genome.fa.s5.2.7.7.80.10.50.1000.5.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   

This is table  5  of  85  ( 10117 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)
1651002--1651029	11	2.5	11	100	0	56	92	0	7	0	0.37
1663212--1663250	19	2.1	19	100	0	78	17	15	15	51	1.77
1669709--1669761	28	1.9	27	88	11	81	64	5	0	30	1.17
1676868--1676972	54	1.9	54	92	0	174	31	20	24	22	1.98
1681911--1681966	20	2.8	20	77	2	58	48	0	1	50	1.11
1681934--1681972	11	3.4	11	80	13	51	51	0	2	46	1.14
1681911--1681962	21	2.5	20	76	11	52	48	0	1	50	1.12
1681952--1681989	14	2.4	17	87	12	55	47	0	0	52	1.00
1683133--1683219	44	2.0	41	85	10	113	17	19	25	37	1.93
1683133--1683219	21	4.1	21	81	12	115	17	19	25	37	1.93
1689479--1689998	181	2.9	179	85	3	675	31	10	13	44	1.78
1690499--1690551	19	2.8	18	78	18	54	35	1	5	56	1.34
1714941--1715157	106	2.0	107	99	0	427	37	6	12	42	1.70
1717206--1717533	59	5.6	59	78	4	299	25	18	14	41	1.89
1717217--1717536	117	2.7	118	81	4	387	25	18	14	42	1.88
1721820--1722147	59	5.6	59	78	4	299	25	18	14	41	1.89
1721831--1722150	117	2.7	118	81	4	387	25	18	14	42	1.88
1727721--1727867	73	2.0	74	98	1	287	25	9	36	28	1.87
1728422--1728490	34	2.0	34	100	0	138	21	5	23	49	1.71
1734142--1734188	25	1.9	25	86	4	69	55	6	8	29	1.55
1734295--1734347	12	4.2	12	74	9	52	67	5	1	24	1.22
1739770--1739838	36	1.9	36	87	0	102	34	11	21	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749481--1749517	2	18.5	2	100	0	74	48	0	0	51	1.00
1750242--1750305	30	2.1	31	85	8	87	34	1	3	60	1.22
1750291--1750347	26	2.2	27	78	9	64	28	3	7	61	1.39
1754060--1754103	22	2.0	22	86	4	61	61	9	4	25	1.45
1755612--1755644	6	5.5	6	100	0	66	18	36	15	30	1.91
1758522--1759151	208	3.0	208	99	0	1244	43	16	20	18	1.87
1759595--1759629	2	17.5	2	100	0	70	51	48	0	0	1.00
1767037--1767144	47	2.3	47	85	6	139	37	9	11	41	1.73
1773555--1773879	164	2.0	164	91	0	524	40	20	11	27	1.87
1775958--1776020	29	2.2	29	97	0	117	47	3	7	41	1.48
1783121--1783200	36	2.2	36	82	4	90	30	3	6	60	1.39
1783149--1783200	18	2.9	18	69	11	52	30	0	5	63	1.18
1786532--1786589	19	3.1	19	72	22	68	25	1	5	67	1.21
1786532--1786590	20	3.1	20	71	28	65	25	1	5	67	1.20
1796605--1796645	17	2.3	19	79	12	50	39	2	2	56	1.26
1796607--1796646	18	2.3	18	86	4	55	40	2	2	55	1.27
1803032--1803101	34	2.1	34	100	0	140	47	8	8	35	1.65
1806782--1806851	32	2.2	32	84	0	95	20	17	12	50	1.78
1814123--1814180	25	2.3	25	82	5	73	17	20	22	39	1.92
1815847--1815898	23	2.2	23	79	3	59	32	13	30	23	1.93
1815854--1815897	23	1.9	23	85	0	61	29	15	31	22	1.95
1826684--1826929	134	1.8	133	87	0	366	30	8	20	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1827539--1827622	36	2.3	36	82	8	91	44	3	46	5	1.45
1839294--1839348	28	2.0	27	85	3	74	50	10	18	20	1.76
1842561--1842612	26	2.0	26	100	0	104	19	15	15	50	1.79
1845944--1845974	2	15.5	2	100	0	62	48	0	0	51	1.00
1846207--1846237	2	15.5	2	100	0	62	48	0	0	51	1.00
1845750--1846277	263	2.0	263	99	0	1047	39	8	10	41	1.70
1847823--1847914	31	2.9	31	79	6	87	34	18	5	41	1.74
1847909--1847955	22	2.1	22	84	0	58	38	21	4	36	1.73
1847870--1848003	53	2.5	51	81	9	144	37	20	3	38	1.71
1850426--1850502	33	2.4	33	93	6	133	36	2	2	58	1.26
1854806--1854859	24	2.1	26	83	10	67	57	0	0	42	0.98
1856766--1856817	22	2.4	21	80	3	68	26	3	3	65	1.27
1867101--1867168	34	2.0	34	85	0	91	25	11	19	44	1.84
1868028--1868054	8	3.4	8	100	0	54	48	11	0	40	1.39
1868315--1868406	38	2.5	37	83	5	105	28	29	20	21	1.98
1868339--1868448	41	2.8	38	83	6	123	32	26	19	21	1.97
1869140--1869180	21	2.0	20	86	13	57	46	17	0	36	1.48
1869310--1869352	21	2.0	21	86	8	61	9	4	9	76	1.14
1883165--1883222	30	2.0	28	83	10	71	62	1	3	32	1.22
1883082--1883308	113	2.0	114	99	0	447	45	4	3	46	1.40
1890538--1890628	35	2.6	34	77	16	87	49	2	5	42	1.38
1890663--1890720	25	2.3	25	75	0	62	68	3	25	1	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891377--1891431	24	2.2	25	78	18	62	34	1	16	47	1.57
1893992--1894046	24	2.2	25	78	18	62	34	1	16	47	1.57
1902882--1902920	7	5.6	7	90	0	60	41	30	0	28	1.57
1903442--1903467	3	8.7	3	100	0	52	69	0	0	30	0.89
1905937--1905984	24	2.0	24	88	4	71	64	2	0	33	1.05
1913786--1914233	232	1.9	232	94	0	781	27	13	20	38	1.90
1922413--1922571	86	1.8	86	94	0	282	51	13	9	25	1.71
1932544--1932715	84	2.0	85	96	1	319	48	6	8	36	1.60
1945949--1945975	7	3.9	7	100	0	54	40	0	0	59	0.98
1946445--1946481	4	9.2	4	93	0	65	24	2	27	45	1.66
1958727--1958840	56	2.0	57	98	1	221	42	0	5	52	1.24
1959362--1959559	98	2.0	98	100	0	396	39	13	9	37	1.77
1960275--1960610	167	2.0	168	99	0	665	41	16	8	34	1.78
1968672--1968717	24	1.9	24	91	8	76	47	2	6	43	1.41
1968671--1968727	24	2.4	24	82	5	71	47	7	5	40	1.53
1968682--1968734	24	2.2	24	82	0	61	50	3	3	41	1.38
1970356--1970395	21	1.9	21	85	10	55	22	7	27	42	1.80
1970662--1970864	101	2.0	102	99	0	399	48	2	5	43	1.41
1976301--1976349	25	2.0	25	95	0	89	40	22	30	6	1.78
1993126--1993156	14	2.2	14	94	0	53	29	6	6	58	1.48
1996792--1996826	14	2.5	14	90	0	52	62	11	5	20	1.48
2002198--2002238	19	2.2	19	95	0	73	36	4	12	46	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2002276--2002356	41	2.0	41	92	0	135	30	6	14	48	1.69
2006138--2006218	41	2.0	41	97	0	153	30	6	13	49	1.67
2006764--2006791	3	9.3	3	100	0	56	32	0	0	67	0.91
2011816--2011848	15	2.1	17	88	11	52	54	12	15	18	1.71
2012900--2012965	31	2.2	30	82	12	82	31	1	13	53	1.49
2015991--2016017	9	3.0	9	100	0	54	33	0	0	66	0.92
2018167--2018216	23	2.2	23	85	3	66	36	6	6	52	1.51
2023293--2023328	16	2.2	16	95	0	63	30	8	11	50	1.67
2023283--2023335	16	3.4	16	81	2	54	32	5	13	49	1.65
2032726--2032773	23	2.1	23	100	0	96	39	12	8	39	1.73
2047195--2047241	21	2.3	21	78	14	53	42	0	2	55	1.12
2051993--2052037	23	1.9	24	90	4	74	44	2	0	53	1.13
2055266--2055859	197	2.9	193	77	11	550	28	12	14	44	1.81
2055465--2055839	204	1.8	206	83	6	501	26	12	15	45	1.81
2067426--2067466	12	3.2	13	78	21	50	65	0	0	34	0.93
2067631--2067656	6	4.3	6	100	0	52	0	15	0	84	0.62
2067722--2067751	3	10.0	3	100	0	60	0	33	0	66	0.92
2067937--2067971	15	2.2	16	90	5	54	17	5	11	65	1.43
2073819--2074455	218	2.9	217	90	1	981	24	14	21	39	1.90
2077090--2077396	151	2.0	151	94	0	533	30	21	13	34	1.92
2079407--2079450	23	1.9	23	90	0	70	63	2	0	34	1.07
2083372--2083416	21	2.0	21	83	8	54	24	2	6	66	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2083383--2083415	14	2.4	14	85	5	50	24	0	3	72	0.98
2083537--2083574	14	2.9	14	92	7	62	42	0	0	57	0.98
2083537--2083575	5	8.6	5	78	21	50	41	0	0	58	0.98
2083537--2083575	17	2.2	17	86	9	51	41	0	0	58	0.98
2087684--2087951	55	4.8	55	81	8	306	56	22	10	10	1.64
2087684--2087950	58	4.7	58	81	6	307	56	22	10	10	1.64
2087717--2087808	29	3.1	29	67	13	71	63	18	6	11	1.49
2088324--2088367	17	2.5	18	82	14	56	34	0	0	65	0.93
2090567--2090603	15	2.4	16	86	8	51	48	5	0	45	1.25
2101022--2101057	14	2.6	14	100	0	72	36	33	0	30	1.58

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85