genome.fa.s4.2.7.7.80.10.50.1000.161.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  161  of  235  ( 28198 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)
54357125--54357156	16	2.0	16	93	0	55	37	9	6	46	1.61
54358565--54358610	20	2.4	19	82	7	58	52	2	2	43	1.25
54364056--54364291	117	2.0	117	97	0	445	22	12	22	42	1.87
54367022--54367085	31	2.1	31	100	0	128	28	15	17	39	1.90
54376998--54377347	18	19.1	18	71	12	194	39	13	10	36	1.79
54377090--54377213	54	2.3	54	97	0	230	41	12	9	35	1.76
54377516--54377625	45	2.4	45	86	0	148	41	19	19	20	1.90
54377510--54377648	45	2.9	48	78	11	142	40	20	20	18	1.92
54377603--54377627	12	2.1	12	100	0	50	40	20	24	16	1.91
54379358--54379420	5	12.4	5	98	1	117	60	0	0	39	0.97
54379508--54379560	21	2.5	22	78	9	65	58	3	0	37	1.16
54383962--54384257	18	16.1	18	71	8	121	37	14	10	37	1.81
54383962--54384245	36	7.7	36	72	11	171	38	14	10	36	1.81
54384054--54384257	54	3.8	54	76	7	164	37	13	11	37	1.82
54384055--54384257	72	2.8	72	80	6	225	37	13	11	37	1.81
54384055--54384257	36	5.6	36	75	8	189	37	13	11	37	1.81
54384428--54384537	45	2.4	45	90	0	175	42	19	18	20	1.89
54384422--54384565	45	3.0	49	81	11	163	40	20	19	19	1.91
54386280--54386330	7	7.6	7	76	24	56	58	0	0	41	0.98
54386288--54386338	5	9.6	5	87	12	75	60	0	0	39	0.97
54386281--54386335	12	4.8	12	86	13	89	60	0	0	40	0.97
54386283--54386339	3	20.3	3	74	25	54	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54387586--54387726	43	3.3	43	85	4	196	24	31	21	21	1.98
54387728--54387760	17	2.0	17	88	5	50	69	0	0	30	0.88
54388383--54388415	12	2.8	12	100	0	66	36	9	6	48	1.60
54391940--54391988	15	3.5	15	72	16	50	12	57	0	30	1.36
54392456--54392518	23	2.7	23	77	18	85	55	6	0	38	1.25
54392456--54392545	46	2.0	46	84	8	121	55	4	2	37	1.32
54392774--54392819	17	2.8	17	93	3	76	60	10	15	13	1.58
54393701--54393805	7	14.7	7	71	13	63	39	40	0	20	1.53
54393701--54393802	36	2.8	36	82	8	102	37	41	0	21	1.54
54393864--54394098	41	5.8	41	91	0	312	18	25	24	32	1.97
54393901--54394140	81	3.0	81	85	4	252	20	24	22	32	1.97
54394273--54394314	20	2.0	21	90	4	68	50	7	9	33	1.62
54398421--54398448	13	2.2	13	100	0	56	39	14	10	35	1.81
54401108--54401289	40	4.6	40	88	0	265	13	13	28	45	1.81
54406685--54406729	20	2.2	20	84	0	54	35	13	2	48	1.54
54413678--54413846	40	4.2	40	93	1	277	20	23	28	26	1.99
54419956--54420263	40	7.5	40	84	10	336	21	23	28	26	1.99
54419956--54420263	80	3.7	80	82	10	370	21	23	28	26	1.99
54420112--54420210	50	2.0	49	95	0	171	19	22	30	27	1.97
54420072--54420245	90	1.9	89	90	2	269	21	21	29	27	1.98
54425849--54425895	20	2.5	18	83	10	58	72	6	8	12	1.27
54430454--54430578	49	2.6	48	82	6	146	22	28	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54432847--54432883	11	3.2	12	92	7	60	43	0	27	29	1.55
54434312--54434370	27	2.2	27	84	0	73	44	16	13	25	1.85
54434718--54434797	22	3.6	22	74	0	79	22	23	18	35	1.96
54434718--54434823	44	2.4	44	85	0	140	22	20	18	37	1.94
54452556--54452685	66	1.9	67	84	10	174	33	16	30	20	1.94
54456967--54456996	13	2.3	13	94	0	51	36	16	0	46	1.47
54457433--54457502	24	2.9	24	82	0	68	18	21	10	50	1.76
54457459--54457508	24	2.1	24	88	0	73	18	26	12	44	1.84
54460393--54460486	10	9.8	10	67	23	51	32	2	1	63	1.13
54460396--54460484	16	4.9	18	74	19	62	32	2	1	64	1.13
54460391--54460486	40	2.6	36	76	16	97	33	2	1	63	1.13
54462716--54463295	205	2.8	205	91	0	901	30	17	21	30	1.96
54465096--54465153	20	3.0	20	83	16	61	31	5	0	63	1.16
54465119--54465219	14	7.5	13	76	11	89	31	1	0	65	1.10
54465114--54465213	40	2.6	38	83	10	121	32	2	1	65	1.11
54465112--54465216	18	5.9	18	68	22	62	32	1	0	64	1.11
54469363--54469454	46	2.0	46	97	0	175	32	22	13	31	1.92
54473797--54473983	37	5.1	37	90	0	266	26	32	18	22	1.97
54474189--54474616	47	9.1	47	90	0	631	27	29	11	32	1.92
54474188--54474617	141	3.0	141	95	0	770	27	29	11	32	1.92
54475542--54475656	57	2.0	57	100	0	230	35	20	10	33	1.87
54479077--54479212	40	3.4	41	89	2	206	22	24	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54486547--54486661	44	2.6	44	83	2	131	37	13	20	28	1.90
54495936--54496086	75	2.0	74	94	1	266	23	7	27	41	1.80
54497508--54497729	49	4.5	49	83	3	291	29	27	18	24	1.98
54497508--54497729	101	2.2	98	86	2	291	29	27	18	24	1.98
54510834--54510901	21	3.4	20	86	9	95	35	0	7	57	1.27
54518956--54518995	14	2.9	14	85	3	55	22	25	0	52	1.47
54520565--54520645	42	1.9	43	87	2	119	24	18	27	29	1.98
54521469--54521525	30	1.9	30	88	0	87	42	8	22	26	1.83
54522264--54522447	67	2.8	64	80	8	212	28	16	31	23	1.96
54532870--54532984	44	2.6	43	74	14	101	20	18	27	33	1.96
54534078--54534167	29	3.1	28	88	4	126	27	11	28	32	1.91
54537730--54538097	27	13.7	27	78	2	357	39	19	9	31	1.84
54537730--54538093	80	4.5	79	78	8	349	39	19	9	31	1.83
54538052--54538221	27	6.3	27	82	1	180	37	19	18	25	1.94
54537887--54538120	107	2.2	108	92	2	382	39	20	10	29	1.86
54537730--54538094	53	6.8	54	84	4	377	39	20	9	30	1.84
54537887--54538191	81	3.8	81	80	7	237	38	20	13	27	1.90
54538048--54538221	81	2.1	81	81	4	199	37	18	18	25	1.94
54538425--54538494	25	2.8	25	95	0	122	25	25	22	25	2.00
54538424--54538507	25	3.4	24	85	8	107	28	22	22	26	1.99
54538425--54538519	50	1.9	50	82	8	122	27	24	23	25	2.00
54540976--54541019	21	2.1	21	83	8	54	18	29	4	47	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54542412--54542581	46	3.7	46	76	10	166	31	27	18	22	1.97
54542462--54542603	46	3.1	45	72	14	121	30	28	19	22	1.98
54545624--54545680	29	2.0	29	100	0	114	31	10	22	35	1.88
54545923--54546112	95	2.0	95	98	0	371	37	22	14	26	1.92
54548182--54548230	24	2.0	24	100	0	98	42	12	4	40	1.61
54558485--54558556	36	2.0	36	88	0	108	22	29	29	19	1.98
54563140--54563223	43	2.0	43	85	0	114	35	26	14	23	1.93
54566517--54566586	35	2.0	35	88	2	106	37	24	5	32	1.79
54566525--54566591	35	1.9	35	100	0	134	32	25	5	35	1.80
54567073--54567134	30	2.1	30	93	0	106	37	20	14	27	1.92
54568811--54569033	40	5.6	40	85	3	236	26	27	21	24	1.99
54568965--54569042	40	1.9	41	82	10	97	26	28	21	23	1.99
54579647--54579690	19	2.4	18	82	14	54	54	2	6	36	1.40
54583176--54583250	24	3.1	24	90	0	114	30	2	42	24	1.68
54584241--54584271	16	2.0	15	93	6	53	45	12	25	16	1.83
54591036--54591136	24	4.2	24	93	0	166	33	2	40	22	1.69
54594885--54594910	13	2.0	13	100	0	52	15	15	15	53	1.73
54597395--54597506	23	5.0	22	78	8	118	34	19	17	27	1.95
54597395--54597507	45	2.5	45	83	11	140	34	19	18	27	1.95
54601897--54602007	42	2.6	43	78	8	129	23	18	25	33	1.97
54602738--54602780	10	4.0	10	80	16	50	16	4	27	51	1.64
54621506--54621717	40	5.3	39	79	5	228	26	28	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54621506--54621717	80	2.7	80	87	0	309	26	28	20	24	1.99
54628628--54628665	16	2.4	16	82	4	51	55	2	10	31	1.48
54631311--54631444	47	2.8	48	84	5	164	23	19	30	26	1.98
54632419--54632448	12	2.5	12	100	0	60	30	26	36	6	1.82
54632625--54632684	21	2.9	21	85	7	70	10	35	30	25	1.88
54643833--54643974	42	3.3	44	74	12	132	29	21	21	26	1.99
54646135--54646229	48	2.0	49	89	2	147	34	16	25	23	1.95
54655366--54655418	24	2.2	24	96	0	97	32	3	43	20	1.70
54656862--54656962	27	3.8	26	83	6	112	19	24	18	36	1.95
54656852--54656962	54	2.1	53	84	1	141	18	23	20	36	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