genome.fa.s4.2.7.7.80.10.50.1000.100.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  100  of  235  ( 28198 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)
34546156--34546185	15	1.9	15	93	6	51	53	0	0	46	1.00
34547361--34547404	21	2.0	23	83	16	58	56	11	2	29	1.46
34548326--34548364	20	1.9	21	89	5	62	38	7	0	53	1.30
34548325--34548364	21	1.9	21	90	10	64	37	7	0	55	1.29
34548411--34548451	18	2.2	19	86	4	57	34	7	0	58	1.26
34548480--34548543	33	1.9	33	81	12	78	50	14	4	31	1.63
34550397--34550433	6	6.5	6	90	6	51	48	0	18	32	1.49
34550470--34550574	34	3.1	34	94	0	192	40	1	19	38	1.62
34551133--34551213	28	2.9	28	81	3	83	38	14	16	30	1.89
34551805--34551850	19	2.3	20	81	7	58	52	10	17	19	1.74
34554074--34555047	352	2.8	352	97	0	1849	30	6	22	39	1.80
34555882--34556015	49	2.7	48	77	7	117	32	23	14	29	1.94
34558306--34558373	30	2.3	30	78	0	82	36	13	22	27	1.91
34562594--34562618	13	1.9	13	100	0	50	0	12	0	88	0.53
34563300--34563328	5	5.8	5	100	0	58	62	0	0	37	0.96
34565874--34565901	12	2.3	12	100	0	56	85	0	0	14	0.59
34565944--34566000	28	2.0	28	96	0	105	47	15	28	8	1.75
34570988--34571022	6	5.5	6	87	12	52	65	0	20	14	1.26
34573153--34573317	89	1.8	89	84	6	226	29	18	29	22	1.97
34580688--34580814	28	4.5	28	81	7	150	25	26	18	29	1.98
34580652--34580814	56	2.9	56	79	7	154	25	26	18	28	1.98
34584990--34585077	43	2.0	43	97	0	167	25	25	15	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34585452--34585541	44	2.0	44	97	0	171	31	22	18	27	1.97
34591063--34591285	119	1.9	120	84	8	303	25	27	22	24	2.00
34591042--34591285	40	6.1	40	84	7	293	25	27	22	24	2.00
34597488--34597589	28	3.6	28	76	10	100	25	31	16	26	1.97
34597428--34597589	56	2.9	56	81	3	175	25	29	17	27	1.98
34600864--34600923	29	2.1	29	96	0	111	35	15	18	31	1.91
34607486--34607532	6	7.5	6	84	15	60	80	0	14	4	0.85
34607483--34607535	12	4.9	11	76	19	58	79	0	16	3	0.88
34607481--34607536	25	2.2	25	87	9	78	76	0	17	5	0.96
34607940--34607965	13	2.0	13	100	0	52	53	15	0	30	1.42
34618551--34618688	27	5.3	26	87	6	147	38	21	18	22	1.93
34618827--34619044	27	8.1	27	84	0	265	26	22	17	33	1.96
34619060--34619136	27	2.9	27	86	0	100	33	11	15	38	1.84
34619585--34619618	17	1.9	18	88	5	52	26	32	26	14	1.95
34623085--34623169	33	2.6	33	84	1	109	30	25	16	27	1.97
34623070--34623167	33	3.0	32	80	3	106	29	25	18	26	1.98
34623355--34623463	26	4.1	27	87	4	134	33	21	22	22	1.97
34623355--34623463	27	4.1	27	87	8	136	33	21	22	22	1.97
34623355--34623463	53	2.1	52	83	8	132	33	21	22	22	1.97
34623600--34623678	27	2.9	27	82	0	95	27	24	13	34	1.93
34623696--34623774	27	3.0	26	79	5	86	36	11	15	36	1.83
34628321--34628366	19	2.4	19	96	3	83	23	10	17	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34628441--34628483	18	2.4	18	96	0	77	46	2	0	51	1.13
34628436--34628544	54	2.0	54	81	10	125	45	3	0	49	1.25
34629808--34629837	15	2.0	15	100	0	60	33	6	13	46	1.69
34630195--34630557	168	2.2	169	86	4	502	39	14	12	33	1.83
34632915--34633018	53	2.0	53	98	0	199	9	7	17	65	1.45
34636575--34636629	27	2.0	27	89	0	83	18	23	32	25	1.97
34638220--34638847	314	2.0	314	99	0	1229	35	21	8	34	1.85
34639148--34639461	53	5.9	53	95	1	535	28	28	17	25	1.98
34650415--34650442	6	4.7	6	100	0	56	82	0	17	0	0.68
34650681--34650754	32	2.4	31	78	12	82	56	0	1	41	1.07
34650733--34650809	29	2.5	32	81	8	88	54	1	0	44	1.08
34651001--34651068	29	2.3	29	82	9	86	57	2	2	36	1.29
34651132--34651202	29	2.3	31	83	11	85	42	2	5	49	1.41
34652069--34652127	6	9.5	6	89	7	73	76	6	0	16	1.00
34652148--34652215	9	7.6	9	88	0	91	26	8	20	44	1.81
34653709--34653751	19	2.3	19	88	8	61	30	20	0	48	1.50
34666040--34666254	46	4.6	44	73	15	148	30	18	27	23	1.97
34666039--34666254	94	2.3	95	80	7	244	30	18	27	24	1.98
34669303--34669431	63	2.0	63	98	0	249	44	6	10	39	1.63
34683355--34683407	27	2.0	27	92	0	88	49	15	13	22	1.79
34690373--34690418	23	2.0	24	84	16	62	47	4	19	28	1.68
34691465--34691792	83	4.0	83	97	0	611	21	22	23	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34692296--34692331	19	1.9	19	88	5	56	8	16	0	75	1.04
34698472--34698529	20	2.9	20	81	0	71	36	6	10	46	1.65
34698447--34698529	40	2.1	40	84	8	107	32	7	12	48	1.68
34700646--34700823	49	3.7	49	81	6	227	25	26	20	26	1.99
34700649--34700828	96	1.9	96	92	0	306	26	27	20	26	1.99
34700697--34701105	46	8.7	46	76	9	233	24	29	18	27	1.98
34700799--34701110	93	3.4	91	76	10	233	25	29	17	28	1.97
34701798--34701822	13	1.9	13	100	0	50	64	16	4	16	1.44
34710868--34711180	160	2.0	160	99	0	617	31	18	20	29	1.97
34711997--34712172	46	3.8	46	78	4	201	21	20	28	28	1.98
34711993--34712164	93	1.8	93	92	0	290	21	20	29	27	1.98
34715170--34715428	46	5.5	48	80	12	231	23	29	18	27	1.98
34715170--34715436	94	2.9	94	81	10	273	24	29	18	26	1.98
34715170--34715428	140	1.8	140	85	7	364	23	29	18	27	1.98
34716137--34716161	13	1.9	13	100	0	50	64	16	4	16	1.44
34718003--34718034	14	2.4	14	90	10	50	65	0	6	28	1.16
34718016--34718059	6	7.0	6	80	10	52	75	0	0	25	0.81
34718017--34718060	20	2.3	19	88	7	70	77	0	0	22	0.77
34720252--34720311	28	2.1	28	96	0	111	35	10	21	33	1.87
34732732--34732778	23	2.0	24	84	12	62	48	0	0	51	1.00
34742000--34742115	57	2.1	56	90	8	182	40	13	15	30	1.86
34742205--34742229	12	2.1	12	100	0	50	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34743382--34743425	18	2.4	19	80	7	54	40	20	18	20	1.91
34743960--34744009	19	2.9	18	82	14	61	58	4	0	38	1.17
34753719--34753756	19	2.0	19	100	0	76	47	5	5	42	1.48
34755319--34755644	180	1.8	177	86	3	474	28	27	12	30	1.93
34755604--34755683	39	2.1	39	95	0	142	35	31	5	28	1.79
34756048--34756205	54	2.9	54	83	3	203	16	29	15	39	1.89
34757610--34757674	16	3.9	16	66	15	51	30	0	4	64	1.14
34758276--34758317	2	21.0	2	85	9	59	47	0	4	47	1.23
34758699--34758736	19	2.0	19	100	0	76	47	5	5	42	1.48
34759402--34759500	49	2.0	49	100	0	198	25	32	12	30	1.92
34760302--34760354	27	2.0	27	85	7	72	71	3	0	24	1.02
34761777--34761811	17	2.1	17	88	0	52	45	22	5	25	1.74
34764972--34765187	46	4.7	45	88	3	274	23	26	19	30	1.98
34766660--34766701	3	14.0	3	94	0	75	66	2	0	30	1.04
34768964--34769008	22	2.0	22	83	8	56	15	6	6	71	1.29
34769097--34769157	32	1.9	32	86	3	88	32	11	1	54	1.46
34779905--34779993	44	2.0	44	100	0	178	35	17	23	22	1.95
34783966--34784025	31	1.9	32	83	10	79	36	3	16	43	1.65
34790105--34790252	60	2.5	61	81	10	173	27	24	18	29	1.98
34790851--34790883	16	2.1	16	94	0	57	9	24	21	45	1.80
34793418--34793442	13	1.9	13	100	0	50	40	0	0	60	0.97
34797676--34797784	56	2.0	55	92	0	173	25	21	27	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34800626--34800724	50	2.0	49	97	0	180	22	20	23	33	1.97
34810147--34810186	19	2.0	22	85	14	59	32	47	2	17	1.61
34810248--34810362	27	4.3	26	87	5	149	36	23	23	16	1.94
34810248--34810362	54	2.1	54	88	3	169	36	23	23	16	1.94
34811981--34812090	26	4.2	26	92	2	168	36	25	4	33	1.76
34815269--34815324	26	2.2	26	96	0	103	30	5	26	37	1.79
34815504--34816008	253	2.0	253	98	0	983	29	11	22	37	1.89
34822564--34822619	26	2.2	26	93	0	94	30	7	26	35	1.83
34825314--34825391	24	3.4	23	77	10	81	47	23	20	8	1.78
34826492--34826526	15	2.3	15	90	0	52	42	0	28	28	1.56

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