	19	1.88
1596939--1596992	26	2.1	26	96	0	99	25	29	18	25	1.98
1602364--1602515	34	4.9	34	73	19	141	43	34	0	22	1.54
1602393--1602448	22	2.5	22	94	0	94	41	39	0	19	1.52
1602364--1602474	56	2.0	56	94	0	195	40	37	0	21	1.54
1607155--1607307	34	4.9	34	75	18	168	42	35	0	22	1.54
1607184--1607232	22	2.2	22	96	0	89	36	42	0	20	1.52
1607155--1607266	56	2.0	56	92	0	188	40	36	0	23	1.55
1609673--1609718	4	11.8	4	90	4	58	32	0	17	50	1.47
1610981--1611171	84	2.3	83	77	5	197	21	34	12	31	1.90
1613228--1613254	14	1.9	14	100	0	54	29	0	0	70	0.88
1613291--1613353	30	2.2	26	81	13	63	41	6	1	50	1.37
1614353--1614432	34	2.3	34	82	6	90	46	1	1	51	1.17
1621539--1621587	14	3.4	14	75	5	53	63	2	0	34	1.06
1621850--1621887	15	2.3	18	86	13	55	28	2	0	68	1.03
1626340--1626377	20	1.9	20	84	10	51	39	0	2	57	1.12
1627158--1627197	19	2.0	20	85	4	55	32	17	2	47	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627640--1627670	16	1.9	16	93	0	53	29	3	0	67	1.06
1628612--1628658	11	4.0	11	79	15	58	65	0	0	34	0.93
1628616--1628690	25	3.0	26	79	12	88	61	0	0	38	0.96
1628618--1628740	56	2.2	58	82	11	148	55	0	0	44	0.99
1628643--1628740	29	3.3	29	75	20	96	52	0	0	47	1.00
1630066--1630090	2	12.5	2	100	0	50	48	0	0	52	1.00
1633392--1633452	21	2.8	22	82	7	70	52	0	0	47	1.00
1634228--1634283	11	5.4	11	75	8	55	64	0	3	32	1.11
1635606--1635663	26	2.2	27	84	9	84	55	0	1	43	1.10
1636115--1636189	17	4.4	17	72	20	59	44	0	1	54	1.08
1636163--1636216	16	3.5	16	78	16	60	61	0	0	38	0.96
1638699--1638744	15	3.1	15	81	9	58	54	0	0	45	0.99
1638690--1638731	22	2.0	21	85	4	57	59	0	0	40	0.97
1640031--1640192	26	6.2	26	64	27	69	58	0	0	41	1.03
1640048--1640199	32	4.8	32	75	12	120	57	0	0	41	1.03
1640094--1640164	9	7.6	10	70	17	55	59	0	0	40	0.98
1640043--1640187	56	2.6	55	81	11	154	57	0	0	41	1.03
1640127--1640198	21	3.3	21	74	22	76	59	1	0	38	1.06
1640043--1640163	8	14.2	8	69	23	70	57	0	0	42	0.98
1640028--1640198	45	3.7	47	78	12	151	57	0	0	42	1.03
1640514--1640597	24	3.7	23	75	19	88	51	1	3	44	1.26
1640851--1640875	12	2.1	12	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1640981--1641021	22	1.9	22	85	5	57	51	2	0	46	1.14
1660214--1660378	87	1.9	87	88	2	251	20	16	21	41	1.90
1664453--1664488	5	7.2	5	93	0	63	55	2	0	41	1.14
1665219--1665258	21	2.0	21	85	5	55	60	7	10	22	1.54
1677399--1677423	2	12.5	2	100	0	50	52	0	0	48	1.00
1678165--1678203	14	2.8	14	76	0	51	56	0	0	43	0.99
1678183--1678231	18	2.7	18	83	3	62	65	0	2	32	1.04
1678501--1678553	26	2.0	27	82	10	65	47	15	28	9	1.76
1680880--1680911	5	6.6	5	92	7	57	18	0	0	81	0.70
1681534--1681586	25	2.0	26	85	7	72	37	0	1	60	1.08
1681533--1681589	26	2.2	24	82	11	69	35	0	1	63	1.05
1682315--1682361	4	11.8	4	95	0	67	31	0	23	44	1.54
1682621--1682655	17	2.1	17	89	10	54	42	0	2	54	1.15
1687829--1688070	120	2.0	122	91	1	398	33	14	17	35	1.90
1688637--1688711	25	2.8	27	78	13	75	58	1	2	37	1.20
1688654--1688714	19	3.1	19	73	17	52	59	3	3	34	1.30
1688870--1688904	16	2.3	15	95	5	61	85	0	0	14	0.59
1692455--1692496	14	2.8	16	75	17	54	59	0	0	40	0.97
1692744--1692786	22	2.0	21	86	4	59	4	23	0	72	1.04
1693488--1693512	2	12.5	2	100	0	50	52	48	0	0	1.00
1693512--1693541	2	15.0	2	100	0	60	50	0	0	50	1.00
1697001--1697057	17	3.4	16	76	9	51	43	0	1	54	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701195--1701235	2	20.5	2	100	0	82	51	0	0	48	1.00
1701622--1701726	51	2.1	51	90	1	167	49	4	2	42	1.38
1701647--1701724	22	3.2	22	68	22	57	52	5	1	41	1.32
1703664--1703713	19	2.4	21	77	12	59	48	0	0	52	1.00
1703645--1703715	25	2.9	25	76	15	69	46	0	0	53	1.00
1704251--1704365	49	2.4	47	83	8	137	56	0	0	42	1.05
1704215--1704366	29	5.2	28	71	22	93	56	0	0	42	1.09
1704269--1704336	16	4.2	15	72	20	57	55	0	0	44	0.99
1704668--1704698	14	2.1	15	94	5	55	38	0	3	58	1.15
1704703--1704742	20	2.0	20	85	5	53	50	2	0	47	1.14
1704740--1704801	18	3.4	18	82	6	72	33	0	0	66	0.92
1705081--1705189	54	2.0	54	96	0	200	50	0	11	38	1.38
1707055--1707113	23	2.5	24	77	5	66	37	0	1	61	1.07
1707076--1707119	19	2.4	19	85	11	56	34	0	0	65	0.93
1707718--1707750	11	2.8	12	86	9	50	63	0	0	36	0.95
1707710--1707804	18	5.4	18	69	18	58	65	0	2	32	1.05
1707723--1707804	34	2.4	36	78	15	93	64	0	2	32	1.07
1707778--1707834	16	3.6	16	73	19	57	56	0	1	42	1.10
1708922--1708958	17	2.1	19	90	10	60	45	0	0	54	1.00
1709195--1709253	28	2.1	28	83	0	73	52	3	5	38	1.40
1709454--1709496	2	21.5	2	100	0	86	0	51	0	48	1.00
1709590--1709617	2	14.0	2	100	0	56	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711569--1711596	2	14.0	2	100	0	56	50	0	0	50	1.00
1712458--1712487	2	15.0	2	100	0	60	0	0	50	50	1.00
1713795--1713836	3	13.7	3	95	5	75	66	0	0	33	0.92
1716379--1716422	2	22.0	2	100	0	88	50	0	0	50	1.00
1716443--1716491	22	2.0	24	85	14	66	40	0	0	59	0.98
1717541--1717581	18	2.2	20	79	16	52	43	0	0	56	0.99
1717543--1717583	19	2.3	17	87	8	55	46	0	0	53	1.00
1721722--1721761	18	2.2	18	100	0	80	32	10	22	35	1.87
1726579--1726733	16	9.4	16	69	18	86	43	3	2	50	1.32
1726579--1726751	32	5.2	32	65	20	86	42	2	2	52	1.29

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