genome.fa.s9.2.7.7.80.10.50.1000.14.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  14  of  284  ( 34012 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)
4531256--4531482	54	4.2	54	85	2	303	17	15	22	44	1.86
4531256--4531482	81	2.8	81	84	0	310	17	15	22	44	1.86
4533796--4533826	14	2.3	14	94	5	55	29	0	6	64	1.18
4540089--4540127	5	7.8	5	88	0	60	20	0	2	76	0.90
4549143--4549181	20	2.0	20	90	10	62	15	23	5	56	1.59
4549384--4549520	49	2.8	48	80	8	143	24	24	20	29	1.99
4549586--4549652	21	3.3	21	65	23	61	47	5	8	37	1.59
4552431--4552464	14	2.2	16	90	10	54	26	2	2	67	1.19
4553916--4553953	18	2.1	18	90	0	58	28	0	13	57	1.36
4554962--4555009	10	4.7	10	84	2	51	27	0	2	70	0.98
4554984--4555011	5	5.6	5	100	0	56	17	0	0	82	0.68
4554971--4555009	15	2.6	15	87	0	51	25	0	2	71	0.98
4560548--4560634	36	2.4	36	90	1	131	39	21	16	22	1.92
4564342--4564717	180	2.1	180	100	0	752	37	15	7	39	1.76
4565030--4565162	50	2.6	51	84	3	171	30	27	17	25	1.97
4565030--4565162	51	2.6	50	84	3	160	30	27	17	25	1.97
4578635--4578747	46	2.4	47	88	2	174	20	12	22	45	1.84
4585862--4585994	50	2.7	50	83	0	167	22	29	21	27	1.99
4596229--4596323	49	2.0	47	89	8	147	28	4	11	55	1.54
4599457--4599506	12	4.3	11	78	12	55	84	0	14	2	0.72
4599460--4599506	13	3.5	14	82	8	62	82	0	14	2	0.75
4603712--4603921	40	5.3	39	87	5	233	24	21	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4603659--4603921	120	2.2	120	81	4	300	25	21	27	25	1.99
4603712--4603956	80	3.1	80	81	3	228	25	21	28	24	1.99
4611599--4611781	40	4.6	39	81	6	170	24	20	27	26	1.99
4611635--4611816	79	2.3	80	79	3	190	26	20	27	25	1.99
4617517--4617567	22	2.3	22	83	6	59	29	13	9	47	1.75
4622991--4623203	27	7.9	27	81	0	201	21	15	19	42	1.89
4622991--4623203	81	2.6	81	80	5	234	21	15	19	42	1.89
4623209--4623264	24	2.3	24	78	6	69	30	3	19	46	1.67
4633589--4633652	32	2.0	32	100	0	128	18	9	21	50	1.75
4633591--4633642	16	3.2	16	68	10	52	19	9	21	50	1.76
4643487--4643640	50	3.0	50	92	3	254	18	20	14	46	1.83
4647857--4647894	6	6.3	6	96	0	67	36	0	13	50	1.42
4648852--4648917	29	2.3	30	82	12	84	36	16	24	22	1.94
4652649--4652846	45	4.4	44	77	8	168	35	25	14	24	1.94
4659833--4659971	45	3.1	44	80	6	154	36	25	15	22	1.93
4662577--4662761	40	4.7	40	83	5	205	23	20	27	28	1.99
4670590--4670680	40	2.3	40	92	3	148	24	19	27	28	1.99
4672791--4672822	15	2.1	15	94	0	55	15	0	53	31	1.43
4678738--4678786	18	2.8	17	78	6	53	18	26	40	14	1.89
4691717--4691757	18	2.3	18	88	12	59	43	19	0	36	1.51
4698695--4699162	40	11.7	40	99	0	918	30	20	27	22	1.98
4706898--4707107	40	5.3	39	87	5	233	24	21	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4706845--4707107	120	2.2	120	81	4	300	25	21	27	25	1.99
4706898--4707142	80	3.1	80	81	3	228	25	21	28	24	1.99
4709351--4709776	196	2.2	196	90	1	654	31	8	37	22	1.84
4714119--4714218	20	5.0	20	64	12	62	17	32	19	32	1.94
4714112--4714288	40	4.6	40	81	8	213	18	31	16	33	1.93
4714112--4714288	74	2.3	75	85	5	221	18	31	16	33	1.93
4714233--4714290	20	2.9	20	74	5	55	22	31	12	34	1.91
4715403--4715447	24	1.9	24	86	4	65	26	48	2	22	1.62
4718060--4718110	26	2.0	26	96	0	93	31	37	21	9	1.86
4729008--4729049	21	2.0	21	85	0	57	42	23	0	33	1.55
4731928--4731960	15	2.3	15	89	5	50	33	0	27	39	1.57
4744859--4744901	18	2.3	18	88	8	59	4	44	0	51	1.22
4745632--4745851	27	8.1	27	85	3	264	46	19	15	17	1.84
4745632--4745851	81	2.7	81	87	2	291	46	19	15	17	1.84
4746005--4746082	26	3.0	27	86	3	97	19	23	20	37	1.95
4746033--4746103	26	2.7	26	88	0	88	15	21	22	40	1.90
4746218--4746275	28	2.1	28	90	0	89	25	24	20	29	1.99
4752424--4752509	25	3.5	25	76	12	88	24	22	18	34	1.96
4773428--4773671	123	2.0	123	99	0	479	35	22	18	23	1.96
4778147--4778970	439	1.9	439	100	0	1648	46	12	14	26	1.81
4779122--4779481	180	2.0	180	100	0	720	39	15	12	33	1.84
4784597--4784829	45	5.2	45	95	0	403	25	20	15	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4791737--4791787	17	3.1	17	75	16	61	21	7	3	66	1.34
4792560--4792702	45	3.2	45	92	0	232	25	20	15	38	1.92
4793499--4793659	40	4.0	40	84	0	196	19	29	16	33	1.94
4793513--4793658	20	7.3	20	66	3	69	18	30	16	34	1.93
4797124--4797267	43	3.4	42	75	5	130	27	19	25	27	1.99
4802675--4802811	25	5.5	25	76	14	140	21	22	23	32	1.98
4802675--4802823	50	3.0	50	88	0	226	22	22	22	32	1.98
4811790--4811914	62	2.0	63	88	1	189	28	21	15	34	1.94
4831942--4832086	40	3.7	40	81	10	172	24	27	23	24	2.00
4839531--4839564	18	2.0	16	88	11	50	70	2	14	11	1.27
4840593--4840635	22	2.0	22	86	9	61	46	20	4	27	1.71
4844762--4844837	25	3.1	23	70	10	62	21	22	27	28	1.99
4857343--4857525	40	4.6	40	86	5	228	24	20	28	26	1.99
4857393--4857558	80	2.1	79	84	5	210	25	19	27	27	1.99
4871951--4871977	14	1.9	14	100	0	54	22	7	7	62	1.46
4876514--4876683	40	4.3	40	83	0	198	25	30	21	23	1.99
4890397--4890525	51	2.8	46	76	13	129	24	17	27	30	1.97
4893641--4894015	188	2.0	187	94	0	651	36	23	8	30	1.86
4897275--4897299	12	2.1	12	100	0	50	56	16	0	28	1.41
4903488--4903830	40	8.6	40	91	2	485	24	20	27	27	1.99
4905915--4905944	12	2.5	12	94	0	51	26	13	10	50	1.73
4908807--4908944	40	3.5	40	85	6	183	23	28	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4912058--4912152	42	2.2	42	83	5	111	32	26	14	26	1.95
4912057--4912209	43	3.6	43	74	10	123	34	24	13	26	1.93
4915693--4915745	22	2.5	22	93	3	90	49	22	11	16	1.78
4926790--4926825	19	2.0	19	89	10	58	30	5	0	63	1.17
4932530--4932554	2	12.5	2	100	0	50	52	0	0	48	1.00
4932682--4932711	10	2.8	11	90	10	53	83	10	0	6	0.81
4932778--4933369	153	3.8	154	90	1	866	50	19	1	28	1.56
4932778--4933363	307	1.9	308	88	2	899	50	19	1	28	1.56
4940808--4940833	3	8.7	3	100	0	52	69	0	30	0	0.89
4941826--4941851	13	2.0	13	100	0	52	38	38	23	0	1.55
4942607--4942645	6	6.5	6	87	0	60	53	15	12	17	1.72
4942607--4942645	12	3.2	12	96	0	69	53	15	12	17	1.72
4943476--4943530	26	2.1	26	100	0	110	29	30	0	40	1.57
4943529--4943553	6	4.2	6	100	0	50	0	16	0	84	0.63
4943524--4943606	27	3.1	27	76	6	89	3	20	3	72	1.15
4943522--4943606	11	7.9	10	71	16	55	3	20	3	72	1.14
4943522--4943607	21	4.0	21	73	15	68	3	19	3	73	1.13
4943535--4943607	17	4.5	17	70	14	55	4	19	4	72	1.17
4943535--4943607	16	4.5	17	69	8	53	4	19	4	72	1.17
4943606--4943663	21	2.8	21	84	10	66	43	1	0	55	1.10
4947330--4947408	14	5.7	14	72	14	65	37	1	0	60	1.05
4947277--4947434	55	2.8	55	88	6	221	42	1	1	53	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4947601--4947654	16	3.4	16	84	0	72	27	27	5	38	1.79
4948854--4948923	26	2.7	25	76	10	61	62	0	7	30	1.21
4950306--4950351	23	2.0	23	100	0	92	43	8	8	39	1.66
4954269--4954405	48	2.8	49	83	3	179	28	21	29	21	1.98
4954225--4954405	96	1.9	96	84	2	247	27	22	28	21	1.99
4963258--4963321	24	2.7	24	92	0	101	25	17	32	25	1.96
4965595--4965774	48	3.8	47	79	7	193	27	20	28	23	1.99
4965595--4965775	96	1.9	96	85	4	249	28	19	28	23	1.98
4971756--4971875	49	2.4	49	84	0	150	35	30	10	24	1.89
4976447--4976490	22	1.9	24	86	9	65	56	2	2	38	1.24

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