genome.fa.s13.2.7.7.80.10.50.1000.18.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_chr11
Parameters: 2 7 7 80 10 50 1000
Length:  102024878

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   

This is table  18  of  310  ( 37082 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)
4665949--4666257	48	6.5	48	80	10	321	23	11	1	62	1.36
4665956--4666222	22	11.3	21	68	25	110	24	11	1	62	1.37
4665896--4666257	118	3.0	116	74	15	317	23	12	1	62	1.37
4666044--4666330	75	3.9	74	82	11	374	22	12	0	64	1.32
4665935--4666300	26	14.9	26	67	21	186	22	12	1	63	1.35
4665949--4666297	145	2.4	144	82	10	394	23	12	1	63	1.36
4666126--4666195	21	3.3	21	75	11	79	22	10	1	65	1.30
4666227--4666285	28	2.1	28	100	0	118	13	15	0	71	1.15
4666044--4666322	145	1.9	145	86	5	395	22	13	0	63	1.33
4669255--4669411	46	3.1	52	81	11	209	36	14	22	27	1.92
4669375--4669447	37	2.0	37	94	2	130	35	16	23	24	1.95
4670373--4671161	394	2.0	394	97	0	1479	28	23	17	30	1.97
4673112--4673395	94	3.0	94	97	0	523	31	7	15	45	1.74
4677389--4677644	127	2.0	127	95	0	458	48	11	8	30	1.70
4677725--4677779	21	2.7	20	77	5	56	65	1	1	30	1.13
4677766--4677834	9	8.2	8	74	19	61	68	5	1	24	1.20
4678867--4678931	21	3.2	20	73	18	53	44	7	9	38	1.65
4686874--4686975	51	2.0	51	100	0	204	27	11	7	52	1.65
4689826--4690912	46	23.6	46	97	0	1897	22	23	13	40	1.89
4689857--4689930	24	3.2	24	66	21	66	18	21	14	44	1.86
4690840--4690911	21	3.2	21	68	21	56	23	23	13	38	1.91
4692760--4692790	8	3.8	8	91	8	53	74	0	0	25	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4692771--4692848	30	2.6	30	80	11	88	58	2	0	38	1.12
4692776--4692848	31	2.3	32	84	11	89	57	2	0	39	1.13
4694452--4694499	25	1.9	25	91	0	78	41	14	20	22	1.89
4695780--4696038	138	1.9	138	90	1	412	19	25	13	42	1.87
4695770--4696038	46	5.8	46	84	2	344	19	24	13	41	1.88
4697271--4697300	8	3.6	8	91	8	51	73	0	0	26	0.84
4697282--4697356	30	2.6	29	80	14	84	58	2	0	38	1.12
4697287--4697356	31	2.3	29	83	13	81	57	2	0	40	1.14
4698776--4698845	26	2.9	23	78	8	68	37	21	21	20	1.95
4698800--4698845	24	2.0	24	86	4	67	36	23	23	15	1.93
4699546--4699619	24	3.1	24	94	0	121	31	5	41	21	1.76
4701050--4701161	27	4.2	26	82	7	125	16	23	22	38	1.93
4701050--4701161	54	2.1	54	84	3	145	16	23	22	38	1.93
4705158--4705206	23	2.1	23	84	3	62	53	16	10	20	1.72
4707605--4707637	17	2.0	16	100	0	57	42	18	30	6	1.74
4719060--4719103	17	2.4	19	78	21	58	50	13	9	27	1.72
4720258--4720289	15	2.1	15	94	0	55	21	0	9	68	1.17
4721955--4722008	25	2.2	25	89	0	81	25	24	20	29	1.99
4723043--4723077	14	2.4	14	85	4	52	34	25	28	11	1.91
4723190--4723220	12	2.6	12	94	0	53	22	41	29	6	1.78
4724818--4724986	89	1.9	87	86	3	239	40	3	5	50	1.42
4730299--4730334	12	3.0	12	95	0	63	27	25	5	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4738087--4738468	72	5.0	72	77	14	331	26	16	22	34	1.95
4738216--4738246	14	2.3	14	94	5	55	12	12	9	64	1.50
4738450--4738477	14	2.0	14	100	0	56	14	21	7	57	1.61
4738483--4738928	74	6.0	73	87	4	619	28	16	21	33	1.95
4738464--4738891	146	2.9	146	88	4	608	29	15	21	33	1.94
4738905--4738946	14	2.9	15	85	7	59	14	14	7	64	1.48
4738908--4738957	14	3.6	14	81	7	57	20	12	4	64	1.43
4739705--4739833	30	4.3	30	92	0	222	25	46	3	24	1.69
4741626--4741667	3	14.0	3	100	0	84	66	0	0	33	0.92
4743743--4743780	12	3.1	12	88	3	58	71	2	0	26	1.00
4750172--4750217	23	2.0	23	83	12	58	39	13	8	39	1.75
4751759--4751854	40	2.4	40	87	5	131	31	29	23	15	1.96
4751844--4751949	46	2.3	46	86	0	149	33	26	20	18	1.96
4754201--4754287	24	3.6	24	90	0	138	26	22	24	26	2.00
4756331--4756383	26	2.0	27	85	7	74	24	15	22	37	1.92
4757866--4757972	26	4.2	26	90	1	171	36	23	7	32	1.83
4759610--4759701	43	2.1	43	82	4	105	34	26	13	26	1.92
4762521--4762572	26	2.0	26	92	0	86	19	36	9	34	1.84
4765202--4765239	20	1.9	20	88	0	58	31	13	10	44	1.77
4765959--4766009	15	3.5	15	72	5	50	47	27	1	23	1.63
4766257--4766424	41	4.1	40	85	4	185	22	21	19	36	1.95
4771337--4771387	24	2.2	23	89	3	75	37	1	9	50	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4771337--4771399	24	2.7	24	82	7	67	36	3	12	47	1.58
4779557--4779679	47	2.7	46	86	5	142	26	19	30	22	1.98
4783982--4784016	15	2.3	15	95	0	61	22	0	0	77	0.78
4784101--4784184	41	2.1	40	86	2	114	17	17	8	55	1.66
4800959--4801012	28	1.9	28	96	0	99	35	5	22	37	1.77
4805159--4805218	27	2.2	27	90	0	93	20	23	5	51	1.66
4807752--4807784	12	2.5	13	90	9	50	24	9	0	66	1.20
4820141--4820340	110	1.8	110	85	4	287	30	16	25	28	1.96
4820144--4820381	110	2.2	110	81	3	264	34	15	22	27	1.94
4820454--4820502	23	2.0	24	84	7	64	16	16	22	44	1.86
4834639--4834702	28	2.3	28	86	0	92	6	37	1	54	1.35
4841787--4841872	27	3.2	26	88	8	127	38	23	24	13	1.91
4841787--4841902	55	2.1	56	85	6	155	35	23	24	17	1.95
4849600--4849694	27	3.5	26	87	8	136	38	22	23	15	1.92
4856028--4856081	27	2.0	27	92	0	90	46	9	5	38	1.59
4861568--4861622	23	2.4	23	96	0	101	50	7	7	34	1.58
4868801--4868865	34	1.9	34	100	0	130	33	9	35	21	1.85
4871214--4871291	23	3.4	23	83	3	95	20	24	17	37	1.94
4871855--4871896	5	8.6	5	85	15	61	40	0	0	59	0.97
4871858--4871897	7	5.6	7	83	16	55	42	0	0	57	0.98
4872346--4872386	20	2.0	20	100	0	82	36	0	29	34	1.58
4873083--4873120	20	1.9	19	89	5	58	36	0	5	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4873660--4873684	12	2.1	12	100	0	50	16	24	20	40	1.91
4873662--4873772	45	2.5	45	86	2	161	18	18	18	43	1.89
4873752--4873782	6	5.2	6	100	0	62	16	16	16	51	1.77
4873946--4874148	18	11.3	18	73	6	142	37	11	13	37	1.80
4874168--4874228	18	3.4	18	81	0	59	36	6	18	39	1.76
4877177--4877223	22	2.2	21	84	3	58	36	21	8	34	1.84
4877194--4877272	19	4.2	19	87	9	117	35	17	10	36	1.84
4877196--4877282	36	2.4	35	80	16	115	35	17	10	36	1.84
4881937--4882047	45	2.5	45	80	2	134	20	18	18	41	1.91
4882027--4882051	6	4.2	6	100	0	50	16	16	16	52	1.76
4882233--4882423	18	10.6	18	77	6	145	37	12	13	37	1.82
4882221--4882516	18	16.1	18	71	8	121	36	12	14	36	1.84
4885376--4885413	19	2.0	19	100	0	76	36	5	10	47	1.61
4885376--4885425	19	2.7	19	87	9	59	38	8	10	44	1.68
4887027--4887091	27	2.4	27	86	0	94	26	23	9	41	1.84
4887123--4887301	27	6.7	26	81	5	153	41	21	6	30	1.78
4887149--4887299	81	1.9	81	84	2	205	42	19	7	30	1.79
4887312--4887363	27	1.9	27	88	7	79	40	13	11	34	1.81
4888289--4888358	25	2.8	25	88	0	95	27	25	21	25	1.99
4888314--4888385	25	3.0	23	86	10	90	27	20	23	27	1.99
4888506--4888597	42	2.2	42	92	0	148	31	14	20	33	1.92
4888621--4888704	31	2.7	31	92	5	136	27	17	27	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4890994--4891085	27	3.4	27	79	5	105	28	21	8	41	1.83
4891117--4891294	81	2.2	81	84	2	232	41	21	7	29	1.81
4891117--4891270	27	5.7	27	86	3	229	40	21	7	29	1.81
4891117--4891295	54	3.3	52	84	4	205	41	21	7	29	1.81
4891306--4891357	27	1.9	27	88	7	79	40	9	11	38	1.74
4892285--4892354	25	2.8	25	88	0	95	27	25	21	25	1.99
4892310--4892381	25	3.0	23	86	10	90	27	20	23	27	1.99
4892502--4892635	42	3.2	42	96	0	250	32	14	19	33	1.92
4892659--4892773	31	3.7	31	95	1	196	27	16	27	27	1.97
4893680--4893835	27	5.8	27	72	6	91	42	18	14	25	1.87

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