genome.fa.s13.2.7.7.80.10.50.1000.4.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: Chr11
Parameters: 2 7 7 80 10 50 1000
Length:  47972186

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   

This is table  4  of  145  ( 17310 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)
1476414--1476438	13	1.9	13	100	0	50	32	4	24	40	1.73
1478190--1478448	103	2.5	103	99	0	509	39	4	15	40	1.67
1480252--1480294	18	2.4	18	85	11	61	41	18	0	39	1.51
1484031--1484081	18	2.9	17	77	13	50	21	7	0	70	1.12
1490100--1490338	119	2.0	119	95	0	433	37	15	8	38	1.77
1490581--1490605	12	2.1	12	100	0	50	0	16	16	68	1.22
1499670--1499894	111	2.0	111	99	0	441	36	14	12	36	1.84
1525486--1525520	17	2.0	17	94	5	61	71	0	0	28	0.86
1527337--1527368	3	10.7	3	100	0	64	31	0	0	68	0.90
1530723--1530812	32	2.6	34	83	10	121	28	14	17	38	1.89
1530852--1531072	112	2.0	108	87	6	320	52	9	3	34	1.51
1535091--1536133	519	2.0	520	96	0	1926	29	19	18	33	1.95
1540770--1540834	28	2.2	29	81	5	69	33	13	1	50	1.51
1546896--1546958	31	2.0	31	100	0	126	25	12	23	38	1.90
1554633--1554663	13	2.4	13	94	0	53	16	9	16	58	1.63
1555977--1556036	31	1.9	32	83	10	79	48	16	8	26	1.75
1557711--1557769	31	1.9	31	85	0	82	42	10	11	35	1.76
1570248--1570321	16	4.6	16	70	6	51	37	8	6	47	1.60
1573822--1573877	28	2.0	28	85	3	76	32	7	3	57	1.43
1588181--1588209	3	9.7	3	100	0	58	68	0	31	0	0.89
1591105--1591170	13	5.5	13	70	26	65	46	12	1	39	1.50
1591105--1591171	23	2.9	23	90	0	116	47	11	1	38	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594037--1594106	31	2.2	32	75	12	74	38	17	7	37	1.77
1598128--1598163	18	1.9	19	88	5	56	63	5	8	22	1.43
1620414--1620472	31	1.9	31	89	0	91	32	11	13	42	1.81
1632875--1632924	22	2.2	22	89	3	73	34	0	4	62	1.14
1642520--1642544	13	1.9	13	100	0	50	20	8	0	72	1.10
1643539--1643571	3	10.7	3	93	6	57	66	0	0	33	0.92
1655741--1656571	416	2.0	415	99	0	1628	38	13	18	30	1.89
1659648--1659703	19	2.8	21	78	13	73	26	8	0	64	1.23
1661894--1661926	15	2.1	16	88	5	50	33	0	15	51	1.43
1671512--1671543	16	2.0	17	88	11	50	25	3	18	53	1.59
1671837--1671902	21	3.0	21	76	8	62	33	4	3	59	1.33
1674658--1674687	2	15.0	2	100	0	60	50	0	0	50	1.00
1676513--1676568	17	3.2	17	71	26	53	48	1	1	48	1.22
1677650--1677731	31	2.6	31	75	12	78	28	14	14	42	1.85
1697705--1697754	23	2.2	23	85	0	64	68	6	0	26	1.13
1698219--1698261	22	2.0	22	86	9	61	48	20	9	20	1.77
1703607--1703631	5	5.0	5	100	0	50	40	20	40	0	1.52
1711119--1711164	23	2.0	23	100	0	92	21	13	17	47	1.81
1714316--1714341	2	13.0	2	100	0	52	50	0	0	50	1.00
1714322--1714478	78	2.0	79	98	1	307	40	16	10	32	1.82
1715211--1715256	23	2.0	23	95	0	83	21	28	17	32	1.96
1718980--1719009	3	10.0	3	100	0	60	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1730392--1730416	13	1.9	13	100	0	50	48	0	0	52	1.00
1752850--1752891	18	2.3	18	87	0	57	45	30	21	2	1.65
1752980--1753012	3	11.0	3	100	0	66	33	33	0	33	1.58
1755084--1755302	106	2.1	106	99	0	429	40	6	10	42	1.64
1758832--1758884	26	2.0	28	88	7	83	26	11	13	49	1.75
1759772--1760180	213	1.9	214	89	2	633	18	13	20	47	1.82
1768390--1768441	27	2.0	27	88	3	79	48	1	1	48	1.24
1768560--1768623	26	2.5	25	73	14	58	48	7	3	40	1.48
1772159--1772198	20	2.0	20	90	0	62	47	12	12	27	1.77
1772147--1772213	34	1.9	35	87	3	100	44	13	10	31	1.77
1779778--1780123	186	1.9	183	83	4	453	36	20	17	26	1.94
1779991--1780278	155	1.9	155	86	2	418	36	20	16	26	1.94
1782839--1782889	27	2.0	27	84	7	70	39	5	11	43	1.66
1785632--1785915	54	5.3	53	69	14	145	24	20	22	32	1.98
1785682--1785915	108	2.2	107	91	1	317	25	20	23	31	1.98
1789817--1789862	1	46.0	1	100	0	92	100	0	0	0	0.00
1790972--1791020	21	2.3	21	78	0	53	30	0	0	69	0.89
1793388--1793433	24	2.0	23	83	12	58	63	0	2	34	1.07
1795276--1795322	17	2.8	17	96	0	85	68	0	0	31	0.90
1802274--1802794	275	1.9	275	91	1	864	38	19	9	32	1.85
1835802--1835869	6	11.5	6	98	1	129	17	0	30	51	1.46
1852384--1852451	29	2.3	29	85	7	84	44	11	19	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1855080--1855144	31	2.1	30	86	8	87	46	13	12	27	1.79
1863523--1863571	13	3.9	13	74	17	50	36	20	8	34	1.82
1869408--1869438	2	15.5	2	100	0	62	48	0	0	51	1.00
1871884--1871941	29	2.0	29	93	0	98	34	18	5	41	1.73
1873518--1873549	15	2.1	16	94	5	57	37	0	0	62	0.95
1877865--1878447	197	2.9	196	81	6	672	34	21	16	27	1.95
1885254--1885295	20	2.1	20	100	0	84	61	4	0	33	1.17
1889564--1889600	15	2.5	15	90	0	56	21	16	13	48	1.80
1891984--1892013	9	3.4	9	90	9	53	10	0	0	90	0.47
1893649--1893769	23	5.3	23	96	2	217	32	26	21	19	1.97
1893649--1893769	45	2.6	45	94	2	215	32	26	21	19	1.97
1903791--1903844	18	3.2	16	82	12	56	74	3	1	20	1.07
1903814--1903880	29	2.3	30	84	2	82	74	2	7	14	1.16
1904484--1904593	55	2.0	55	96	0	202	37	14	18	30	1.90
1905440--1905496	12	4.8	12	86	0	87	14	24	45	15	1.83
1909729--1909928	99	2.0	100	99	0	393	43	18	9	30	1.80
1910365--1910427	29	2.2	28	86	11	83	25	12	6	55	1.60
1913366--1913533	30	5.8	30	76	9	179	27	40	8	23	1.83
1913355--1913534	57	3.2	57	95	0	315	27	41	7	23	1.82
1913448--1913557	27	4.2	24	74	15	85	29	40	7	22	1.81
1916269--1916299	2	15.5	2	93	0	53	51	0	0	48	1.00
1919571--1919633	31	2.0	31	84	6	83	30	3	1	65	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1919576--1919628	26	2.0	26	82	7	63	32	3	0	64	1.12
1926672--1926729	30	1.9	31	82	10	75	20	15	25	37	1.92
1934557--1934585	7	4.1	7	100	0	58	44	0	0	55	0.99
1935607--1935655	22	2.1	23	85	7	64	51	0	0	48	1.00
1937656--1937718	30	2.2	29	82	5	74	28	9	9	52	1.65
1939337--1939405	31	2.3	31	94	2	122	34	23	1	40	1.64
1943553--1943591	20	2.0	20	89	0	60	61	15	5	17	1.51
1944101--1944156	28	2.0	28	86	6	78	50	7	12	30	1.67
1944577--1944711	70	1.9	70	95	0	243	39	14	18	27	1.90
1956557--1956595	18	2.2	18	90	0	60	51	7	28	12	1.67
1957064--1957145	38	2.2	38	84	4	103	26	10	15	46	1.79
1966405--1966472	31	2.2	31	84	2	93	42	2	5	48	1.42
1970074--1970152	9	8.2	10	78	15	60	53	0	0	46	1.00
1970074--1970152	5	16.4	5	77	17	60	53	0	0	46	1.00
1970076--1970127	17	3.2	17	87	12	67	48	0	0	51	1.00
1970084--1970134	12	4.4	12	80	16	63	47	0	0	52	1.00
1976372--1976407	15	2.4	15	100	0	72	16	13	50	19	1.79
1989317--1989355	14	2.8	14	85	11	53	58	2	2	35	1.25
1990060--1990122	31	2.0	30	82	11	74	33	9	11	46	1.72
1990673--1990705	11	3.1	11	86	4	50	45	0	0	54	0.99
1996738--1996776	21	1.9	21	89	5	62	17	12	15	53	1.72
1998535--1998564	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2010304--2010346	21	2.0	22	86	4	61	41	4	0	53	1.21
2018575--2018614	20	2.0	20	85	9	55	27	17	7	47	1.74
2026424--2026490	34	2.0	34	100	0	134	43	5	5	44	1.53
2029398--2029692	135	2.2	135	94	0	509	35	15	23	25	1.94
2031788--2031843	29	1.9	29	85	0	76	33	17	8	39	1.81
2042675--2042746	29	2.4	29	81	4	81	51	13	6	27	1.67
2048366--2048406	16	2.6	16	84	11	57	34	0	0	65	0.93
2048925--2048978	25	2.2	26	80	10	67	64	3	5	25	1.32
2050690--2050742	25	2.2	24	86	3	70	16	22	22	37	1.94
2078834--2078858	2	12.5	2	100	0	50	52	0	48	0	1.00

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145