genome.fa.s9.2.7.7.80.10.50.1000.4.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   86   87   88   89   90   91   92   93   94   95   96   
          97   

This is table  4  of  97  ( 11551 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)
1436539--1436577	21	2.0	20	90	10	62	56	2	2	38	1.27
1436673--1436737	33	2.0	33	84	0	85	46	6	4	43	1.49
1446173--1446228	26	2.3	25	82	11	64	37	1	0	60	1.07
1446154--1446227	25	2.9	24	76	13	60	41	2	0	55	1.14
1449478--1449520	21	2.0	21	81	4	50	65	2	0	32	1.06
1449732--1449793	21	2.8	22	76	16	56	58	0	1	40	1.08
1455907--1455943	19	1.9	19	88	0	56	2	35	2	59	1.26
1466340--1466500	89	1.8	87	94	4	288	30	17	16	36	1.92
1469701--1469727	2	13.5	2	100	0	54	48	0	0	51	1.00
1477065--1477171	14	8.2	13	71	18	62	66	0	1	30	1.09
1477061--1477146	32	2.7	33	82	10	90	66	1	0	32	1.00
1477060--1477196	40	3.5	39	74	6	123	65	0	2	30	1.12
1477425--1477472	15	3.1	15	78	3	60	35	20	8	35	1.83
1481719--1481978	144	1.8	143	85	3	371	30	21	21	26	1.99
1482665--1482707	12	3.6	12	80	0	50	39	0	18	41	1.51
1482822--1482950	27	4.8	27	73	5	109	21	20	20	37	1.95
1482824--1482965	27	5.3	27	75	5	108	21	18	22	37	1.94
1482880--1482983	28	3.8	28	80	2	111	21	17	25	36	1.94
1485184--1485283	28	3.7	28	80	5	107	20	16	22	42	1.89
1486213--1486273	30	2.0	30	100	0	122	21	13	26	39	1.90
1486479--1486516	2	19.0	2	100	0	76	50	50	0	0	1.00
1489709--1489815	35	3.1	35	97	0	205	19	24	11	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489886--1489938	27	2.0	26	85	10	72	50	9	13	26	1.71
1497440--1497501	32	1.9	32	96	0	115	61	12	11	14	1.57
1497901--1497938	2	19.0	2	88	0	58	50	0	2	47	1.15
1497896--1497938	10	4.2	10	87	3	50	51	0	4	44	1.22
1511171--1511321	72	2.1	72	82	2	178	29	19	12	39	1.88
1511246--1512076	432	1.9	432	87	2	1213	30	20	13	35	1.92
1516609--1516649	18	2.3	18	82	0	55	24	0	0	75	0.80
1530148--1530172	5	5.0	5	100	0	50	0	0	20	80	0.72
1556180--1556235	3	18.7	3	79	0	58	5	58	3	32	1.37
1556533--1556587	2	29.0	2	83	10	62	47	0	49	1	1.12
1557242--1557275	17	2.0	17	88	0	50	41	0	0	58	0.98
1562940--1562972	16	2.1	16	94	0	57	0	45	0	54	0.99
1579221--1579263	21	2.0	22	86	4	61	30	0	2	67	1.03
1594085--1594186	29	3.6	29	84	6	104	45	0	5	48	1.33
1594084--1594184	28	3.6	28	82	7	125	45	0	6	46	1.36
1594139--1594204	32	2.0	32	82	2	78	37	6	9	46	1.60
1594207--1594312	54	1.9	55	84	1	142	37	3	6	51	1.46
1594228--1594311	27	3.1	26	69	19	64	41	2	4	51	1.36
1594286--1594354	24	3.0	24	70	12	63	37	2	7	52	1.44
1598141--1598394	129	2.0	123	91	6	415	21	40	12	24	1.88
1598141--1598331	60	3.2	59	63	14	147	21	39	12	26	1.89
1608404--1608566	45	3.6	45	85	0	200	47	10	23	18	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615494--1615576	22	3.7	22	80	3	103	34	26	13	25	1.93
1615598--1615649	22	2.4	22	78	12	61	55	21	1	21	1.53
1617565--1618266	126	5.5	125	83	5	764	40	10	17	31	1.83
1617565--1618354	255	3.1	250	81	6	775	40	10	16	31	1.83
1621155--1621179	13	1.9	13	100	0	50	92	8	0	0	0.40
1633993--1634287	150	2.0	150	96	1	547	36	17	17	28	1.92
1639735--1639807	19	3.8	19	73	10	60	17	4	1	76	1.01
1639757--1639800	17	2.7	17	79	6	56	22	4	2	70	1.17
1639882--1639916	16	2.2	16	90	5	54	40	0	0	60	0.97
1640199--1640233	16	2.2	16	94	0	61	40	0	22	37	1.55
1640203--1640241	16	2.4	16	86	0	51	41	2	15	41	1.61
1640745--1640784	18	2.2	18	86	0	53	25	0	0	75	0.81
1657687--1657726	2	20.5	2	85	14	57	2	50	0	47	1.14
1658380--1658404	2	12.5	2	100	0	50	52	0	0	48	1.00
1665158--1665250	47	2.0	47	84	0	123	34	25	8	31	1.86
1671477--1671510	18	1.9	18	88	5	52	67	0	0	32	0.91
1671647--1671702	22	2.5	22	72	16	62	48	7	1	42	1.41
1704135--1704163	2	15.0	2	92	7	51	48	0	0	51	1.00
1706067--1706096	4	7.5	4	100	0	60	50	0	26	23	1.50
1717599--1717624	13	2.0	13	100	0	52	46	15	15	23	1.83
1718119--1718143	2	12.5	2	100	0	50	52	0	48	0	1.00
1719602--1719877	138	2.0	138	94	0	489	26	22	16	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764724--1764833	54	2.0	54	100	0	220	22	25	23	28	2.00
1780711--1780749	20	2.0	20	89	0	60	17	17	43	20	1.88
1780744--1780935	71	2.7	71	84	0	258	27	26	36	9	1.87
1781871--1781926	13	4.5	12	78	14	60	76	5	0	17	0.96
1781871--1781931	25	2.4	26	84	10	74	73	6	0	19	1.04
1783882--1783945	30	2.1	30	97	0	119	25	17	7	50	1.72
1784743--1784784	18	2.4	18	96	4	77	23	0	0	76	0.79
1784750--1784789	10	4.3	10	84	15	59	30	0	0	70	0.88
1785706--1785756	18	3.2	16	76	15	52	41	1	21	35	1.65
1785713--1785763	16	3.3	15	77	17	59	33	1	21	43	1.64
1786180--1786220	14	2.9	14	88	3	55	24	2	4	68	1.22
1812939--1813183	122	2.0	122	100	0	490	36	20	17	25	1.94
1832894--1832934	21	2.0	21	85	0	55	43	0	2	53	1.13
1832906--1832954	26	1.9	25	84	12	64	48	4	2	44	1.33
1833378--1833418	21	2.0	21	90	0	64	39	0	2	58	1.11
1833147--1833406	93	2.8	93	85	1	351	42	3	8	45	1.52
1850689--1850726	18	2.1	18	95	0	67	21	13	5	60	1.52
1860720--1860761	17	2.7	15	80	16	50	23	0	0	76	0.79
1860719--1860766	25	2.0	24	87	4	69	27	0	0	72	0.84
1860797--1860854	30	1.9	30	89	0	89	51	0	1	46	1.11
1860840--1860877	19	2.0	20	89	5	60	65	2	0	31	1.06
1871241--1871306	30	2.3	28	84	7	87	66	4	0	28	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871311--1871345	18	1.9	18	88	0	52	42	5	0	51	1.25
1885341--1885464	60	2.1	60	98	0	239	32	12	20	33	1.91
1891859--1891978	51	2.4	51	88	0	168	43	7	18	30	1.78
1894216--1894356	75	1.9	75	92	1	239	35	7	19	38	1.79
1906562--1906620	28	2.1	28	90	0	91	38	13	10	37	1.79
1906573--1906639	28	2.6	24	75	20	64	41	14	5	37	1.71
1920730--1920774	18	2.5	18	96	0	81	0	44	0	55	0.99
1920734--1920774	6	6.8	6	85	0	55	0	46	0	53	1.00
1922049--1922107	19	3.0	19	75	20	59	55	0	1	42	1.09
1922768--1922794	4	6.8	4	100	0	54	25	0	22	51	1.48
1926287--1926633	87	4.0	87	90	0	505	19	27	13	39	1.90
1929271--1929325	17	3.1	17	84	7	65	60	5	3	30	1.37
1931483--1931536	24	2.2	24	90	3	81	42	3	3	50	1.38
1931483--1931547	24	2.6	23	79	13	67	44	3	3	49	1.33
1948110--1948524	211	2.0	211	90	0	652	22	21	20	34	1.97
1952948--1952980	15	2.1	16	88	5	50	45	3	51	0	1.16
1953033--1953088	17	3.3	17	72	18	53	46	7	32	14	1.71
1954432--1954845	212	2.0	211	95	0	738	22	21	20	35	1.96
1963513--1963664	77	2.0	76	98	1	288	18	9	30	41	1.81
1965301--1965350	24	2.1	24	100	0	100	16	8	16	60	1.58
1967914--1967944	16	1.9	16	100	0	62	9	19	6	64	1.45
1973145--1973171	2	13.5	2	100	0	54	0	0	48	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1978634--1978658	7	3.6	7	100	0	50	12	0	0	88	0.53
1984973--1985023	25	2.0	25	100	0	102	35	19	15	29	1.93
2014035--2014066	17	1.9	16	93	6	55	59	0	3	37	1.13
2014175--2014221	18	2.6	18	89	0	67	74	0	17	8	1.05
2016822--2016938	51	2.3	51	82	10	141	36	17	21	23	1.94
2017172--2017378	107	1.9	107	93	0	351	33	13	7	45	1.71
2019643--2019684	20	2.0	21	86	4	59	69	0	0	30	0.89
2026885--2026954	22	3.1	23	76	15	74	42	1	1	54	1.18
2026993--2027074	25	3.1	25	77	12	67	56	1	1	41	1.15
2034650--2034705	28	2.0	29	82	3	69	25	3	3	67	1.22

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   86   87   88   89   90   91   92   93   94   95   96   
          97