genome.fa.s10.2.7.7.80.10.50.1000.87.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   168   169   170   171   172   

This is table  87  of  172  ( 20562 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)
28979316--28979346	15	2.1	15	100	0	62	38	9	12	38	1.77
28986315--28986427	23	4.8	23	76	14	83	34	14	22	29	1.93
28986315--28986427	46	2.4	46	78	12	115	34	14	22	29	1.93
29004264--29004290	3	9.0	3	100	0	54	66	0	0	33	0.92
29004327--29004360	15	2.2	16	94	5	61	82	0	17	0	0.67
29005986--29006053	29	2.3	29	85	5	93	27	30	13	27	1.94
29006160--29006227	29	2.3	29	85	5	93	27	30	13	27	1.94
29006335--29006406	29	2.5	30	82	13	96	30	29	12	27	1.93
29005875--29006375	174	2.9	174	97	0	941	31	24	13	29	1.94
29016655--29016702	23	2.1	22	96	3	87	20	27	12	37	1.89
29017469--29017509	21	1.9	22	85	5	57	41	14	0	43	1.45
29018724--29018753	15	1.9	16	93	6	53	20	20	6	53	1.67
29023069--29023106	18	2.0	20	85	10	53	39	2	18	39	1.65
29029154--29029338	40	4.7	40	82	7	209	23	22	28	25	1.99
29029207--29029371	79	2.1	79	83	6	201	25	20	27	26	1.99
29031818--29032180	46	7.7	49	77	12	293	23	28	19	27	1.98
29031814--29032183	94	3.9	94	76	14	329	24	28	19	27	1.98
29031821--29032181	140	2.5	142	83	7	450	24	28	19	27	1.98
29038425--29038481	27	2.1	27	83	6	71	36	19	21	22	1.95
29038460--29038552	27	3.4	27	86	0	105	23	18	19	38	1.93
29047584--29048441	67	12.8	67	99	0	1664	19	31	19	30	1.96
29048876--29048911	19	1.9	19	88	5	56	47	11	0	41	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29049209--29049267	30	2.0	30	86	0	82	32	23	6	37	1.81
29058833--29058884	27	2.0	26	84	3	68	17	26	21	34	1.95
29058923--29059009	27	3.3	27	86	1	95	21	20	19	37	1.94
29060385--29060605	79	2.8	78	82	7	241	24	27	21	25	1.99
29060385--29060607	39	5.7	40	85	6	262	25	27	21	25	2.00
29062923--29063199	27	10.3	27	88	0	401	23	25	19	31	1.98
29071602--29071674	36	2.0	36	97	0	137	47	12	26	13	1.78
29075864--29076298	48	9.0	48	91	0	690	36	5	26	31	1.81
29080100--29080165	33	2.0	34	84	3	89	25	22	21	30	1.99
29080138--29080198	28	2.2	28	84	0	77	29	26	21	22	1.99
29080356--29080431	27	2.8	27	80	7	75	38	22	19	19	1.94
29080596--29080692	27	3.6	27	81	2	106	25	21	19	32	1.97
29080605--29080670	26	2.5	27	87	5	98	25	25	18	30	1.98
29083642--29083808	42	3.9	42	73	8	131	24	16	26	32	1.96
29085640--29085671	6	5.7	6	92	7	50	15	0	0	84	0.63
29087402--29087624	119	1.9	120	84	6	301	25	27	22	24	2.00
29087400--29087624	40	5.7	40	85	6	287	25	28	22	24	2.00
29093591--29093748	79	2.0	79	98	0	307	24	15	21	38	1.92
29096570--29096841	147	1.9	147	81	4	334	29	29	12	28	1.93
29097230--29097275	19	2.3	20	88	7	76	23	10	17	47	1.79
29100483--29100649	46	3.6	45	76	7	174	28	29	20	22	1.98
29100482--29100653	93	1.8	93	92	0	290	27	29	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29101973--29102052	39	2.0	40	85	7	110	33	20	12	33	1.90
29120742--29120777	18	2.1	18	89	5	56	25	8	16	50	1.73
29131293--29131641	47	7.5	47	72	16	323	31	29	16	21	1.96
29131247--29131697	93	4.8	93	97	0	821	31	29	17	22	1.96
29133957--29134063	53	2.0	53	98	0	205	43	15	21	18	1.87
29138831--29138873	19	2.3	19	92	4	70	44	23	4	27	1.73
29140683--29140802	43	2.9	41	72	13	100	25	20	25	28	1.99
29141235--29141264	13	2.3	13	94	0	51	23	3	13	60	1.48
29149459--29149527	30	2.3	30	82	7	88	59	15	14	10	1.61
29149459--29149527	15	4.7	15	77	8	70	59	15	14	10	1.61
29152485--29152834	47	7.5	47	75	19	358	29	28	20	22	1.98
29152437--29152890	93	4.9	93	98	0	854	29	28	20	21	1.98
29160692--29160729	20	1.9	19	89	5	58	15	7	2	73	1.17
29160723--29160774	24	2.2	25	82	6	63	28	5	1	63	1.28
29170081--29170135	25	2.2	25	100	0	110	36	12	20	30	1.90
29172664--29174758	699	3.0	697	97	0	3942	29	21	14	34	1.93
29175447--29175666	40	5.6	40	82	4	250	25	26	22	24	2.00
29182396--29182451	15	3.7	16	88	7	82	60	10	16	12	1.58
29185356--29185484	46	2.8	46	91	0	204	28	27	21	22	1.99
29190947--29191123	43	4.1	43	92	0	291	12	22	32	32	1.92
29191303--29191385	28	2.9	28	75	7	96	24	20	30	25	1.99
29191309--29191405	28	3.4	27	73	7	77	22	18	31	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29192857--29193070	104	2.0	104	97	0	401	28	14	19	38	1.90
29193165--29193277	57	2.0	57	98	0	217	29	8	23	38	1.85
29201354--29201430	29	2.6	29	85	2	100	24	15	31	28	1.96
29201383--29201710	174	1.9	174	98	0	638	29	14	25	30	1.95
29205634--29205737	48	2.2	48	92	0	172	33	5	27	32	1.81
29205873--29205944	37	1.9	37	94	0	126	22	20	34	22	1.97
29208705--29208912	53	3.9	54	84	4	249	23	25	16	35	1.95
29208716--29208912	55	3.6	54	84	4	245	22	24	16	35	1.95
29208892--29209099	47	4.5	47	74	10	169	23	22	17	36	1.95
29215243--29215297	25	2.2	25	81	12	60	49	5	3	41	1.43
29215269--29215344	37	2.1	36	83	11	93	56	3	1	38	1.26
29215361--29215402	21	2.0	21	100	0	84	33	14	9	42	1.78
29220636--29220743	44	2.4	44	85	3	135	30	23	13	32	1.93
29222073--29222161	27	3.3	27	87	1	117	19	28	19	33	1.96
29226603--29227058	228	2.0	228	99	0	903	27	13	16	42	1.86
29245578--29245623	23	2.0	22	87	4	65	32	26	19	19	1.95
29246384--29246452	22	3.1	22	87	4	95	11	24	27	36	1.90
29246585--29246637	27	2.0	27	85	7	72	16	28	26	28	1.97
29249222--29249326	53	2.0	53	82	0	129	20	27	18	34	1.95
29273443--29273627	79	2.3	81	84	7	236	24	22	27	25	2.00
29273444--29273627	40	4.6	40	83	9	216	24	22	27	25	2.00
29273444--29273660	79	2.7	79	81	7	201	25	22	27	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29296380--29296410	6	5.3	6	92	7	55	83	0	16	0	0.64
29313729--29313885	43	3.7	43	77	10	162	24	17	27	29	1.98
29318609--29318755	47	3.1	47	90	0	213	35	10	27	26	1.89
29318965--29319070	37	2.9	37	92	0	167	25	17	30	26	1.98
29320359--29320473	41	2.8	41	80	3	117	32	26	15	26	1.96
29320402--29320505	41	2.5	41	85	3	129	30	25	16	26	1.97
29322725--29322755	16	1.9	16	93	0	53	35	22	0	41	1.54
29322722--29322761	20	2.0	20	85	0	53	37	22	0	40	1.54
29322834--29322878	23	1.9	24	90	4	74	22	20	11	46	1.81
29323016--29323841	108	7.6	108	99	0	1609	23	25	16	34	1.95
29334666--29334696	16	1.9	16	93	0	53	35	22	0	41	1.54
29334663--29334702	20	2.0	20	85	0	53	37	22	0	40	1.54
29334775--29334819	23	1.9	24	90	4	74	22	20	11	46	1.81
29334887--29335141	55	4.8	54	81	8	258	22	26	16	34	1.95
29334934--29335134	108	1.8	110	87	4	300	23	26	16	32	1.96
29337562--29337644	44	1.9	43	85	7	114	32	24	15	27	1.95
29356488--29356671	40	4.6	41	81	12	208	25	22	27	25	2.00
29356488--29356671	79	2.3	81	82	11	222	25	22	27	25	2.00
29356540--29356704	79	2.1	79	82	8	194	26	21	27	24	1.99
29357401--29357473	32	2.2	33	90	4	112	46	8	23	21	1.78
29358908--29358946	14	2.7	14	84	4	51	51	2	2	43	1.29
29359796--29359986	98	1.9	98	92	0	319	30	18	15	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29367173--29367366	44	4.4	45	81	5	225	25	22	19	33	1.97
29378314--29378491	27	6.6	27	84	3	205	29	28	15	26	1.96
29378335--29378490	82	1.9	81	88	3	233	29	28	15	26	1.96
29386378--29386555	27	6.6	27	84	3	205	29	28	15	26	1.96
29386399--29386554	82	1.9	81	88	3	233	29	28	15	26	1.96
29389435--29389612	27	6.6	27	84	3	205	29	28	15	26	1.96
29389456--29389611	82	1.9	81	88	3	233	29	28	15	26	1.96
29392743--29393200	47	9.7	47	99	0	880	31	8	30	29	1.87
29393318--29393396	37	2.1	37	90	0	122	24	18	31	25	1.98
29396902--29397122	46	4.7	46	74	10	182	28	17	28	24	1.97

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   168   169   170   171   172