genome.fa.s7.2.7.7.80.10.50.1000.5.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  5  of  79  ( 9388 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)
1642832--1642871	20	2.0	20	100	0	80	10	35	15	40	1.80
1645990--1646022	13	2.4	14	90	10	50	33	3	0	63	1.10
1656646--1656673	5	5.6	5	100	0	56	82	0	0	17	0.68
1659663--1659774	60	1.9	60	82	15	146	36	11	10	41	1.76
1660548--1660586	17	2.2	19	90	9	64	25	0	5	69	1.09
1664152--1664401	83	3.0	83	100	0	500	22	22	15	38	1.92
1664774--1664800	14	1.9	14	100	0	54	37	25	7	29	1.83
1673067--1673152	26	3.3	26	88	3	93	18	17	23	40	1.91
1673087--1673158	26	2.8	26	93	0	117	16	22	23	37	1.94
1678612--1678637	2	13.0	2	100	0	52	50	0	0	50	1.00
1686403--1686675	136	2.0	137	99	0	539	42	8	7	41	1.64
1689306--1689354	22	2.2	22	85	0	62	48	2	10	38	1.48
1690176--1690225	26	2.0	26	84	7	68	32	6	12	50	1.64
1690347--1690378	16	1.9	17	93	6	57	53	0	0	46	1.00
1694902--1694936	13	2.8	13	91	4	54	42	2	2	51	1.31
1695675--1695709	6	5.5	6	87	12	52	77	22	0	0	0.78
1700633--1700666	18	1.9	18	88	5	52	50	0	2	47	1.16
1721950--1722109	23	7.2	23	63	16	95	27	15	25	31	1.96
1721934--1722109	44	4.0	44	100	0	352	27	15	25	31	1.96
1721973--1722089	21	5.4	21	65	15	76	26	16	24	32	1.96
1730921--1730984	20	3.5	19	77	14	62	64	3	1	31	1.19
1733119--1733167	16	3.0	17	88	5	57	26	2	2	69	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1733131--1733168	4	9.2	4	97	2	67	26	0	0	73	0.83
1733842--1733961	64	1.9	64	83	0	159	35	20	21	23	1.96
1738308--1738373	33	2.0	33	90	0	105	18	10	18	53	1.72
1742538--1742600	31	2.0	31	100	0	126	12	12	15	58	1.63
1748878--1749290	109	4.0	97	85	11	410	35	15	16	32	1.91
1749022--1749292	109	2.5	108	94	1	470	37	14	15	33	1.87
1749430--1749704	98	2.7	100	84	12	358	29	17	15	37	1.91
1751800--1751838	11	3.9	10	80	12	53	69	0	2	28	1.02
1751798--1751884	23	3.9	22	69	15	63	62	1	5	31	1.26
1752752--1753458	354	2.0	354	98	0	1362	35	17	16	29	1.92
1757479--1757530	24	2.2	24	89	0	77	50	9	3	36	1.54
1764325--1764374	24	2.1	23	85	3	64	48	10	4	38	1.56
1768936--1769008	36	2.0	36	97	0	137	30	19	13	36	1.90
1772647--1772688	19	2.3	18	88	12	59	45	11	0	42	1.41
1778594--1778744	75	2.0	76	94	1	268	47	5	2	44	1.39
1785968--1786084	58	2.0	58	100	0	234	38	25	11	23	1.89
1788195--1788247	19	2.6	19	76	8	52	43	0	3	52	1.19
1788195--1788239	14	3.1	14	83	3	54	44	0	4	51	1.21
1788342--1788385	23	1.9	23	86	9	63	63	0	4	31	1.14
1800103--1800147	22	2.0	22	82	0	54	20	0	28	51	1.48
1800123--1800166	17	2.6	17	75	3	54	20	0	25	54	1.45
1802643--1802766	55	2.3	55	85	0	158	25	9	16	48	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1802726--1802800	34	2.2	34	85	0	96	20	10	21	48	1.79
1802756--1802932	55	3.2	55	90	1	266	23	7	18	50	1.72
1802658--1802831	18	9.7	18	64	19	69	24	8	18	48	1.75
1802667--1802855	89	2.1	89	89	0	279	23	8	18	48	1.76
1802643--1802910	144	1.9	144	87	0	392	23	8	18	49	1.75
1810334--1810621	78	3.7	78	76	4	220	31	18	18	31	1.95
1810500--1810786	157	1.8	156	79	3	335	32	21	17	29	1.96
1810587--1810803	78	2.8	78	76	0	227	29	23	16	30	1.96
1811112--1811156	19	2.3	20	92	3	74	4	4	20	71	1.21
1811112--1811156	20	2.3	19	88	3	63	4	4	20	71	1.21
1822407--1822492	29	2.9	29	83	10	95	33	4	13	47	1.64
1826198--1826242	22	2.0	23	95	4	83	37	4	0	57	1.19
1828408--1828444	20	1.9	19	89	10	58	40	2	0	56	1.13
1828387--1828447	27	2.2	27	85	8	79	45	1	1	50	1.21
1828856--1828898	19	2.3	18	80	4	50	34	0	2	62	1.08
1830727--1830767	19	2.1	19	86	4	55	29	7	4	58	1.46
1836590--1836618	15	1.9	15	100	0	58	37	0	0	62	0.96
1841097--1841169	13	6.1	13	66	18	50	36	1	2	58	1.21
1841103--1841165	23	2.7	23	75	4	65	36	1	3	58	1.23
1844144--1844179	7	5.1	7	100	0	72	72	0	0	27	0.85
1850864--1850982	59	2.0	59	98	0	229	39	11	10	37	1.77
1855589--1855644	3	18.7	3	100	0	112	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)
1855703--1855736	3	11.3	3	100	0	68	32	0	0	67	0.91
1855611--1855793	92	2.0	92	100	0	366	37	6	18	37	1.77
1857118--1857169	19	2.7	19	93	0	86	21	3	30	44	1.70
1857137--1857178	19	2.2	19	86	0	57	21	9	30	38	1.85
1859311--1859355	20	2.2	21	85	14	60	31	0	4	64	1.13
1860688--1860779	38	2.4	38	80	8	91	22	10	35	30	1.89
1862596--1862980	188	2.0	188	88	2	576	42	14	10	32	1.81
1866618--1866661	22	2.0	23	81	4	54	75	11	0	13	1.06
1868067--1868118	4	13.0	4	85	0	59	23	7	1	67	1.27
1877696--1877788	47	2.0	47	100	0	186	31	12	23	32	1.92
1877914--1877972	31	1.9	31	82	6	75	38	3	0	57	1.15
1878066--1878105	19	2.0	21	90	9	66	57	5	0	37	1.21
1894098--1894142	24	1.9	24	86	4	65	66	2	4	26	1.22
1894523--1894563	19	2.3	18	84	12	57	34	0	4	60	1.18
1894619--1894671	27	2.0	26	88	3	79	43	5	3	47	1.45
1898863--1898897	3	11.7	3	100	0	70	31	0	0	68	0.90
1899467--1899533	12	5.5	12	75	22	59	23	2	4	68	1.22
1899501--1899535	4	8.8	4	100	0	70	22	0	0	77	0.78
1903065--1903198	65	2.1	65	98	0	259	38	19	7	35	1.80
1909213--1909240	6	4.7	6	100	0	56	14	0	0	85	0.59
1911116--1911154	18	2.2	18	85	0	51	20	0	5	74	1.01
1913710--1913794	29	2.8	30	79	10	68	41	4	2	51	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1913715--1913753	20	1.9	21	84	5	53	38	2	2	56	1.27
1913712--1914179	232	2.0	233	99	0	929	35	12	8	43	1.73
1919306--1919350	20	2.2	20	88	0	63	31	15	2	51	1.56
1927597--1927650	27	2.0	27	89	10	83	64	7	0	27	1.20
1928125--1928179	29	2.0	27	89	7	83	63	7	0	29	1.21
1927540--1928590	529	2.0	528	99	0	2093	40	7	8	43	1.64
1931780--1932097	142	2.2	144	87	5	452	30	21	21	26	1.98
1932484--1933702	210	5.8	210	95	1	2151	34	19	17	29	1.94
1936421--1936452	13	2.5	13	100	0	64	53	0	37	9	1.34
1939467--1939513	17	2.8	17	80	6	51	55	0	0	44	0.99
1941236--1941300	31	2.1	31	94	0	112	36	10	7	44	1.68
1942567--1942678	55	2.0	56	91	3	181	22	16	13	47	1.82
1943378--1943428	9	5.6	9	79	11	50	31	3	0	64	1.11
1943490--1943514	13	1.9	13	100	0	50	44	8	8	40	1.63
1943711--1943761	23	2.2	23	82	6	59	31	1	11	54	1.47
1945453--1945637	46	4.0	46	85	2	246	29	22	9	38	1.85
1947932--1947999	31	2.2	31	86	0	100	36	14	8	39	1.78
1948982--1949015	17	1.9	18	88	5	52	47	0	2	50	1.16
1949068--1949139	27	2.7	27	89	6	110	16	22	40	20	1.91
1949353--1949390	19	2.0	19	89	0	58	50	7	5	36	1.54
1949486--1949572	22	3.7	22	92	7	129	54	13	0	32	1.40
1950339--1950391	23	2.3	24	75	15	58	50	1	1	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1951431--1951456	11	2.4	11	100	0	52	38	0	0	61	0.96
1952005--1952063	31	1.9	31	92	0	100	38	15	5	40	1.69
1952782--1952819	17	2.4	16	86	8	51	50	13	7	28	1.69
1955730--1955796	25	2.7	25	95	0	116	26	19	5	47	1.72
1955673--1955918	122	2.0	123	98	0	476	28	20	6	43	1.78
1955852--1955927	25	3.0	25	92	0	125	26	18	6	48	1.72
1960390--1960465	25	2.8	27	86	13	111	23	21	9	46	1.80
1970177--1970670	144	3.4	143	83	1	639	32	21	20	25	1.98
1970674--1971924	210	6.0	210	83	2	1564	33	18	16	31	1.93
1970674--1971921	630	2.0	630	86	2	1727	33	18	16	31	1.93

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