genome.fa.s23.2.7.7.80.10.50.1000.34.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: At_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   

This is table  34  of  167  ( 19959 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)
10269148--10269389	132	1.8	132	87	1	360	34	17	18	29	1.94
10272762--10272830	36	1.9	36	100	0	138	63	8	13	14	1.51
10276720--10276753	16	2.1	17	88	5	52	55	8	11	23	1.63
10277206--10277244	17	2.4	16	87	12	53	61	2	0	35	1.10
10277167--10277253	16	5.1	17	74	15	58	57	2	4	35	1.32
10278773--10278953	83	2.2	82	84	3	231	29	19	15	35	1.93
10278881--10279191	119	2.6	119	90	0	460	29	20	18	31	1.96
10279007--10279376	202	1.8	202	89	0	578	28	20	18	32	1.96
10278796--10279495	321	2.2	321	93	0	1166	29	19	17	33	1.95
10279209--10279551	119	2.9	119	93	1	573	29	19	17	33	1.95
10291755--10291822	35	1.9	36	85	8	95	61	5	4	27	1.38
10291910--10291948	17	2.4	16	87	12	53	61	2	0	35	1.10
10291871--10291957	16	5.1	17	74	15	58	57	2	4	35	1.32
10291909--10291983	28	2.8	27	76	8	73	58	1	1	38	1.15
10291909--10292015	41	2.6	42	78	10	114	60	1	1	35	1.18
10292432--10294062	817	2.0	814	97	0	3068	23	21	24	30	1.99
10296309--10296360	20	2.7	19	73	5	52	63	0	3	32	1.12
10301468--10301533	27	2.5	26	78	9	71	21	28	15	34	1.93
10301877--10301947	35	2.0	35	97	0	133	21	19	12	46	1.83
10304277--10304306	14	2.1	14	93	0	51	56	0	0	43	0.99
10306187--10306226	19	2.1	19	86	9	55	67	20	12	0	1.22
10309330--10309410	21	3.9	19	77	19	83	30	2	2	64	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10309342--10309410	23	3.4	21	78	18	67	28	1	2	66	1.14
10309374--10309415	20	2.0	21	86	4	59	35	0	4	59	1.19
10309429--10309472	19	2.4	19	80	3	54	36	2	4	56	1.32
10312459--10312514	28	2.0	28	82	0	67	32	8	0	58	1.29
10312605--10312634	12	2.6	11	90	10	51	26	3	0	70	1.03
10312978--10313018	18	2.3	18	95	0	73	31	9	0	58	1.31
10313048--10313090	22	1.9	23	85	4	61	25	0	2	72	0.97
10313126--10313184	10	5.7	10	76	13	57	28	6	0	64	1.19
10313750--10313943	105	1.9	103	85	4	273	23	16	19	40	1.91
10325334--10325434	53	1.9	53	100	0	202	34	14	19	30	1.92
10325395--10325754	186	1.9	186	87	2	526	30	16	22	30	1.96
10327450--10327505	28	2.0	28	82	0	67	32	8	0	58	1.29
10327546--10327604	10	5.7	10	76	13	57	28	6	0	64	1.19
10330845--10330885	20	2.0	20	85	9	55	63	14	4	17	1.47
10333456--10333487	16	2.0	16	93	0	55	31	28	0	40	1.57
10333509--10333572	32	2.0	32	100	0	128	37	12	6	43	1.68
10339946--10340165	48	4.6	48	81	9	213	26	16	31	25	1.97
10339990--10340173	47	3.8	47	78	11	185	27	17	30	24	1.97
10343479--10343516	19	2.0	19	85	10	51	68	0	10	21	1.19
10350675--10350935	136	1.9	135	81	3	317	17	22	38	21	1.93
10375388--10375510	46	2.7	44	87	7	158	26	28	19	26	1.99
10379163--10379225	22	2.9	22	85	2	83	12	34	31	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10388083--10388113	16	1.9	16	100	0	62	25	51	0	22	1.48
10391269--10391556	143	2.0	143	89	1	443	46	8	23	21	1.78
10393388--10393427	16	2.4	17	87	4	55	77	0	15	7	0.98
10393394--10393431	10	3.7	10	86	13	51	78	0	15	5	0.91
10394857--10394918	32	1.9	32	96	0	115	51	4	16	27	1.64
10395613--10395737	46	2.6	46	86	7	153	41	12	24	21	1.87
10407184--10407266	41	2.0	41	100	0	166	21	24	18	36	1.95
10408596--10408638	18	2.4	18	84	0	59	30	18	32	18	1.95
10408892--10409259	48	7.7	48	86	0	504	26	16	30	27	1.96
10408892--10409256	143	2.5	144	89	0	552	26	15	30	27	1.96
10416288--10416402	57	2.0	57	98	0	221	39	3	22	34	1.71
10416917--10417137	48	4.6	48	85	2	300	26	17	30	25	1.97
10416919--10417172	48	5.3	48	78	7	133	27	18	28	25	1.98
10416916--10417222	96	3.3	95	77	8	301	28	16	28	26	1.97
10416918--10417223	144	2.2	138	80	8	332	28	16	28	25	1.97
10427458--10427487	16	1.9	16	93	6	53	23	0	6	70	1.11
10438766--10438843	39	2.0	39	85	5	104	52	14	19	14	1.74
10439661--10439990	89	3.7	88	88	5	402	30	16	19	33	1.94
10439742--10439990	89	2.8	89	94	2	419	32	15	19	31	1.93
10440077--10440110	14	2.4	14	95	0	59	23	17	0	58	1.38
10439992--10440183	87	2.2	87	91	2	307	30	18	14	36	1.90
10440091--10440360	73	3.7	73	93	1	443	30	16	20	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10440090--10440529	146	2.9	149	85	7	546	28	16	19	34	1.94
10440651--10440689	19	2.1	19	95	0	69	33	17	20	28	1.96
10442924--10443138	106	2.0	106	98	0	412	33	9	10	46	1.72
10443486--10443515	16	1.9	16	93	6	53	23	0	6	70	1.11
10443659--10443756	42	2.3	43	91	3	162	34	7	6	52	1.54
10454838--10454915	39	2.0	39	85	5	104	52	14	19	14	1.74
10455729--10455989	89	3.0	85	80	10	276	29	17	18	34	1.94
10456060--10456093	14	2.4	14	95	0	59	23	17	0	58	1.38
10455975--10456253	87	3.2	87	94	1	463	31	18	13	36	1.90
10456147--10456180	14	2.4	14	95	0	59	23	17	0	58	1.38
10456161--10456357	73	2.7	72	89	3	295	29	16	20	33	1.95
10456648--10456686	19	2.1	19	95	0	69	33	17	20	28	1.96
10458834--10458970	53	2.6	52	90	4	211	34	3	9	52	1.51
10459425--10459454	16	1.9	16	93	6	53	23	0	6	70	1.11
10459528--10459573	22	2.2	22	84	7	60	34	4	6	54	1.46
10463967--10463994	4	7.0	4	100	0	56	50	25	0	25	1.50
10465291--10465328	18	2.1	18	100	0	76	60	5	18	15	1.53
10474276--10474326	17	3.0	17	88	5	68	15	19	29	35	1.93
10474765--10474805	20	2.0	20	90	0	64	41	17	4	36	1.71
10480616--10480730	18	6.3	18	73	4	88	41	16	8	33	1.79
10480626--10480733	36	3.0	36	79	1	101	40	15	8	35	1.78
10480929--10481049	53	2.3	53	84	2	154	44	20	15	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10490575--10490631	28	2.0	28	96	0	105	42	8	10	38	1.71
10495329--10495370	21	2.0	21	100	0	84	33	4	28	33	1.78
10504404--10504458	27	2.0	27	96	0	101	18	16	21	43	1.88
10512179--10512211	17	1.9	17	100	0	66	48	0	12	39	1.40
10524126--10524168	17	2.6	17	81	3	52	32	4	20	41	1.73
10530039--10530076	19	2.0	20	84	5	51	65	5	21	7	1.38
10533773--10533801	13	2.1	14	93	6	51	17	27	55	0	1.42
10535414--10535443	5	5.8	5	96	4	51	16	0	20	63	1.31
10542212--10542250	17	2.3	17	100	0	78	20	5	12	61	1.50
10544041--10544067	13	2.1	13	100	0	54	14	33	37	14	1.88
10561463--10561586	24	5.0	24	84	7	158	39	14	19	26	1.90
10561462--10561597	52	2.7	52	86	4	181	38	14	20	26	1.91
10561621--10561819	51	3.9	51	89	1	310	30	15	26	28	1.96
10562286--10562319	17	2.0	17	100	0	68	29	5	17	47	1.71
10564334--10564445	27	4.1	27	82	10	131	36	21	24	17	1.95
10564334--10564445	54	2.1	54	86	3	154	36	21	24	17	1.95
10572243--10572353	27	4.1	26	80	7	105	36	20	24	18	1.94
10572243--10572353	54	2.1	54	82	3	134	36	20	24	18	1.94
10574738--10574915	27	6.6	27	84	3	205	29	28	15	26	1.96
10574759--10574914	82	1.9	81	88	3	233	29	28	15	26	1.96
10582801--10582978	27	6.6	27	84	3	205	29	28	15	26	1.96
10582822--10582977	82	1.9	81	88	3	233	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10587070--10587171	52	2.0	50	96	1	177	34	22	15	26	1.94
10591097--10591247	75	2.0	75	84	0	194	24	31	17	26	1.97
10605988--10606033	19	2.4	19	77	0	56	17	4	6	71	1.24
10606860--10606917	29	2.0	29	82	0	71	29	5	5	60	1.40
10606957--10606995	18	2.3	17	86	8	53	30	0	0	69	0.89
10614609--10614656	23	2.2	21	81	7	51	29	14	0	56	1.39
10617118--10617250	40	3.3	40	84	2	160	30	22	18	29	1.97
10618170--10618208	19	2.1	19	90	0	60	33	20	15	30	1.94
10622617--10622670	28	2.0	27	85	10	74	20	16	5	57	1.59
10628552--10628590	20	1.9	20	84	5	51	35	17	2	43	1.63

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   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167