genome.fa.s2.2.7.7.80.10.50.1000.103.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  103  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)
33508993--33509255	40	6.6	39	86	4	278	25	27	21	25	1.99
33508993--33509255	120	2.2	119	82	4	307	25	27	21	25	1.99
33509187--33509264	40	1.9	41	82	10	97	26	28	20	24	1.99
33516943--33517205	40	6.6	39	86	4	278	25	27	21	25	1.99
33516943--33517205	120	2.2	119	82	4	307	25	27	21	25	1.99
33517137--33517214	40	1.9	41	82	10	97	26	28	20	24	1.99
33522508--33522536	15	1.9	15	100	0	58	20	0	13	65	1.26
33525510--33525727	46	4.7	46	98	0	382	20	22	28	28	1.98
33528493--33528550	19	3.1	19	80	16	68	65	5	0	29	1.14
33528499--33528534	17	2.1	18	94	5	65	66	5	0	27	1.13
33540252--33540543	48	6.1	48	87	3	403	27	31	15	26	1.96
33540252--33540543	96	3.1	96	91	4	457	27	31	15	26	1.96
33545072--33545190	59	2.0	59	100	0	238	23	31	11	32	1.91
33549294--33549382	15	6.0	15	74	11	76	56	16	16	10	1.67
33551909--33552083	93	1.9	93	87	2	262	30	29	20	20	1.97
33551902--33552077	46	3.8	45	76	12	160	31	28	19	19	1.97
33551955--33552096	46	3.1	46	73	18	132	30	29	19	20	1.97
33553549--33553582	17	1.9	18	88	5	52	11	35	32	20	1.89
33553993--33554022	15	2.0	15	93	0	51	6	23	20	50	1.71
33554347--33554380	17	1.9	18	88	5	52	11	35	32	20	1.89
33561685--33561719	16	2.1	16	89	5	52	25	2	11	60	1.45
33561778--33561808	15	2.1	15	93	0	53	32	25	3	38	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33570002--33570038	17	2.2	17	90	0	56	37	10	18	32	1.86
33574986--33575010	8	3.1	8	100	0	50	52	0	0	48	1.00
33575217--33575260	17	2.5	17	85	3	61	31	0	0	68	0.90
33575224--33575262	16	2.4	17	83	12	55	35	0	0	64	0.94
33578964--33579057	31	3.0	31	84	1	116	26	1	17	55	1.49
33579015--33579073	22	2.7	22	84	5	75	27	0	22	50	1.49
33589136--33589725	40	14.8	40	98	0	1119	22	27	20	29	1.98
33603754--33603791	19	2.0	19	94	0	67	44	5	0	50	1.24
33608258--33608308	25	2.0	26	88	3	77	47	0	1	50	1.12
33608450--33608624	85	2.1	85	98	0	341	37	15	12	34	1.85
33609346--33609380	12	2.9	12	91	0	52	28	0	0	71	0.86
33613860--33613904	5	8.6	5	82	7	54	73	2	20	4	1.11
33614617--33614680	5	12.6	5	87	9	94	40	0	0	59	0.97
33621485--33621539	13	4.2	13	81	11	60	74	3	0	21	0.97
33632258--33632297	13	3.3	13	76	20	50	72	5	0	22	1.04
33633461--33633658	106	1.9	105	82	5	247	15	26	25	32	1.95
33634776--33636424	549	3.0	546	91	1	2675	24	20	18	36	1.95
33648816--33648861	6	7.3	6	85	9	65	78	4	0	17	0.91
33648816--33648855	20	2.0	20	85	0	53	77	5	0	17	0.94
33648881--33648939	9	6.6	9	75	11	50	27	8	22	42	1.82
33648890--33648940	18	2.8	18	75	0	57	27	7	21	43	1.80
33662535--33662580	24	1.9	24	86	8	67	41	6	6	45	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33664459--33664869	131	3.2	131	81	4	465	30	15	13	39	1.87
33664571--33664763	64	3.0	64	65	15	151	31	15	13	39	1.86
33677025--33677099	21	3.0	26	80	14	72	49	0	5	45	1.25
33677065--33677103	21	2.0	19	85	14	53	53	0	0	46	1.00
33681808--33681884	38	2.0	38	94	0	136	31	16	14	37	1.89
33695306--33695352	22	2.0	24	84	8	62	34	2	10	53	1.48
33695338--33695390	27	2.0	27	82	7	65	45	9	5	39	1.60
33707832--33708011	89	2.0	89	98	0	351	48	6	6	38	1.54
33711888--33712054	43	3.9	43	76	8	162	28	13	25	32	1.94
33718269--33718416	74	2.0	74	95	0	269	22	9	30	37	1.86
33724440--33724518	40	2.0	40	92	0	131	35	13	10	40	1.79
33725243--33725287	20	2.2	20	88	0	63	48	2	13	35	1.54
33741575--33742114	137	3.9	137	90	1	789	29	22	17	30	1.96
33741635--33742113	45	10.5	45	67	19	190	28	24	17	29	1.97
33741531--33742094	274	2.0	275	89	1	869	29	23	16	31	1.96
33742071--33742337	133	2.0	133	85	0	363	29	25	17	27	1.98
33747395--33747572	27	6.6	27	83	3	205	26	15	28	29	1.96
33747396--33747551	82	1.9	81	88	3	233	26	15	28	29	1.96
33747392--33747572	82	2.2	81	83	2	229	27	15	27	29	1.96
33760136--33760307	46	3.7	46	97	0	317	20	21	27	29	1.98
33767726--33767898	46	3.7	46	80	13	219	21	21	28	28	1.98
33767723--33767893	93	1.8	93	96	0	315	21	21	29	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33774041--33774070	15	2.1	15	93	6	53	53	6	0	40	1.27
33775891--33775924	15	2.3	15	90	5	52	32	0	0	67	0.91
33784172--33784296	23	5.3	23	80	10	130	32	19	20	27	1.97
33784191--33784297	44	2.4	44	82	9	126	33	18	20	27	1.96
33784193--33784295	24	4.5	22	78	12	93	33	19	21	25	1.97
33795952--33796067	42	2.8	42	82	2	135	27	13	25	32	1.94
33799380--33799547	51	3.3	51	88	1	248	26	22	17	33	1.96
33804367--33804391	12	2.1	12	100	0	50	28	8	0	64	1.22
33805485--33805538	9	6.6	9	78	18	64	57	18	0	24	1.40
33806424--33806469	5	10.0	5	81	13	55	34	2	0	63	1.07
33806425--33806469	9	5.0	9	84	10	65	33	2	0	64	1.06
33806424--33806474	14	3.7	14	89	5	68	33	3	0	62	1.13
33812900--33812937	19	2.0	19	100	0	76	36	15	10	36	1.82
33817337--33817458	59	2.1	59	93	0	208	48	0	13	37	1.48
33817343--33817472	59	2.2	59	88	2	190	49	1	11	37	1.49
33817488--33817520	14	2.3	15	89	5	50	78	0	12	9	0.95
33821359--33821407	25	2.0	25	95	0	89	30	6	10	53	1.59
33821840--33821983	73	2.0	73	95	0	261	53	9	4	32	1.53
33834288--33834361	14	5.1	14	72	4	67	24	20	29	25	1.99
33834283--33834361	29	2.8	28	84	5	104	26	18	27	26	1.98
33840127--33840191	32	2.0	32	100	0	130	21	12	6	60	1.54
33841065--33841232	41	4.1	40	90	3	237	33	22	24	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33841065--33841232	81	2.1	82	88	3	250	33	22	24	20	1.97
33841237--33841368	54	2.6	47	76	17	124	51	29	0	18	1.51
33841248--33841359	54	2.1	53	81	5	134	51	30	0	16	1.51
33841302--33841336	17	2.1	17	88	0	52	54	28	0	17	1.43
33842483--33842525	14	3.1	14	75	0	50	23	32	6	37	1.82
33846748--33846844	43	2.3	43	87	0	140	22	18	30	27	1.97
33849758--33849950	86	2.2	86	85	5	248	34	12	8	44	1.72
33849881--33850018	70	2.0	69	83	9	174	34	8	7	48	1.63
33849993--33850127	66	2.0	66	88	0	198	31	11	11	44	1.78
33850080--33850252	77	2.2	77	81	5	193	28	10	11	48	1.73
33850121--33850283	77	2.1	77	81	4	186	30	9	12	47	1.73
33850358--33850388	13	2.4	13	94	0	53	22	9	22	45	1.81
33852412--33852778	85	4.4	85	82	4	381	32	11	9	45	1.74
33852948--33853045	51	1.9	51	93	0	169	26	28	11	33	1.91
33853881--33854155	28	9.9	27	75	10	211	24	15	6	53	1.64
33853881--33854114	82	2.8	80	78	10	233	25	16	4	53	1.62
33853881--33854152	83	3.3	81	77	11	232	25	15	6	53	1.65
33854444--33854515	34	2.1	34	86	0	99	33	13	12	40	1.83
33854635--33854772	45	3.0	45	78	5	145	25	19	13	42	1.87
33861252--33861293	22	1.9	22	90	0	66	16	9	26	47	1.77
33865538--33865585	22	2.2	23	85	7	64	62	8	2	27	1.35
33865675--33865717	21	2.0	22	81	9	52	72	6	2	18	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33866026--33866098	20	3.7	19	77	14	76	64	0	5	30	1.16
33868640--33868824	79	2.3	81	83	7	227	24	22	27	24	2.00
33868641--33868824	40	4.6	40	82	9	207	25	22	27	24	2.00
33868693--33868857	79	2.1	79	83	6	201	26	21	27	24	1.99
33870363--33871040	90	7.5	90	89	0	1007	27	27	14	30	1.95
33870440--33871078	45	14.2	45	67	15	322	27	27	14	30	1.95
33882396--33882438	21	2.0	22	81	9	52	72	6	2	18	1.19
33882747--33882819	20	3.7	19	77	14	76	64	0	5	30	1.16
33884732--33884810	13	6.2	13	74	10	65	29	8	25	36	1.86
33884734--33884806	25	2.8	26	79	2	85	24	9	27	38	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