genome.fa.s2.2.7.7.80.10.50.1000.147.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  147  of  322  ( 38559 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)
48302858--48302882	13	1.9	13	100	0	50	84	0	0	16	0.63
48304927--48305033	55	1.9	55	84	0	142	13	29	28	28	1.94
48313023--48313061	20	1.9	21	89	5	62	35	15	0	48	1.45
48313233--48313399	43	4.0	42	76	9	178	29	28	17	23	1.97
48321058--48321253	50	3.9	49	81	1	221	25	19	27	28	1.99
48325126--48325150	13	1.9	13	100	0	50	32	16	24	28	1.96
48326492--48326680	50	3.8	51	82	2	222	24	17	26	31	1.97
48330511--48330562	27	1.9	27	88	0	77	38	19	11	30	1.87
48333602--48333975	193	1.9	193	87	0	541	35	22	14	28	1.93
48335736--48335760	13	1.9	13	100	0	50	32	4	24	40	1.73
48336874--48337037	43	3.8	44	75	12	171	25	16	27	30	1.97
48345015--48345487	157	3.0	157	99	0	937	31	5	20	42	1.75
48348786--48348970	40	4.6	39	84	5	212	24	22	27	25	2.00
48348786--48348970	79	2.3	81	83	7	227	24	22	27	25	2.00
48348839--48349003	79	2.1	79	84	6	210	26	21	27	25	1.99
48351316--48351578	47	5.6	44	72	15	183	28	19	29	22	1.98
48357894--48357922	15	1.9	15	100	0	58	65	0	0	34	0.93
48365494--48365668	46	3.8	46	77	7	183	28	28	21	22	1.99
48365502--48365671	93	1.8	93	90	0	277	28	27	21	22	1.99
48369227--48369258	16	2.0	16	93	0	55	25	3	12	59	1.48
48370247--48370306	27	2.2	28	84	3	77	38	25	20	16	1.93
48377372--48377411	19	2.1	19	90	0	62	45	12	7	35	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48388855--48389044	46	4.1	45	73	13	156	30	20	26	22	1.98
48396538--48396757	46	4.8	45	78	10	182	28	20	29	21	1.98
48400709--48400748	21	2.0	20	85	5	53	12	37	27	22	1.90
48407952--48407977	12	2.2	12	100	0	52	50	7	0	42	1.31
48408457--48408634	27	6.6	27	82	3	187	28	15	26	29	1.96
48408454--48408633	82	2.2	81	81	3	209	28	15	26	30	1.96
48411324--48411416	45	2.1	45	85	0	123	26	9	12	50	1.71
48413994--48414142	44	3.5	42	82	9	135	24	17	26	30	1.97
48413994--48414150	43	3.7	42	77	13	160	24	17	27	31	1.97
48414870--48414910	20	1.9	22	85	14	59	26	2	26	43	1.67
48417768--48418021	37	6.9	37	99	0	490	24	19	32	24	1.98
48419365--48419536	40	4.3	40	90	0	272	25	20	27	26	1.99
48419362--48419558	80	2.5	80	89	2	299	26	20	26	26	1.99
48419564--48419731	57	2.9	57	88	0	237	22	17	29	30	1.97
48419596--48419697	29	3.6	29	77	7	100	22	16	31	29	1.96
48419568--48419724	28	5.5	28	75	6	127	21	18	29	30	1.97
48422282--48422387	37	2.9	37	97	0	194	24	19	32	23	1.98
48435059--48435187	43	3.0	43	83	1	143	25	20	30	24	1.98
48435121--48435267	40	3.6	41	75	5	136	27	21	27	23	1.99
48439747--48439909	46	3.5	46	85	7	199	28	18	30	22	1.97
48442307--48442340	10	3.5	10	88	8	52	76	0	0	23	0.79
48442905--48442947	21	2.0	21	100	0	86	32	9	13	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48443225--48443309	31	2.8	30	73	5	91	43	11	10	34	1.76
48443493--48443537	23	2.0	23	95	0	81	35	6	8	48	1.61
48444299--48444360	31	2.0	32	87	3	90	29	12	14	43	1.83
48446996--48447178	40	4.6	40	83	6	140	25	21	27	26	1.99
48447049--48447178	40	3.3	39	88	3	179	24	21	27	26	1.99
48449356--48449410	28	2.0	28	85	7	76	20	38	21	20	1.94
48461021--48461136	45	2.6	45	81	2	153	33	27	13	25	1.94
48463812--48463920	43	2.6	41	80	13	116	28	24	21	25	1.99
48480924--48481042	47	2.5	47	83	2	139	32	9	31	26	1.88
48487167--48487298	48	2.8	48	84	3	169	27	18	24	29	1.98
48490587--48490648	25	2.8	20	74	21	70	48	16	6	29	1.70
48492121--48492244	41	2.9	43	80	8	139	22	16	29	31	1.96
48493709--48493768	28	2.1	29	84	3	77	30	21	3	45	1.68
48497245--48497417	93	1.9	93	88	2	267	27	28	21	21	1.99
48497238--48497413	46	3.8	46	72	14	155	28	27	21	21	1.99
48499811--48499887	15	5.1	15	70	9	50	54	14	18	12	1.71
48501690--48502141	47	9.6	47	92	3	653	32	9	30	27	1.88
48501690--48502141	141	3.2	141	90	3	719	32	9	30	27	1.88
48501991--48502113	22	5.3	22	62	21	63	34	11	29	25	1.91
48510766--48510828	24	2.6	24	79	0	72	20	15	33	30	1.94
48521912--48522115	53	3.8	53	72	5	140	35	18	24	21	1.95
48526084--48526272	39	4.8	39	82	3	128	29	27	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48526141--48526335	40	4.9	40	85	1	268	27	28	23	20	1.99
48526141--48526335	79	2.5	79	88	0	291	27	28	23	20	1.99
48526119--48526313	39	4.9	39	82	3	212	28	27	22	21	1.99
48533011--48533202	39	4.9	39	83	1	168	28	26	24	20	1.99
48532996--48533301	40	7.7	40	80	3	280	27	26	24	22	2.00
48533067--48533301	79	3.0	79	83	3	294	27	27	23	21	1.99
48532992--48533269	118	2.3	118	83	0	331	28	26	23	21	1.99
48542493--48543585	357	3.1	358	98	0	2071	27	4	26	41	1.74
48549268--48549306	21	1.9	20	89	5	60	46	23	2	28	1.65
48550272--48550310	20	2.0	20	84	0	51	35	0	17	46	1.49
48552107--48552291	79	2.3	81	83	7	227	24	22	27	24	2.00
48552108--48552291	40	4.6	40	82	9	207	25	22	27	24	2.00
48552160--48552324	79	2.1	79	83	6	201	26	21	27	24	1.99
48559524--48559746	39	5.7	40	86	7	273	25	22	27	24	2.00
48559524--48559746	79	2.8	81	85	8	282	25	22	27	24	2.00
48559524--48559779	79	3.3	79	82	9	224	26	21	27	24	1.99
48568166--48568217	26	2.0	26	92	0	86	40	21	9	28	1.84
48575957--48576122	46	3.6	44	76	15	156	29	19	28	22	1.98
48575960--48576128	94	1.8	92	87	2	248	30	18	28	22	1.98
48575957--48576168	46	4.6	46	72	9	144	29	19	27	23	1.98
48575958--48576220	46	5.8	44	70	13	106	28	19	27	23	1.99
48582509--48582691	79	2.3	81	84	7	232	24	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48582510--48582693	40	4.6	40	85	8	232	23	22	28	25	2.00
48582561--48582726	79	2.1	79	82	6	203	25	21	27	25	1.99
48586537--48586709	49	3.5	49	78	9	188	28	27	18	25	1.98
48586527--48586714	100	1.9	100	89	0	295	28	26	19	25	1.99
48591571--48591748	46	3.9	47	78	12	208	29	27	20	23	1.99
48592162--48592221	30	2.0	30	90	0	93	30	25	8	36	1.85
48599162--48599332	93	1.8	93	93	0	297	28	28	21	22	1.99
48599157--48599329	46	3.7	46	79	10	208	29	27	20	22	1.99
48599750--48599809	30	2.0	30	90	0	93	30	25	8	36	1.85
48609563--48609747	79	2.3	82	84	7	229	24	27	22	24	2.00
48609544--48609747	40	5.1	40	81	8	229	24	27	22	25	2.00
48610877--48611049	56	3.1	56	92	5	307	21	23	8	46	1.79
48616850--48617034	79	2.3	82	84	7	229	24	27	22	24	2.00
48616831--48617034	40	5.1	40	81	8	229	24	27	22	25	2.00
48618164--48618336	56	3.1	56	92	5	307	21	23	8	46	1.79
48620207--48620272	27	2.4	27	92	0	114	21	18	18	42	1.89
48624844--48624894	25	2.0	25	88	0	75	29	23	19	27	1.98
48624934--48624972	10	3.8	10	86	6	60	30	17	17	33	1.94
48624933--48624972	21	1.9	21	94	0	71	32	17	17	32	1.93
48637679--48637741	30	2.1	30	93	0	108	58	11	3	26	1.47
48641854--48642028	27	6.5	26	81	6	163	25	16	29	29	1.97
48650026--48650184	46	3.4	45	77	14	162	22	21	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48655229--48655504	39	7.1	39	89	0	417	21	25	29	24	1.99
48658759--48658893	66	2.0	66	95	0	243	28	5	28	37	1.78
48658936--48659074	75	1.9	75	89	0	215	43	10	23	23	1.85
48661258--48661572	39	8.1	39	93	0	531	20	25	30	23	1.99
48667306--48667560	40	6.4	39	86	6	225	26	26	21	24	2.00
48667339--48667563	40	5.6	40	90	1	344	28	26	21	23	1.99
48672936--48673159	40	5.6	40	86	4	283	24	24	27	24	2.00
48681073--48681256	40	4.6	40	85	2	228	23	25	27	23	2.00
48686124--48686421	40	7.5	40	90	3	401	25	27	23	23	2.00
48693396--48694526	96	11.8	96	97	0	1986	33	8	29	28	1.86

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   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322