genome.fa.s2.2.7.7.80.10.50.1000.293.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  293  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)
97310022--97310081	26	2.4	24	83	8	75	68	3	0	28	1.05
97310174--97310306	66	2.0	66	98	0	257	46	13	13	26	1.80
97314971--97315264	44	6.7	44	79	7	269	28	27	16	28	1.97
97314971--97315275	132	2.3	130	86	2	414	28	27	16	27	1.97
97315349--97315752	44	9.1	45	72	7	252	28	25	18	27	1.98
97315285--97315564	88	3.2	88	67	11	273	27	22	21	27	1.99
97315276--97315627	178	2.0	178	99	0	695	27	23	20	28	1.99
97316581--97316609	14	2.1	14	100	0	58	41	0	13	44	1.44
97331831--97332008	27	6.6	26	82	6	178	26	16	28	28	1.97
97331832--97331987	82	1.9	81	86	3	224	26	16	28	28	1.97
97331828--97332008	82	2.2	81	82	2	220	27	16	27	28	1.97
97331913--97332019	27	3.9	27	83	1	79	26	15	28	29	1.96
97337630--97338110	237	2.0	240	93	2	833	29	18	26	25	1.98
97340104--97340281	27	6.6	26	82	6	178	26	16	28	28	1.97
97340105--97340260	82	1.9	81	86	3	224	26	16	28	28	1.97
97340101--97340281	82	2.2	81	82	2	220	27	16	27	28	1.97
97340186--97340292	27	3.9	27	83	1	79	26	15	28	29	1.96
97342342--97342476	48	2.8	48	82	3	155	25	31	16	25	1.96
97350065--97350180	42	2.8	42	85	0	124	32	24	15	27	1.95
97349978--97350144	90	1.9	90	82	2	210	26	26	18	28	1.98
97350098--97350182	42	2.0	42	88	0	125	34	24	12	28	1.92
97350193--97350331	48	2.9	47	87	4	197	24	27	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97356903--97356931	14	2.0	15	93	6	51	31	0	0	68	0.89
97362223--97362266	7	6.7	7	92	7	67	56	0	27	15	1.40
97366617--97366702	27	3.2	27	80	3	93	31	25	9	33	1.88
97367001--97367491	27	18.2	27	87	0	685	31	21	6	39	1.80
97367028--97367491	81	5.7	81	99	0	910	31	21	6	40	1.79
97367790--97367874	27	3.2	26	80	8	82	30	24	9	35	1.87
97367817--97367874	26	2.2	27	87	3	82	27	24	8	39	1.84
97368177--97368238	31	2.0	32	87	3	90	20	24	19	35	1.96
97368378--97368480	31	3.4	31	86	4	138	19	18	13	48	1.81
97368378--97368480	6	16.8	6	78	11	111	19	18	13	48	1.81
97375442--97375512	37	1.9	37	97	0	133	43	25	14	16	1.86
97382785--97382832	19	2.6	18	74	9	51	29	22	0	47	1.51
97386440--97386491	24	2.2	24	92	0	86	46	19	17	17	1.85
97407621--97407650	13	2.3	13	94	0	51	10	16	26	46	1.78
97409050--97409093	19	2.3	19	88	0	61	47	15	2	34	1.58
97411899--97411924	9	2.9	9	100	0	52	53	23	0	23	1.46
97420449--97420498	26	1.9	26	95	0	91	46	12	4	38	1.60
97420554--97420613	31	1.9	31	82	0	75	36	5	13	45	1.65
97427800--97428199	202	2.0	201	93	1	676	39	17	17	26	1.91
97428487--97429176	235	2.9	235	91	1	1127	37	17	16	28	1.92
97434042--97434166	48	2.6	48	84	3	153	24	31	17	27	1.97
97438517--97438554	13	3.1	12	85	14	51	31	13	0	55	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97453581--97453625	18	2.5	17	82	7	54	80	0	13	6	0.91
97460304--97460351	25	1.9	25	83	8	62	33	16	27	22	1.96
97461631--97461717	45	1.9	45	85	0	120	45	9	20	24	1.80
97463816--97463854	20	1.9	21	85	15	55	23	12	12	51	1.74
97464802--97464847	23	2.0	23	95	0	83	34	4	15	45	1.66
97480556--97480643	28	3.1	28	90	0	131	30	31	12	25	1.92
97480627--97480731	40	2.6	40	84	0	129	34	26	17	21	1.95
97486986--97487210	50	4.5	50	77	8	199	25	18	26	29	1.98
97487378--97487478	50	2.0	50	96	0	184	35	12	23	27	1.92
97489478--97489541	32	2.0	32	96	0	119	23	29	21	25	1.99
97499710--97499790	40	2.0	40	95	0	144	30	22	19	27	1.98
97500028--97500231	6	33.3	6	71	16	134	47	13	19	19	1.83
97500049--97500231	25	7.7	25	77	13	179	46	13	20	19	1.83
97500049--97500209	74	2.2	73	89	1	241	45	13	20	19	1.84
97500146--97500230	42	2.0	42	97	0	161	48	16	20	15	1.81
97500348--97500428	27	3.0	27	80	8	85	39	20	20	18	1.93
97501076--97501960	54	16.4	54	99	0	1698	24	20	18	36	1.94
97502007--97502212	27	7.7	26	81	9	182	27	9	22	39	1.85
97502060--97502212	81	1.9	81	84	2	209	28	9	22	39	1.86
97503617--97503708	44	2.1	44	85	4	123	35	23	18	21	1.95
97504358--97504398	12	3.5	11	90	6	55	26	17	0	56	1.41
97505905--97505945	12	3.5	11	90	6	55	26	17	0	56	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97506822--97506875	5	10.6	5	80	11	65	59	3	0	37	1.15
97508521--97508650	47	2.8	47	84	4	147	24	13	27	33	1.93
97514451--97514499	19	2.5	19	80	6	53	4	30	0	65	1.11
97517914--97518103	55	3.5	55	89	0	272	24	31	21	22	1.98
97518887--97519134	44	5.3	47	73	12	179	22	27	20	29	1.98
97518881--97519134	49	5.4	48	73	12	188	23	27	20	29	1.99
97518964--97519134	93	1.9	91	81	7	211	23	28	19	27	1.99
97519476--97519532	30	1.9	30	92	0	96	28	24	14	33	1.94
97521896--97521938	18	2.2	20	88	8	63	39	2	4	53	1.34
97540369--97540454	43	2.0	43	84	8	113	26	18	26	27	1.98
97551380--97551637	47	5.5	44	73	16	128	22	28	20	28	1.99
97551276--97551632	94	3.8	93	77	9	325	22	27	20	29	1.98
97551977--97552034	30	1.9	30	92	0	98	27	25	13	32	1.94
97560685--97560745	30	2.0	30	83	0	77	31	24	3	40	1.71
97563153--97563185	13	2.6	13	90	4	50	39	0	12	48	1.40
97567857--97568199	40	8.6	40	91	2	485	27	27	20	24	1.99
97583611--97583683	17	4.4	17	76	10	78	17	4	2	75	1.08
97588809--97588862	21	2.5	22	76	8	58	66	3	24	5	1.29
97590907--97590971	18	3.6	18	87	0	94	41	15	20	23	1.89
97599301--97599376	40	1.9	40	94	0	134	25	22	28	23	1.99
97607301--97607415	40	2.9	40	89	1	187	26	23	26	23	2.00
97607390--97607441	26	2.0	26	96	0	95	25	23	30	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97607351--97607481	66	2.0	66	92	0	217	27	22	27	22	1.99
97611875--97612081	53	3.8	54	78	1	209	20	23	18	37	1.94
97611888--97612081	55	3.6	53	77	2	172	20	23	19	37	1.94
97614116--97614151	8	4.5	8	89	0	54	55	11	22	11	1.66
97614828--97614924	34	2.9	32	81	6	104	25	21	24	27	1.99
97615716--97615747	10	3.2	10	100	0	64	37	28	21	12	1.90
97618653--97618735	18	4.6	18	85	5	114	40	15	20	22	1.90
97618654--97618735	36	2.3	36	91	4	130	41	14	20	23	1.89
97620656--97620696	19	2.2	19	90	0	64	34	0	4	60	1.18
97620749--97620865	50	2.3	52	85	5	150	31	14	13	40	1.85
97621006--97621078	9	8.6	9	68	25	52	24	1	19	54	1.52
97621155--97621204	24	2.1	24	92	0	82	36	14	22	28	1.92
97629238--97629321	44	1.9	44	100	0	168	32	16	15	35	1.90
97636803--97636959	43	3.7	42	76	13	151	23	20	27	28	1.99
97637763--97637794	8	4.0	8	100	0	64	62	25	0	12	1.30
97639269--97639370	29	3.6	28	76	11	100	28	18	32	20	1.96
97646854--97647024	93	1.8	93	89	2	272	27	29	21	21	1.99
97646845--97647020	46	3.8	46	74	14	164	28	28	21	21	1.98
97646854--97647039	46	4.0	46	72	16	145	28	29	20	21	1.98
97649322--97649357	16	2.3	15	86	9	54	52	16	22	8	1.70
97649580--97649684	29	3.7	28	74	11	97	27	19	30	22	1.98
97649572--97649686	58	2.0	57	83	5	142	29	17	29	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97659495--97659541	23	2.0	24	84	12	62	51	17	8	23	1.72
97662008--97662067	30	2.0	30	87	6	86	40	6	25	28	1.80
97668650--97668755	43	2.5	43	87	3	160	28	16	27	27	1.97
97668650--97668784	43	3.1	43	81	8	125	28	17	27	25	1.98
97681352--97681434	29	2.9	29	87	1	114	25	16	31	26	1.97
97686531--97686576	23	2.0	23	84	12	60	45	10	6	36	1.65
97686538--97686582	23	2.0	23	82	8	56	40	13	8	37	1.76
97693414--97693479	33	2.0	33	100	0	132	30	24	24	21	1.99
97695566--97695612	24	1.9	25	82	4	60	34	23	4	38	1.74
97699473--97699553	41	2.0	40	95	0	135	39	24	12	22	1.88

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