genome.fa.s6.2.7.7.80.10.50.1000.5.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  5  of  109  ( 13028 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)
1499446--1499529	30	2.8	31	94	5	154	23	25	7	44	1.79
1499446--1499522	15	5.1	15	69	12	68	24	23	7	44	1.80
1500693--1500757	32	2.0	32	96	0	121	46	12	13	27	1.79
1502634--1502661	5	5.6	5	100	0	56	21	0	0	78	0.75
1512187--1512225	18	2.1	19	86	13	55	64	5	0	30	1.15
1512316--1512354	15	2.4	16	83	12	53	74	2	5	17	1.12
1519598--1520116	252	2.1	253	98	1	1015	39	11	6	42	1.68
1521312--1521458	73	2.0	74	98	1	287	36	8	9	46	1.66
1522190--1522375	90	2.1	91	97	1	356	31	13	13	41	1.84
1523326--1523378	16	3.3	16	76	10	63	35	24	5	33	1.79
1523567--1523707	41	3.6	41	83	4	157	34	23	17	24	1.95
1524298--1524346	19	2.6	19	93	3	82	26	24	4	44	1.71
1524647--1524699	24	2.2	24	89	0	79	3	16	9	69	1.30
1527726--1527759	14	2.3	15	85	10	52	35	0	11	52	1.38
1528460--1528502	21	2.0	22	81	4	52	37	18	13	30	1.90
1528786--1528839	27	2.0	28	85	10	76	53	0	1	44	1.11
1531647--1531675	2	14.5	2	100	0	58	51	0	0	48	1.00
1531728--1531755	2	14.0	2	100	0	56	50	0	0	50	1.00
1536465--1536508	22	2.0	23	86	4	63	63	0	4	31	1.14
1537849--1537894	22	2.0	23	83	4	58	73	17	0	8	1.07
1549290--1549495	111	1.9	111	88	0	313	25	21	19	33	1.97
1556043--1556084	21	2.1	20	86	8	59	30	2	0	66	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559050--1559110	29	2.1	29	93	0	104	54	6	9	29	1.59
1560942--1562010	534	2.0	535	99	0	2131	36	9	13	40	1.77
1562997--1563034	19	2.1	18	85	9	51	28	0	5	65	1.14
1565250--1565287	17	2.4	17	91	8	62	63	0	5	31	1.17
1571046--1571090	23	1.9	24	81	4	56	35	35	6	22	1.80
1585041--1585091	22	2.3	22	79	0	57	52	3	1	41	1.31
1585083--1585111	14	2.1	14	93	6	51	34	0	3	62	1.12
1589617--1589678	31	2.0	31	87	0	88	40	12	3	43	1.59
1593217--1593253	15	2.4	15	90	4	56	45	8	29	16	1.76
1593751--1593794	22	2.0	23	86	4	63	86	0	6	6	0.71
1593751--1593796	20	2.4	18	82	13	56	86	0	6	6	0.69
1598980--1599199	110	2.0	111	99	0	433	39	18	23	19	1.93
1600456--1600504	23	2.2	23	96	3	91	57	14	12	16	1.66
1611044--1611092	4	12.2	4	95	0	89	51	22	0	26	1.49
1611101--1611130	14	2.1	14	100	0	60	6	0	43	50	1.28
1612978--1613011	17	2.0	17	88	0	50	26	0	8	64	1.22
1618817--1618854	20	1.9	20	84	10	51	18	7	36	36	1.80
1619136--1619193	29	2.0	30	83	10	75	37	13	6	41	1.72
1619928--1619962	13	2.7	13	100	0	70	91	8	0	0	0.42
1623763--1623805	20	2.2	20	83	8	52	46	0	4	48	1.22
1624781--1625094	143	2.2	143	84	5	359	39	11	7	41	1.69
1634742--1634780	21	1.9	21	89	5	62	41	0	2	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1634939--1634977	18	2.2	18	85	0	51	17	10	25	46	1.80
1635937--1636000	28	2.2	28	81	8	76	40	3	3	53	1.33
1637523--1637549	2	13.5	2	100	0	54	51	0	0	48	1.00
1639457--1639484	7	4.0	7	100	0	56	0	71	28	0	0.86
1644723--1644757	10	3.6	10	92	3	54	65	2	5	25	1.28
1644743--1644784	17	2.4	18	84	4	59	66	2	2	28	1.16
1647947--1648006	19	3.2	19	75	15	54	63	3	0	33	1.11
1648390--1648426	17	2.1	17	90	10	56	72	0	0	27	0.84
1660479--1660508	11	2.6	11	94	5	51	60	0	3	36	1.14
1674749--1674790	22	1.9	23	90	9	70	61	2	0	35	1.09
1674890--1674931	13	3.3	13	73	6	50	40	0	0	59	0.97
1682722--1682824	9	11.4	9	87	0	134	41	26	7	24	1.81
1682863--1682891	6	4.8	6	100	0	58	17	0	17	65	1.27
1682863--1682904	18	2.2	20	87	8	61	21	0	11	66	1.23
1688218--1688375	78	2.0	79	87	4	230	38	10	29	20	1.87
1706713--1707189	111	4.4	111	83	12	537	35	15	16	32	1.90
1707258--1707378	54	2.2	56	86	4	183	32	11	7	48	1.67
1707313--1707597	109	2.6	109	85	9	391	32	14	11	41	1.82
1714150--1714202	2	26.5	2	84	0	61	47	5	3	43	1.45
1715522--1715612	42	2.2	42	96	4	166	42	5	1	50	1.32
1717686--1717876	52	3.7	52	95	1	321	23	16	22	37	1.94
1724040--1724174	51	2.7	51	90	1	200	25	19	29	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728650--1728700	27	1.9	26	92	4	84	15	19	33	31	1.93
1728679--1728844	33	4.7	33	80	13	188	20	19	28	31	1.97
1730847--1730909	28	2.2	28	97	2	117	42	6	17	33	1.74
1731816--1731896	26	3.2	26	62	22	62	28	16	25	29	1.96
1731812--1731997	51	3.7	50	79	5	185	27	17	26	27	1.98
1737117--1737182	25	2.6	26	79	11	82	27	4	4	63	1.33
1744967--1744992	4	6.5	4	100	0	52	76	0	23	0	0.78
1746335--1746374	21	1.9	21	89	0	62	25	15	25	35	1.94
1746593--1746622	15	1.9	16	93	6	53	73	3	0	23	0.98
1746860--1746925	31	2.1	31	83	5	80	27	13	12	46	1.78
1751476--1751527	27	1.9	27	84	7	70	26	5	32	34	1.80
1759955--1759984	2	15.0	2	100	0	60	50	0	0	50	1.00
1761960--1761989	12	2.5	12	94	0	51	50	13	0	36	1.42
1762464--1762499	2	18.5	2	88	5	56	50	2	0	47	1.15
1762467--1762496	15	2.0	15	93	0	51	53	3	0	43	1.17
1762465--1762498	17	2.0	17	94	0	59	52	2	0	44	1.16
1769925--1769956	1	32.0	1	93	0	55	0	0	96	0	0.04
1774158--1774182	12	2.1	12	100	0	50	24	8	16	52	1.70
1782434--1782477	19	2.2	21	80	15	58	9	27	4	59	1.48
1787371--1787414	19	2.2	21	84	15	67	11	25	4	59	1.51
1788747--1788790	21	2.0	22	86	4	63	29	2	11	56	1.46
1789158--1789227	34	2.1	34	86	5	97	38	11	18	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1791444--1791471	11	2.5	11	100	0	56	67	7	0	25	1.15
1797589--1797632	24	1.9	24	86	9	65	34	0	2	63	1.07
1799569--1799611	17	2.6	16	79	13	52	27	0	2	69	1.00
1799869--1799925	18	2.9	20	78	17	57	47	1	0	50	1.11
1800685--1800717	16	2.0	16	94	5	57	60	0	0	39	0.97
1801946--1801989	22	1.9	24	86	9	65	40	9	2	47	1.48
1804111--1804803	345	2.0	347	99	0	1372	39	10	10	38	1.75
1804785--1804811	13	2.1	13	100	0	54	14	7	0	77	0.97
1804814--1804846	17	2.0	17	88	5	50	30	9	3	57	1.45
1809348--1809393	24	1.9	24	86	8	67	26	10	26	36	1.89
1810465--1810497	17	1.9	17	93	0	57	9	0	39	51	1.34
1817760--1817813	9	5.7	9	76	20	56	66	0	1	31	1.02
1817761--1817814	10	5.5	10	75	20	60	68	0	1	29	1.00
1817749--1817814	20	3.3	20	82	16	75	65	0	1	33	1.02
1818366--1818390	10	2.5	10	100	0	50	32	8	0	60	1.26
1818369--1818445	35	2.1	36	90	9	122	31	7	0	61	1.25
1818380--1818436	18	3.2	18	71	14	64	33	8	0	57	1.29
1818387--1818458	19	4.1	17	72	13	56	33	5	0	61	1.19
1818403--1818463	29	2.1	29	81	6	70	32	4	1	60	1.28
1818523--1818548	11	2.4	11	100	0	52	30	0	0	69	0.89
1818495--1818547	28	1.9	27	85	11	72	30	0	1	67	1.01
1832030--1832060	7	4.4	7	100	0	62	12	48	0	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1832013--1832060	20	2.3	21	85	3	62	12	45	0	41	1.42
1832105--1832160	15	3.9	15	75	6	55	37	1	0	60	1.07
1832099--1832160	21	2.9	21	80	4	70	33	1	0	64	1.03
1834077--1834119	2	21.5	2	100	0	86	48	0	0	51	1.00
1838224--1838365	37	3.8	37	78	9	146	22	15	27	34	1.94
1859700--1859746	23	2.0	23	100	0	94	38	12	14	34	1.85
1876444--1876473	2	15.0	2	100	0	60	50	0	0	50	1.00
1877335--1877363	13	2.1	14	93	6	51	37	0	0	62	0.96
1877333--1877381	23	2.3	20	83	13	62	36	0	0	63	0.95
1877793--1877826	17	2.0	17	100	0	68	35	5	17	41	1.74

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