genome.fa.s12.2.7.7.80.10.50.1000.17.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   

This is table  17  of  276  ( 33102 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)
5116609--5116686	25	3.2	25	85	7	106	26	19	23	30	1.98
5118619--5118690	33	2.2	33	82	2	81	30	26	19	23	1.98
5118657--5118710	28	1.9	28	84	0	72	31	24	24	20	1.98
5118653--5118718	28	2.4	27	77	7	69	31	22	22	22	1.98
5118879--5118939	27	2.3	27	80	11	79	31	21	24	22	1.98
5119088--5119223	27	5.0	27	77	7	141	26	23	19	30	1.98
5123399--5123468	27	2.6	27	82	8	88	32	18	25	22	1.97
5123416--5123482	27	2.5	26	79	9	73	34	22	19	23	1.97
5129016--5129127	52	2.2	52	81	3	136	21	16	30	31	1.96
5139488--5139596	52	2.1	52	86	3	148	24	18	27	29	1.98
5147989--5148062	34	2.2	34	92	4	123	28	20	22	28	1.99
5158414--5158543	43	3.0	43	81	6	165	24	19	26	29	1.98
5159512--5159539	13	2.2	13	100	0	56	10	14	28	46	1.78
5162233--5162371	51	2.7	51	82	6	149	27	28	17	27	1.97
5162262--5162512	51	4.9	51	78	4	168	31	25	15	26	1.96
5162382--5162510	52	2.5	50	82	2	150	33	24	15	26	1.95
5168060--5168160	44	2.3	44	83	11	129	27	16	19	35	1.94
5177069--5177169	40	2.5	39	84	6	130	28	12	25	32	1.93
5181562--5181733	46	3.7	46	76	13	181	22	19	28	29	1.98
5181555--5181726	93	1.8	93	91	2	283	22	20	27	28	1.99
5189219--5189317	27	3.7	27	83	0	126	39	20	17	23	1.92
5189219--5189322	54	1.9	54	86	0	145	37	19	17	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5189218--5189336	27	4.4	27	80	0	112	36	18	19	25	1.94
5189986--5190037	27	2.0	26	84	3	68	17	23	21	38	1.93
5190076--5190135	27	2.3	27	85	2	77	21	23	20	35	1.96
5193592--5193676	45	1.9	44	85	2	116	29	12	25	31	1.93
5193500--5193720	101	2.2	101	87	4	311	28	15	23	31	1.96
5204851--5205006	68	2.2	68	77	13	149	20	28	16	34	1.94
5208795--5208927	45	3.0	45	89	2	196	27	28	21	22	1.99
5208920--5209882	38	25.3	38	95	0	1696	29	26	22	21	1.99
5215279--5215411	45	3.0	45	89	2	187	28	29	21	21	1.98
5215404--5215739	38	8.8	38	89	1	478	29	25	22	22	1.99
5220895--5221318	48	8.8	48	82	1	429	28	26	17	27	1.97
5220895--5221319	144	3.0	143	85	2	546	28	26	17	27	1.97
5225369--5225425	25	2.3	25	82	11	64	31	14	24	29	1.94
5234746--5234985	49	4.8	49	82	4	293	29	27	18	25	1.98
5234747--5234989	100	2.4	99	85	4	319	29	27	18	24	1.98
5238705--5238802	27	3.5	28	90	2	135	26	13	28	31	1.94
5238733--5238813	27	3.0	27	87	5	92	29	12	25	32	1.92
5240022--5240384	189	1.9	189	97	0	690	35	16	22	26	1.94
5243973--5244199	49	4.6	48	80	6	249	30	26	18	24	1.97
5245573--5245606	6	5.7	6	89	0	50	61	0	20	17	1.34
5248167--5248212	23	2.0	22	91	4	74	56	26	4	13	1.55
5251853--5252238	195	2.0	195	95	0	691	31	25	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5252171--5252346	46	3.8	46	78	14	209	31	27	19	21	1.97
5252997--5253065	34	2.0	34	100	0	138	42	14	5	37	1.70
5253424--5253486	31	2.0	31	93	0	108	42	19	3	34	1.67
5256343--5256442	29	3.4	29	90	0	146	27	31	14	28	1.95
5256343--5256459	29	4.0	29	90	0	144	27	30	14	27	1.95
5276040--5276129	27	3.3	27	85	0	117	27	26	16	28	1.97
5279324--5279423	44	2.3	42	83	8	121	32	23	19	26	1.97
5287623--5287840	40	5.5	40	90	2	316	24	27	24	24	2.00
5289719--5289764	23	2.0	22	87	4	65	58	26	0	15	1.37
5290474--5290572	42	2.3	42	82	1	117	31	22	18	28	1.97
5290455--5290609	43	3.6	42	78	6	134	30	22	18	28	1.97
5297563--5297596	16	2.2	16	89	5	52	50	14	8	26	1.72
5300338--5300380	6	6.7	6	85	15	59	79	4	0	16	0.90
5300342--5300380	20	1.9	21	94	5	71	76	5	0	17	0.96
5305887--5306032	73	2.0	73	90	0	229	31	21	13	33	1.92
5316239--5316390	27	5.6	27	92	3	232	30	28	13	27	1.94
5316239--5316415	55	3.2	55	89	0	246	31	29	12	26	1.93
5316817--5316924	50	2.1	50	98	1	207	29	20	16	33	1.95
5332710--5332805	29	3.3	29	85	1	113	31	30	12	26	1.93
5337194--5337281	29	3.1	28	85	1	95	29	32	13	23	1.93
5337203--5337280	29	2.7	29	88	2	104	30	33	12	23	1.92
5337339--5337373	18	2.0	18	88	5	54	20	48	22	8	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5341423--5341469	20	2.3	20	100	0	94	36	10	19	34	1.86
5341515--5341587	26	2.9	26	89	4	105	24	24	20	30	1.99
5341517--5341600	26	3.4	25	85	8	100	27	21	21	29	1.98
5341808--5341930	38	3.5	34	90	9	153	34	16	25	23	1.95
5341825--5341931	38	2.8	38	98	0	205	36	14	24	25	1.93
5364826--5364863	19	2.0	19	100	0	76	26	26	31	15	1.96
5366500--5366559	30	2.0	30	83	6	77	41	6	23	28	1.79
5373388--5373463	22	3.3	22	66	16	64	30	10	32	26	1.90
5373363--5373824	47	9.7	47	95	0	744	32	8	30	28	1.86
5373363--5373824	239	1.9	235	91	1	753	32	8	30	28	1.86
5376711--5376964	125	2.0	124	93	0	436	33	21	15	29	1.94
5376963--5377122	79	2.0	80	87	1	232	40	18	16	24	1.90
5396272--5396345	35	2.1	35	100	0	148	16	9	18	55	1.67
5399352--5399524	57	3.0	57	98	0	328	35	12	22	28	1.91
5401407--5401499	42	2.2	43	80	5	109	27	19	23	29	1.98
5403390--5403450	10	5.8	10	81	16	61	34	1	6	57	1.34
5404791--5404835	21	2.1	21	100	0	90	37	20	26	15	1.92
5422317--5422618	27	11.2	27	85	0	354	32	7	18	41	1.79
5422317--5422618	54	5.6	54	88	0	417	32	7	18	41	1.79
5424927--5425070	74	1.9	74	97	0	270	37	11	12	38	1.80
5438306--5438401	40	2.4	41	81	6	99	21	17	31	29	1.96
5439873--5440045	46	3.7	46	80	13	219	21	21	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5439870--5440040	93	1.8	93	96	0	315	21	21	29	28	1.98
5445700--5445943	40	6.1	40	84	5	280	26	22	26	25	2.00
5453728--5453952	40	5.7	40	85	5	287	24	21	28	25	1.99
5453735--5453985	119	2.1	119	81	7	278	26	20	27	25	1.99
5456693--5456933	40	5.7	40	68	15	169	26	15	25	32	1.95
5456766--5456914	48	3.3	48	70	14	170	27	15	22	34	1.94
5456706--5456964	88	2.9	88	98	0	500	27	14	23	33	1.94
5457837--5457867	15	2.1	15	93	0	53	38	0	16	45	1.47
5461341--5461397	24	2.4	24	90	0	87	38	7	7	47	1.58
5464294--5464421	54	2.4	54	80	2	141	22	26	23	27	2.00
5465700--5465769	36	1.9	37	85	8	99	50	14	1	34	1.52
5468077--5468121	20	2.2	20	84	7	56	24	26	2	46	1.64
5468087--5468120	11	3.2	11	91	4	52	23	26	0	50	1.50
5468120--5468161	18	2.3	19	87	4	59	16	9	4	69	1.33
5468809--5468839	14	2.2	14	94	0	53	12	0	3	83	0.75
5469016--5469040	2	12.5	2	100	0	50	0	0	48	52	1.00
5474576--5474692	50	2.3	50	88	2	164	25	26	18	29	1.98
5486397--5486444	20	2.6	18	78	21	55	43	2	4	50	1.33
5489231--5489312	42	1.9	43	90	7	132	42	24	10	21	1.85
5497091--5497172	42	1.9	43	87	2	121	43	25	8	21	1.81
5497875--5497930	21	2.7	21	88	0	85	26	8	35	28	1.87
5497875--5497940	21	3.3	20	85	6	73	27	9	36	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5499257--5499283	13	2.1	13	100	0	54	55	14	0	29	1.40
5501276--5501301	5	5.2	5	100	0	52	80	0	0	19	0.71
5502570--5502616	24	2.0	24	84	8	62	34	8	6	51	1.58
5502637--5502680	21	2.0	22	86	4	63	36	2	2	59	1.23
5502654--5502755	24	4.0	25	74	12	84	35	4	2	56	1.36
5502749--5502805	23	2.4	23	85	11	71	29	10	5	54	1.56
5503080--5503113	15	2.3	15	89	0	50	35	2	11	50	1.54
5503431--5503481	25	2.0	25	81	7	59	19	7	1	70	1.21
5512076--5512251	27	6.5	27	82	3	183	26	14	28	30	1.95
5512076--5512230	82	1.9	81	86	4	222	27	14	28	29	1.95

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276