genome.fa.s7.2.7.7.80.10.50.1000.111.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  111  of  290  ( 34714 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)
37766582--37766957	92	3.9	98	80	11	356	39	18	16	26	1.91
37766681--37767037	92	3.9	91	83	7	424	37	18	17	26	1.93
37766841--37766873	14	2.4	14	94	0	57	63	6	12	18	1.48
37766683--37767037	184	2.0	178	85	5	480	36	18	17	27	1.93
37766974--37767321	77	4.6	75	82	6	427	30	20	17	31	1.96
37767337--37768169	75	10.8	75	85	9	893	33	23	15	28	1.95
37767916--37768174	74	3.5	73	80	9	299	30	25	15	28	1.96
37767718--37768021	166	1.8	165	83	8	404	32	22	17	27	1.96
37775197--37775231	16	2.3	15	90	5	52	62	2	2	31	1.24
37778609--37778667	29	2.0	29	100	0	118	49	6	13	30	1.68
37779340--37779378	19	2.0	20	90	5	62	48	15	0	35	1.45
37779441--37779480	20	1.9	20	85	10	53	37	10	12	40	1.77
37780894--37780921	5	5.6	5	100	0	56	42	17	0	39	1.50
37781568--37781602	15	2.2	16	90	5	54	2	22	2	71	1.13
37781615--37781647	15	2.2	15	89	10	50	3	9	6	81	0.95
37789578--37789602	11	2.3	11	100	0	50	40	0	36	24	1.55
37793386--37793429	22	2.0	22	82	8	54	34	13	13	38	1.84
37798599--37798705	56	1.9	55	98	0	196	31	25	16	25	1.96
37799664--37799702	20	2.0	20	85	10	53	30	2	2	64	1.21
37802773--37802810	16	2.4	16	91	8	60	39	2	0	57	1.12
37802770--37802812	16	2.5	17	82	17	54	39	2	0	58	1.11
37802782--37802819	16	2.3	17	81	9	51	39	5	0	55	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37805778--37805913	62	2.2	62	93	0	236	28	22	23	25	1.99
37817317--37817349	15	2.2	15	100	0	66	45	21	6	27	1.75
37819905--37819944	11	3.7	11	86	3	55	65	0	0	35	0.93
37822457--37822486	13	2.3	13	100	0	60	30	6	33	30	1.83
37822604--37822699	49	2.0	48	89	2	147	32	29	7	30	1.84
37826733--37826779	22	2.1	22	88	7	69	55	4	0	40	1.19
37832651--37832677	2	13.5	2	100	0	54	51	48	0	0	1.00
37846713--37846756	22	1.9	23	81	9	54	50	0	15	34	1.45
37847351--37847388	10	3.4	11	85	14	51	7	34	0	57	1.28
37848022--37848060	17	2.3	17	86	8	53	84	0	10	5	0.76
37852030--37852065	18	2.0	18	88	0	54	58	25	0	16	1.38
37852661--37852751	33	2.8	33	80	6	105	31	29	16	21	1.95
37856661--37856784	61	2.0	61	95	0	221	32	33	8	25	1.87
37859002--37859070	34	2.0	34	97	0	129	43	20	11	24	1.85
37879460--37879484	5	5.0	5	100	0	50	20	0	80	0	0.72
37886354--37886453	49	2.0	49	94	0	173	18	26	24	32	1.97
37891480--37891505	3	8.7	3	100	0	52	34	65	0	0	0.93
37891531--37891560	3	10.0	3	92	0	51	33	36	0	30	1.58
37892634--37892721	29	3.0	28	70	8	77	42	3	1	53	1.25
37895384--37895433	23	2.2	24	85	10	77	36	0	12	52	1.39
37895393--37895435	13	3.5	13	81	18	65	34	0	16	48	1.46
37895391--37895437	23	2.0	23	100	0	94	36	0	17	46	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37900117--37900172	27	2.1	26	87	9	78	75	0	0	25	0.81
37900119--37900172	15	3.7	14	79	20	58	74	0	0	25	0.83
37900134--37900184	14	3.9	13	75	17	52	70	0	1	27	0.98
37904451--37904625	70	2.5	70	93	0	287	30	12	21	35	1.91
37904451--37904632	35	5.2	35	84	5	233	30	12	21	35	1.90
37906996--37907045	19	2.6	19	84	6	57	24	24	2	50	1.60
37908755--37909055	90	3.3	90	100	0	602	25	13	23	37	1.91
37910185--37910240	22	2.5	21	83	11	76	16	33	32	17	1.92
37910566--37910593	10	2.8	10	100	0	56	0	28	0	71	0.86
37912451--37912501	17	2.8	19	80	14	63	23	0	7	68	1.15
37921755--37921893	52	2.6	52	78	10	140	30	23	17	28	1.97
37929172--37929372	52	4.0	51	81	8	225	27	28	18	25	1.98
37932040--37932073	18	1.9	18	88	5	52	8	35	2	52	1.47
37933118--37933160	18	2.4	18	88	3	61	6	11	6	74	1.21
37933135--37933217	14	5.6	14	77	16	71	14	8	3	73	1.20
37933196--37933227	11	2.6	13	90	9	50	9	3	6	81	0.97
37936265--37936313	25	2.0	25	95	0	89	22	16	16	44	1.86
37939738--37939762	6	4.2	6	100	0	50	16	0	16	68	1.22
37944812--37944861	7	7.0	7	75	20	50	42	26	2	30	1.66
37947087--37947145	24	2.4	25	80	11	68	55	5	3	35	1.38
37970914--37970952	19	2.1	19	95	0	69	30	12	10	46	1.75
37971506--37971605	52	1.9	52	95	0	182	41	11	19	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37974663--37974719	29	2.0	29	82	6	71	19	24	33	22	1.97
37981307--37981333	6	4.5	6	100	0	54	81	0	0	18	0.69
37984182--37984277	21	4.5	21	89	2	129	36	27	22	13	1.92
37984182--37984287	42	2.5	43	84	3	142	35	26	22	15	1.93
37984660--37984713	15	3.5	15	82	12	74	53	11	0	35	1.36
37985969--37985996	13	2.2	13	100	0	56	0	14	7	78	0.95
37997422--37997457	13	2.8	13	100	0	72	22	13	25	38	1.91
38000105--38000254	39	3.8	39	91	0	210	26	20	28	24	1.99
38006651--38006800	39	3.8	39	90	0	219	25	19	30	25	1.98
38016880--38016931	20	2.6	20	82	14	63	25	0	7	67	1.17
38016857--38016910	18	3.2	16	80	17	56	22	1	3	72	1.10
38030329--38030353	3	8.3	3	100	0	50	32	0	0	68	0.90
38030342--38030392	23	2.1	23	82	7	57	37	5	7	49	1.56
38030565--38030621	26	2.2	24	84	9	69	31	7	5	56	1.49
38031611--38031654	22	2.0	22	100	0	88	27	13	13	45	1.81
38042749--38042933	64	2.9	64	95	0	325	30	16	14	38	1.88
38043056--38043476	44	9.5	45	72	9	301	35	24	22	17	1.95
38043020--38043494	89	5.4	88	86	5	577	35	23	22	17	1.95
38043020--38043486	176	2.6	175	85	4	598	35	23	22	17	1.95
38043907--38043946	17	2.3	18	91	4	64	50	40	2	7	1.44
38045256--38045309	9	5.9	9	78	10	56	29	9	3	57	1.47
38045403--38045453	23	2.1	23	82	7	57	37	5	7	49	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38045773--38045830	26	2.2	26	82	11	66	39	8	5	46	1.57
38045845--38045876	9	3.4	10	91	8	50	43	0	6	50	1.27
38045872--38045927	25	2.2	25	83	3	67	28	8	3	58	1.45
38047068--38047111	22	2.0	22	100	0	88	27	13	13	45	1.81
38048677--38048744	21	3.2	21	84	12	70	52	0	4	42	1.21
38049877--38050057	81	2.2	82	92	1	301	45	11	13	29	1.78
38050340--38050364	13	1.9	13	100	0	50	52	0	0	48	1.00
38052045--38052104	30	2.0	31	83	9	79	23	33	28	15	1.94
38053457--38053532	22	3.7	19	68	19	53	64	11	10	13	1.50
38055098--38055127	10	3.0	10	95	0	51	83	0	16	0	0.65
38056861--38056961	26	3.9	26	75	1	87	30	10	12	45	1.77
38062933--38062957	13	1.9	13	100	0	50	16	28	40	16	1.89
38068814--38068844	14	2.2	14	100	0	62	16	48	0	35	1.46
38068814--38068858	21	2.1	21	83	0	54	20	44	0	35	1.51
38072131--38072188	6	9.8	6	86	3	82	0	62	0	37	0.96
38072131--38072187	23	2.4	23	91	2	87	0	61	0	38	0.96
38072146--38072195	23	2.2	23	88	0	73	2	60	0	38	1.09
38072133--38072198	29	2.3	29	89	5	98	1	59	0	39	1.07
38077316--38077362	23	2.0	23	84	8	60	76	4	2	17	1.04
38082034--38082187	42	3.6	42	83	1	191	31	16	24	28	1.96
38084757--38084838	33	2.5	32	82	7	94	28	24	18	29	1.98
38084671--38084862	101	1.9	101	91	0	312	27	25	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38110326--38110355	14	2.1	14	100	0	60	26	6	13	53	1.64
38110860--38111609	205	3.7	205	91	0	1160	30	18	22	28	1.97
38112851--38112881	16	1.9	16	93	0	53	35	0	0	64	0.94
38112848--38112894	21	2.2	21	85	7	60	38	2	0	59	1.09
38113054--38113112	22	2.7	23	82	14	72	37	5	0	57	1.21
38113165--38113211	18	2.5	19	75	3	51	31	2	0	65	1.04
38113620--38113658	17	2.3	17	100	0	78	41	25	12	20	1.88
38134570--38134664	49	1.9	49	100	0	190	28	14	18	37	1.91
38134674--38135705	510	2.0	513	84	5	1357	23	22	21	32	1.98
38138105--38138143	20	2.0	20	84	0	51	17	2	7	71	1.21

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