genome.fa.s24.2.7.7.80.10.50.1000.10.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: D11
Parameters: 2 7 7 80 10 50 1000
Length:  73211361

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   

This is table  10  of  240  ( 28759 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)
3799838--3799878	15	2.5	17	88	11	68	68	0	0	31	0.90
3806319--3806355	16	2.4	16	90	4	58	59	5	2	32	1.34
3806473--3806594	60	2.0	60	88	3	183	54	13	0	31	1.45
3806587--3806924	19	17.3	19	70	22	170	55	14	0	29	1.44
3806588--3806820	42	5.5	42	74	15	212	54	14	0	30	1.40
3806643--3806719	27	3.0	27	87	9	117	54	15	0	29	1.42
3806648--3806921	101	2.6	101	89	5	395	56	13	0	29	1.43
3806929--3807001	27	2.7	26	89	8	110	16	27	24	31	1.96
3807594--3807654	29	2.1	29	87	3	88	57	4	1	36	1.30
3808808--3808855	16	2.9	16	78	6	51	35	0	6	58	1.23
3817495--3817534	16	2.5	16	91	0	62	47	2	7	42	1.45
3817541--3817715	68	2.6	68	98	0	332	39	5	9	45	1.60
3817591--3817618	9	3.1	9	100	0	56	32	0	10	57	1.33
3817748--3817791	24	1.9	24	90	9	74	61	2	0	36	1.09
3821139--3821169	11	2.8	11	90	0	53	67	0	0	32	0.91
3823468--3823610	41	3.5	41	85	0	196	24	19	23	32	1.98
3823460--3823651	82	2.3	83	77	7	187	25	19	23	31	1.98
3824058--3824214	71	2.2	70	81	4	190	32	10	14	42	1.79
3829263--3829345	30	2.7	31	81	3	98	44	3	3	48	1.37
3834126--3834170	24	1.9	23	90	4	72	68	4	2	24	1.19
3834126--3834170	23	1.9	24	86	4	65	68	4	2	24	1.19
3834124--3834191	30	2.2	30	87	7	93	69	4	1	25	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3835019--3835091	23	3.1	23	81	11	85	2	31	17	47	1.62
3837881--3837941	19	3.1	19	81	9	70	47	1	0	50	1.10
3845264--3845343	29	2.7	29	84	9	81	32	3	13	50	1.60
3845285--3845343	29	2.0	30	90	3	93	28	3	13	54	1.55
3856847--3856945	28	3.4	28	70	16	67	51	4	15	29	1.61
3868512--3868575	30	2.1	30	97	0	119	29	10	28	31	1.91
3879320--3879367	24	2.0	24	87	0	69	62	6	29	2	1.31
3884101--3884148	24	2.0	24	87	0	69	62	6	29	2	1.31
3895389--3895465	14	5.0	15	70	20	52	45	12	6	35	1.69
3895393--3895459	34	1.9	35	93	3	118	49	11	5	32	1.64
3895428--3895467	14	2.9	13	85	10	53	47	12	2	37	1.55
3895728--3895811	26	3.2	26	82	11	100	22	1	15	60	1.41
3904316--3904515	105	1.9	106	95	1	366	29	19	19	31	1.96
3910993--3911035	22	1.9	23	85	4	61	51	2	44	2	1.27
3915771--3916125	44	8.1	45	84	5	424	27	16	25	30	1.97
3915766--3916103	87	3.9	87	88	2	516	26	17	25	30	1.97
3916015--3916238	111	2.0	111	95	3	407	27	16	24	30	1.97
3916126--3916408	44	6.5	45	78	6	269	27	15	26	29	1.96
3915928--3916323	198	2.0	198	86	5	552	27	16	25	30	1.97
3916126--3916403	131	2.1	130	93	2	477	28	15	26	29	1.96
3915892--3916369	242	2.0	243	88	4	716	26	16	25	30	1.97
3916163--3916408	87	2.8	89	79	6	245	28	15	27	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3918213--3918306	38	2.5	37	78	13	95	37	13	1	47	1.50
3919313--3919348	1	36.0	1	100	0	72	0	0	0	100	0.00
3921902--3922242	123	2.8	123	88	4	500	31	21	16	31	1.95
3934603--3934627	8	3.1	8	100	0	50	12	52	12	24	1.72
3935119--3935156	11	3.2	12	92	7	60	0	52	0	47	1.00
3935629--3935690	3	20.0	3	77	6	61	32	1	6	59	1.32
3935632--3935693	23	2.8	22	87	4	81	32	1	8	58	1.37
3935627--3935701	23	3.2	23	80	10	64	32	2	9	56	1.45
3935728--3935775	24	2.0	24	84	12	62	29	4	0	66	1.10
3939595--3939651	22	2.6	20	79	17	60	40	10	1	47	1.48
3939649--3939723	12	6.0	12	72	9	51	40	6	0	53	1.27
3939626--3939708	39	2.1	40	84	2	105	39	6	0	54	1.25
3941088--3941174	30	3.2	30	64	32	86	47	2	4	45	1.36
3941074--3941176	51	2.0	51	100	0	206	49	1	3	44	1.31
3941672--3941742	28	2.5	28	81	6	81	61	1	0	36	1.05
3941672--3941748	24	3.0	25	76	17	61	63	1	0	35	1.03
3944355--3944382	5	5.6	5	100	0	56	42	17	0	39	1.50
3944902--3945094	48	4.0	47	79	6	176	9	22	20	48	1.78
3944902--3945094	96	2.0	95	80	6	210	9	22	20	48	1.78
3946819--3946857	20	2.0	20	85	10	53	20	5	38	35	1.75
3948569--3948624	9	6.3	9	77	2	60	16	3	26	53	1.59
3948577--3948624	18	2.7	18	93	0	87	16	4	25	54	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3949267--3949363	40	2.4	42	79	11	103	16	27	30	24	1.96
3959030--3959076	18	2.6	17	83	9	58	63	0	6	29	1.19
3959035--3959091	15	3.7	15	77	20	55	61	1	8	28	1.36
3962247--3962288	18	2.3	19	80	12	52	35	19	21	23	1.96
3962600--3962647	9	5.4	9	92	2	80	22	8	22	45	1.79
3964822--3964954	25	5.6	25	77	10	118	39	16	21	22	1.92
3964822--3964963	50	2.9	49	79	15	152	40	17	20	21	1.92
3965903--3965957	3	20.0	3	76	23	59	61	0	0	38	0.96
3965901--3965957	8	7.0	8	96	4	105	61	0	0	38	0.96
3966970--3967192	62	3.7	62	82	5	244	34	7	9	48	1.64
3967080--3967109	14	2.1	14	93	0	51	50	6	0	43	1.28
3968363--3968414	27	1.9	27	84	7	70	69	9	3	17	1.31
3971243--3971307	16	4.0	16	66	18	53	60	16	0	23	1.36
3971864--3971933	31	2.3	30	80	2	77	14	34	32	18	1.91
3975808--3975880	28	2.6	27	79	14	67	57	1	2	38	1.22
3975834--3975902	28	2.3	30	85	7	88	60	0	0	39	0.97
3978648--3978691	23	2.0	22	86	4	61	29	0	4	65	1.12
3978627--3978676	21	2.5	20	78	12	57	24	4	2	70	1.15
3979314--3979375	26	2.4	26	100	0	124	41	4	0	53	1.22
3979652--3979704	18	3.1	18	78	13	67	43	11	0	45	1.40
3979658--3979707	15	3.1	15	82	8	55	46	12	0	42	1.41
3979732--3979793	19	3.3	18	78	13	72	50	0	9	40	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3979721--3979793	37	2.0	37	97	0	137	49	0	12	38	1.41
3979726--3979785	18	3.3	18	77	13	77	51	0	10	38	1.35
3980381--3980443	26	2.4	27	91	2	110	49	1	7	41	1.42
3984019--3984064	7	6.9	7	82	9	60	54	4	0	41	1.20
3992447--3992493	10	4.6	10	82	17	53	23	4	0	72	1.02
3997769--3997919	75	2.0	75	100	0	302	43	10	13	32	1.78
3998355--3998402	22	2.3	20	85	7	60	2	4	20	72	1.11
4000418--4000535	60	2.0	60	98	0	227	28	7	22	41	1.81
4007648--4007691	20	2.3	20	84	7	56	40	4	0	54	1.21
4014292--4014322	16	1.9	16	93	0	53	48	9	6	35	1.62
4014452--4014514	28	2.2	29	83	8	76	33	0	6	60	1.22
4017227--4017289	30	2.1	30	96	0	117	26	23	6	42	1.78
4017233--4017283	15	3.4	15	73	10	59	25	21	7	45	1.79
4025613--4025699	28	3.0	29	79	12	97	31	0	0	68	0.89
4025781--4025818	18	2.1	18	90	0	58	57	5	2	34	1.35
4029499--4029540	23	1.9	21	85	9	57	61	0	4	33	1.17
4037236--4037287	24	2.2	24	82	0	59	51	9	3	34	1.53
4037342--4039756	804	3.0	804	98	0	4677	31	25	15	28	1.96
4041142--4041306	33	4.8	34	68	24	105	36	27	18	17	1.93
4040942--4041310	103	3.6	103	91	0	587	32	29	19	18	1.96
4043957--4044108	81	1.9	81	82	5	191	32	6	15	45	1.72
4044373--4044398	13	2.0	13	100	0	52	38	7	0	53	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4048653--4048699	24	1.9	25	83	12	62	6	17	2	74	1.12
4052552--4052593	16	2.4	17	88	11	59	71	2	0	26	0.98
4060293--4060327	18	1.9	18	94	0	61	54	2	0	42	1.15
4060712--4060736	6	4.2	6	100	0	50	16	0	0	84	0.63
4060735--4060795	32	1.9	32	86	0	86	37	1	0	60	1.07
4060737--4060802	21	3.0	22	74	14	64	42	1	0	56	1.08
4061096--4061125	15	1.9	16	93	6	53	66	6	0	26	1.16
4061170--4061212	17	2.4	18	88	7	70	60	6	0	32	1.23
4061625--4061667	19	2.4	18	85	14	54	34	0	0	65	0.93
4065745--4065827	27	3.1	27	74	10	80	18	20	34	26	1.95

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