genome.fa.s407.2.7.7.80.10.50.1000.12.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   

This is table  12  of  28  ( 3302 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)
1661513--1661566	22	2.3	22	81	15	56	55	0	1	42	1.10
1661699--1661750	23	2.2	23	83	10	61	36	7	0	55	1.29
1663303--1663347	19	2.4	19	85	3	65	31	0	0	68	0.89
1663668--1663704	7	5.1	7	96	3	65	70	0	2	27	1.01
1663950--1663995	16	2.9	16	90	0	74	43	0	0	56	0.99
1664489--1664548	29	2.1	27	82	11	68	51	0	0	48	1.00
1665252--1665298	24	1.9	24	91	4	76	63	0	0	36	0.94
1665598--1665641	3	14.7	3	80	0	52	34	22	34	9	1.86
1665590--1665638	6	8.2	6	90	0	71	34	18	32	14	1.91
1665960--1666024	17	3.6	17	74	20	51	50	1	1	46	1.20
1666703--1666741	18	2.2	17	86	4	51	61	2	0	35	1.10
1666732--1666781	23	2.3	22	86	6	66	72	4	4	20	1.18
1666748--1666796	21	2.4	21	83	6	57	73	6	6	14	1.22
1668365--1668492	47	2.7	45	79	4	130	41	8	7	42	1.64
1671466--1671522	25	2.5	22	72	13	53	50	3	0	45	1.18
1672575--1672606	15	2.1	15	100	0	64	18	37	6	37	1.76
1673045--1673101	19	2.9	19	85	15	73	29	0	3	66	1.08
1673460--1673501	21	2.0	22	86	9	61	52	0	0	47	1.00
1673449--1673503	20	2.8	20	76	17	62	49	0	0	50	1.00
1674081--1674136	27	2.1	27	83	6	69	55	5	3	35	1.40
1677946--1678002	19	2.9	19	87	5	87	33	10	17	38	1.84
1677942--1678083	20	7.0	19	68	13	79	31	15	17	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1679268--1679338	20	3.5	20	78	0	79	35	12	12	39	1.82
1680252--1680307	22	2.5	23	94	5	105	17	10	8	62	1.52
1680260--1680314	22	2.6	21	88	5	58	20	9	9	61	1.52
1693358--1693425	21	3.4	21	86	8	97	91	7	1	0	0.49
1693358--1693425	29	2.3	30	89	5	111	91	7	1	0	0.49
1693357--1693424	10	6.9	10	87	12	97	91	7	1	0	0.49
1693356--1693425	1	70.0	1	82	0	86	91	7	1	0	0.48
1694655--1695864	28	42.4	29	90	3	1783	28	32	17	21	1.96
1694651--1695891	257	4.8	257	89	3	1828	28	32	17	21	1.96
1696404--1696474	20	3.5	20	76	0	70	35	11	12	40	1.79
1697388--1697443	22	2.5	23	94	5	105	17	10	8	62	1.52
1697396--1697450	22	2.6	21	88	5	58	20	9	9	61	1.52
1700344--1700377	9	3.8	9	88	11	52	44	0	26	29	1.55
1704858--1704904	20	2.2	22	85	7	62	40	10	21	27	1.86
1704819--1704981	84	1.9	84	91	0	263	35	11	14	39	1.81
1707514--1707575	31	2.0	32	87	9	92	30	17	12	38	1.88
1707542--1707597	20	2.9	19	87	12	80	35	16	14	33	1.88
1707625--1707678	20	2.7	20	82	5	65	31	11	16	40	1.84
1710242--1710331	44	2.0	44	95	0	162	40	10	22	27	1.86
1714240--1714282	17	2.5	17	88	3	59	48	4	4	41	1.44
1715617--1715967	178	2.0	177	82	6	435	41	4	5	49	1.45
1716109--1716141	16	1.9	18	88	11	52	27	3	3	66	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716655--1716710	27	2.0	27	90	10	87	66	3	0	30	1.09
1716773--1716819	23	2.0	23	88	8	69	63	0	2	34	1.06
1717784--1717835	2	26.0	2	96	0	95	51	0	0	48	1.00
1718121--1718159	2	19.5	2	94	0	69	51	2	0	46	1.14
1718409--1718490	18	4.2	20	76	10	73	59	0	0	40	0.97
1718413--1718452	13	2.9	14	81	11	55	67	0	0	32	0.91
1718440--1718493	19	3.1	17	80	12	56	55	0	0	44	0.99
1718421--1718490	19	3.9	19	70	22	53	60	0	0	40	0.97
1718803--1718841	19	2.1	19	85	9	53	48	2	0	48	1.15
1718835--1718892	22	2.7	21	81	5	64	44	0	1	53	1.10
1718900--1718944	20	2.3	20	85	11	58	48	0	0	51	1.00
1718911--1718974	20	3.3	20	81	12	64	37	0	0	62	0.95
1731100--1731167	29	2.4	29	77	20	72	36	1	8	52	1.42
1731164--1731207	14	3.2	14	77	3	54	38	0	0	61	0.96
1731139--1731282	62	2.3	64	85	6	186	40	2	5	52	1.37
1732340--1732407	33	2.1	32	88	2	100	33	14	16	35	1.89
1732362--1732387	13	2.0	13	100	0	52	38	15	15	30	1.88
1732440--1732490	20	2.5	20	90	0	75	29	15	15	39	1.89
1732478--1732506	13	2.2	13	100	0	58	37	13	17	31	1.89
1732492--1732542	20	2.5	20	83	0	57	33	13	15	37	1.87
1733245--1733317	33	2.2	33	85	4	94	34	16	13	35	1.88
1733280--1733332	20	2.7	20	96	0	97	32	16	15	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1733980--1734096	22	5.6	22	73	20	92	32	24	2	40	1.69
1734024--1734055	16	2.0	16	100	0	64	37	18	0	43	1.51
1735864--1735908	18	2.3	21	74	11	51	26	0	31	42	1.56
1736128--1736191	30	2.1	30	82	11	76	54	23	1	20	1.53
1743548--1743601	10	5.4	10	78	14	58	85	9	0	5	0.75
1743547--1743601	19	2.7	20	91	8	85	83	10	0	5	0.79
1743559--1743612	17	3.2	16	87	7	72	87	7	1	3	0.74
1743559--1743623	28	2.3	29	83	2	78	86	6	4	3	0.79
1743547--1743612	20	3.4	19	87	6	87	83	10	1	4	0.86
1743559--1743612	16	3.3	16	87	5	72	87	7	1	3	0.74
1743560--1743626	9	7.2	9	81	5	62	85	5	5	2	0.84
1744583--1745074	61	8.4	59	84	5	535	25	29	21	23	1.99
1744583--1745074	121	4.2	115	84	8	570	25	29	21	23	1.99
1744583--1745077	182	2.8	173	83	8	596	25	29	21	23	1.99
1745828--1745923	19	5.7	19	69	26	90	34	11	17	36	1.86
1745829--1745936	32	3.4	32	96	0	189	34	12	17	35	1.88
1745880--1745937	13	4.0	13	74	23	53	34	15	17	32	1.91
1745975--1746000	13	2.0	13	100	0	52	30	15	15	38	1.88
1748370--1748497	52	2.5	52	85	2	177	31	28	10	28	1.91
1748510--1748728	51	4.2	52	87	2	264	29	25	11	33	1.91
1748508--1748728	104	2.1	102	85	3	291	29	24	11	33	1.91
1748662--1748869	107	1.9	108	84	2	276	27	27	13	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750733--1750762	13	2.3	13	100	0	60	30	13	16	40	1.87
1750713--1750777	33	2.0	33	87	6	96	32	18	13	35	1.90
1750807--1750879	20	3.7	19	83	7	76	39	17	13	28	1.88
1750807--1750860	19	2.8	20	85	2	74	38	18	12	29	1.88
1754358--1754389	7	4.6	7	96	0	55	37	0	0	62	0.95
1761588--1762059	157	3.0	155	84	5	612	40	11	14	33	1.81
1764466--1764492	13	2.1	13	100	0	54	29	14	14	40	1.86
1767682--1767706	13	1.9	13	100	0	50	36	16	16	32	1.90
1767745--1767782	20	2.0	18	90	10	58	55	7	10	26	1.61
1769630--1769659	3	10.0	3	92	0	51	30	0	36	33	1.58
1774159--1774186	13	2.2	13	100	0	56	28	14	14	42	1.84
1776746--1776772	13	2.1	13	100	0	54	29	14	14	40	1.86
1778834--1778924	47	1.9	47	93	0	155	35	12	21	30	1.90
1781033--1781091	15	4.1	14	75	10	57	79	0	18	1	0.81
1781881--1781918	3	12.7	3	88	0	58	68	0	2	28	1.03
1782793--1783093	152	2.0	152	94	4	533	38	10	18	32	1.85
1783195--1783224	13	2.4	12	94	5	51	0	3	20	76	0.92
1783786--1783876	29	3.1	29	73	19	82	32	10	8	47	1.70
1783786--1783914	58	2.2	58	80	5	136	32	10	9	48	1.69
1788664--1788793	61	2.1	61	81	0	152	36	13	23	26	1.92
1788906--1789280	53	7.1	53	81	2	342	36	13	22	27	1.91
1788915--1789280	107	3.4	106	79	2	376	36	13	21	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1788906--1789280	160	2.3	160	82	4	461	36	13	22	27	1.91
1790009--1790069	29	2.1	29	81	6	70	19	11	16	52	1.74
1790090--1790230	58	2.4	57	78	1	156	28	11	13	46	1.77
1793367--1793403	18	2.0	19	94	5	67	16	10	10	62	1.55
1796942--1796979	20	1.9	20	94	0	67	28	10	13	47	1.76
1805229--1805513	52	5.5	52	96	0	525	26	17	19	36	1.93
1805258--1805586	156	2.1	155	83	5	414	28	16	18	36	1.93
1805574--1805662	13	5.9	13	72	27	70	33	17	13	34	1.89
1805553--1805682	32	4.0	32	96	1	233	36	17	11	34	1.86
1806639--1806897	43	5.6	43	80	14	270	30	18	25	25	1.98

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