genome.fa.s2.2.7.7.80.10.50.1000.121.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  121  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)
39550997--39551168	94	1.8	93	85	5	238	23	27	19	29	1.98
39561522--39561740	46	4.6	47	71	11	119	23	26	20	28	1.99
39561568--39561740	94	1.8	93	83	4	231	24	26	20	29	1.99
39568241--39569185	472	2.0	472	97	0	1773	31	25	17	25	1.97
39569779--39569988	46	4.5	47	77	10	180	23	26	20	30	1.98
39569673--39569846	92	1.9	94	85	7	248	25	28	20	25	1.99
39569815--39569997	46	3.9	46	79	10	185	24	27	19	29	1.98
39569819--39569998	94	1.9	94	81	4	220	24	27	18	29	1.98
39574203--39574394	40	4.8	40	84	3	228	23	19	27	28	1.99
39581980--39582172	40	4.8	40	83	1	228	26	19	27	25	1.99
39585981--39586089	26	4.3	26	85	6	138	29	22	19	28	1.98
39586846--39586973	54	2.4	55	78	12	133	27	10	23	39	1.87
39586897--39586969	27	2.7	27	84	0	101	26	9	26	38	1.87
39587006--39587085	27	3.0	27	88	0	115	46	8	16	28	1.77
39587017--39587539	27	19.3	26	75	11	207	34	8	20	37	1.83
39594059--39594231	46	3.7	46	78	13	210	21	21	27	28	1.99
39594056--39594226	93	1.8	93	96	0	315	21	21	28	28	1.99
39613420--39613553	56	2.4	56	92	0	214	33	23	15	27	1.95
39623042--39623067	5	5.2	5	100	0	52	0	23	0	76	0.78
39627701--39627859	43	3.7	42	78	2	147	31	25	18	25	1.97
39627756--39627860	44	2.4	43	85	3	140	34	25	16	23	1.95
39634434--39634614	41	4.6	40	77	7	172	24	25	23	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39639041--39639180	42	3.3	43	80	14	139	31	21	19	27	1.97
39639041--39639180	43	3.3	42	78	16	112	31	21	19	27	1.97
39640849--39640885	17	2.2	17	90	0	56	48	10	18	21	1.78
39641324--39641372	23	2.0	24	84	7	64	16	30	4	48	1.64
39641324--39641372	21	2.3	20	82	6	53	16	30	4	48	1.64
39642179--39642217	21	1.9	20	89	5	60	33	0	20	46	1.51
39644142--39644178	17	2.2	17	90	0	56	48	10	18	21	1.78
39644617--39644665	23	2.0	24	84	7	64	16	30	4	48	1.64
39644617--39644665	21	2.3	20	82	6	53	16	30	4	48	1.64
39645472--39645510	21	1.9	20	89	5	60	33	0	20	46	1.51
39651233--39651325	28	3.3	28	87	0	105	30	34	10	24	1.90
39651837--39651876	21	1.9	21	84	0	53	35	25	10	30	1.88
39653948--39654054	27	4.0	27	83	0	115	27	15	16	40	1.89
39654711--39654744	18	1.9	17	88	5	50	52	11	11	23	1.70
39654732--39654794	6	10.3	6	80	10	74	49	14	17	19	1.80
39655254--39655475	78	2.8	78	89	0	336	32	27	19	19	1.97
39655481--39655563	27	3.1	26	83	10	96	37	19	22	20	1.94
39655787--39656191	27	15.0	27	86	1	553	24	20	20	34	1.96
39656183--39656244	27	2.3	27	88	5	90	32	12	17	37	1.88
39655805--39656252	81	5.5	82	84	4	495	25	19	19	34	1.96
39656195--39656338	27	5.3	27	88	2	191	30	11	19	38	1.86
39656210--39656359	54	2.8	53	84	4	151	28	9	22	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39674311--39674368	30	1.9	30	85	0	80	29	24	6	39	1.81
39687253--39687514	80	3.3	79	82	3	276	24	20	27	26	1.99
39687306--39687514	40	5.3	39	92	1	274	24	21	28	26	1.99
39700099--39700283	79	2.3	81	84	7	236	24	22	27	25	2.00
39700100--39700283	40	4.6	40	83	9	216	24	22	27	25	2.00
39700152--39700316	79	2.1	79	84	6	210	26	21	27	25	1.99
39706012--39706054	18	2.4	19	81	18	56	72	0	4	23	1.04
39715566--39715726	46	3.5	45	73	11	164	27	28	21	21	1.99
39729596--39729638	21	2.1	21	87	12	63	46	20	13	18	1.83
39731190--39731297	26	4.2	26	93	0	189	36	24	7	32	1.83
39734497--39734538	22	1.9	22	90	0	66	33	7	21	38	1.81
39741736--39741776	15	2.7	15	88	0	55	48	0	14	36	1.44
39741898--39742074	3	58.7	3	70	15	91	62	2	4	31	1.28
39741966--39742008	16	2.6	17	82	10	54	65	0	4	30	1.13
39742654--39742682	11	2.6	11	100	0	58	0	17	0	82	0.66
39755968--39756007	21	1.9	21	89	0	62	27	40	22	10	1.86
39763585--39763692	26	4.2	26	93	0	189	32	7	24	36	1.83
39767841--39767865	3	8.3	3	100	0	50	36	0	0	64	0.94
39768230--39768258	2	14.5	2	100	0	58	48	0	0	51	1.00
39768500--39768585	42	2.0	42	97	0	163	44	4	18	32	1.71
39769704--39769738	7	5.0	7	96	0	61	14	40	0	45	1.45
39776586--39776625	21	1.9	21	100	0	80	37	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39787110--39787144	18	2.0	18	88	5	54	68	0	0	31	0.90
39787433--39787523	35	2.5	37	91	8	150	36	15	10	37	1.83
39787433--39787523	19	4.9	19	92	8	161	36	15	10	37	1.83
39787876--39788075	45	4.5	45	82	1	231	25	28	14	33	1.94
39787876--39788149	45	6.1	45	74	8	225	25	26	15	32	1.95
39787876--39788048	89	1.9	90	85	3	242	26	28	12	32	1.93
39788110--39789007	78	11.5	78	97	0	1516	25	24	17	32	1.97
39788950--39789538	220	2.7	220	95	1	1047	28	22	17	32	1.96
39791583--39791671	44	2.0	44	97	0	169	29	25	14	30	1.95
39801081--39801115	18	2.0	18	88	5	54	68	0	0	31	0.90
39801405--39801495	19	4.9	19	86	8	134	36	12	10	40	1.78
39804482--39804540	30	1.9	31	86	3	84	50	1	18	28	1.56
39809853--39809922	29	2.4	29	80	7	70	40	12	7	40	1.71
39813072--39813242	93	1.8	93	94	0	306	27	28	22	21	1.99
39813067--39813239	46	3.7	46	77	13	201	28	27	21	21	1.99
39813656--39813715	30	2.0	30	90	0	93	30	25	8	36	1.85
39819964--39820028	28	2.3	28	89	0	103	36	10	23	29	1.88
39820403--39820427	11	2.3	11	100	0	50	52	24	8	16	1.70
39823552--39823595	21	2.1	21	82	0	52	31	4	6	56	1.46
39824125--39824168	22	1.9	22	86	9	61	65	2	0	31	1.05
39824668--39824705	3	12.7	3	100	0	76	31	0	0	68	0.90
39832875--39832936	29	2.3	25	84	15	72	58	8	4	29	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39836961--39836993	15	2.2	15	100	0	66	69	6	24	0	1.10
39837524--39837556	11	3.0	11	95	0	57	30	0	0	69	0.88
39837523--39837556	15	2.3	15	90	10	52	29	0	0	70	0.87
39841933--39841957	7	3.6	7	100	0	50	88	0	0	12	0.53
39843481--39843630	27	5.5	27	81	3	140	28	28	15	27	1.96
39843481--39843658	54	3.3	54	78	7	173	30	26	15	26	1.96
39843481--39843657	27	6.5	27	77	8	137	30	27	15	26	1.96
39847598--39847700	53	1.9	53	96	0	188	28	19	23	29	1.98
39856320--39856491	40	4.3	40	88	2	222	25	27	21	25	1.99
39856322--39856544	40	5.6	39	83	5	216	25	27	21	25	1.99
39856320--39856544	80	2.8	79	80	7	240	25	27	21	25	1.99
39856476--39856553	40	1.9	41	82	10	97	26	28	20	24	1.99
39858546--39858776	40	5.8	40	90	2	324	24	21	27	26	1.99
39864537--39864822	143	2.0	143	84	0	374	25	20	24	28	1.99
39865088--39865292	105	2.0	105	90	1	322	28	17	27	26	1.98
39870906--39871087	79	2.3	80	82	11	216	24	26	22	25	2.00
39870906--39871087	40	4.6	41	82	12	195	24	26	22	25	2.00
39872218--39872321	51	2.0	51	94	3	183	23	18	23	35	1.95
39879300--39879662	27	13.7	26	70	12	82	39	19	8	32	1.82
39879411--39879661	54	4.6	54	85	1	270	39	19	8	31	1.82
39879454--39879664	109	1.9	109	85	5	293	38	18	9	33	1.82
39879647--39879976	27	12.3	27	88	0	464	33	20	21	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39880403--39880467	22	3.0	22	75	8	60	20	20	23	36	1.95
39885208--39885315	26	4.2	26	90	0	171	34	7	22	36	1.82
39886913--39887043	27	4.9	27	80	11	153	20	25	20	32	1.97
39886911--39887043	54	2.5	54	92	1	214	20	26	20	33	1.97
39892319--39892426	26	4.2	26	89	0	162	32	7	23	37	1.82
39894025--39894111	27	3.2	27	79	9	97	18	21	22	36	1.95
39894282--39894422	27	5.2	27	80	11	173	19	24	22	33	1.97
39894279--39894422	54	2.7	54	93	2	236	18	25	22	33	1.97
39894433--39894599	84	2.0	84	97	0	316	16	20	34	28	1.94
39895042--39895314	137	2.0	137	97	0	519	41	20	9	28	1.84

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