genome.fa.s25.2.7.7.80.10.50.1000.145.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  145  of  214  ( 25680 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)
43511207--43511232	7	3.7	7	100	0	52	57	15	0	26	1.38
43512455--43512485	11	2.8	11	95	0	53	48	3	29	19	1.64
43512994--43513022	2	14.5	2	100	0	58	48	0	0	51	1.00
43513257--43513324	30	2.3	29	82	12	77	36	4	4	54	1.41
43513892--43513933	10	4.6	9	82	8	50	9	9	2	78	1.05
43513918--43513963	23	2.0	23	86	0	65	8	10	10	69	1.37
43515130--43515179	20	2.5	20	83	0	55	14	12	44	30	1.81
43515120--43515177	13	4.3	13	73	6	53	12	8	46	32	1.71
43517803--43518014	35	5.6	39	69	19	128	22	21	23	33	1.98
43517754--43518088	75	4.5	76	81	5	325	22	22	23	32	1.98
43518657--43518720	31	2.1	31	100	0	128	32	20	28	18	1.96
43527414--43527461	22	2.2	22	85	7	62	41	2	0	56	1.11
43531655--43531684	5	6.0	5	100	0	60	80	0	0	20	0.72
43533575--43533612	17	2.2	18	85	4	51	28	0	18	52	1.45
43534021--43534057	17	2.1	18	90	5	58	24	0	2	72	0.97
43534021--43534057	13	2.9	14	88	11	53	24	0	2	72	0.97
43539139--43539229	46	2.0	46	82	2	110	25	21	20	31	1.98
43541835--43541879	23	2.0	23	90	0	72	60	13	0	26	1.34
43550799--43550868	21	3.3	21	75	0	77	11	25	27	35	1.90
43561672--43561733	30	2.0	32	90	6	101	66	0	4	29	1.12
43563343--43563406	31	2.1	31	96	0	119	29	15	31	23	1.95
43563874--43563939	19	3.4	19	69	8	60	28	4	0	66	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43563876--43564029	40	3.9	40	80	10	165	32	2	0	64	1.07
43563947--43563977	9	3.4	9	100	0	62	19	0	0	80	0.71
43563907--43564054	49	3.2	49	79	18	172	33	1	0	65	1.01
43563973--43564040	10	6.5	10	73	17	50	39	1	0	58	1.07
43563925--43564060	11	13.1	11	71	20	73	35	1	0	63	1.04
43565201--43565243	3	14.0	3	85	4	59	60	0	4	34	1.17
43565201--43565243	16	2.8	16	89	3	61	60	0	4	34	1.17
43565192--43565245	25	2.2	25	86	6	83	62	1	3	31	1.23
43568166--43568320	22	7.0	22	83	0	211	42	17	10	29	1.83
43568166--43568320	44	3.5	44	95	0	283	42	17	10	29	1.83
43568423--43568728	43	7.2	43	84	4	325	26	26	19	27	1.99
43569166--43569216	21	2.4	21	86	0	66	3	43	17	35	1.68
43569080--43569256	87	2.0	87	87	2	257	12	29	17	39	1.87
43574686--43574958	50	5.8	50	80	14	321	34	0	19	46	1.51
43574715--43574954	41	5.4	41	78	16	214	33	0	19	46	1.50
43574682--43574958	66	4.0	68	91	4	373	33	0	19	46	1.50
43574682--43575044	25	14.4	26	81	7	280	31	0	19	48	1.51
43575008--43575052	12	3.8	12	90	0	72	28	2	17	51	1.58
43575001--43575059	24	2.5	24	89	5	86	27	1	18	52	1.55
43575011--43575065	24	2.5	22	85	8	67	27	1	21	49	1.60
43575126--43575178	17	3.1	18	74	20	60	58	1	0	39	1.09
43575179--43575243	9	7.0	9	71	13	51	40	0	15	44	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43575208--43575243	18	2.0	18	94	0	63	41	0	16	41	1.48
43575254--43575312	17	3.4	17	75	17	59	61	1	1	35	1.16
43578798--43579287	115	4.3	114	83	1	572	27	25	21	25	1.99
43578798--43579291	228	2.2	228	85	1	652	26	26	21	25	1.99
43579189--43579435	74	3.4	74	90	1	365	25	26	21	26	2.00
43579076--43579547	260	1.8	259	87	3	707	25	26	22	26	2.00
43579334--43579547	115	1.9	113	86	5	306	25	28	21	24	1.99
43579667--43579721	11	5.0	11	70	16	51	45	18	1	34	1.60
43579662--43579727	22	3.0	21	80	6	78	45	16	3	34	1.63
43580502--43580619	42	2.8	43	80	6	141	30	26	17	25	1.97
43582282--43582351	5	13.8	5	82	14	90	21	0	1	77	0.85
43582409--43582456	24	2.0	25	83	4	62	18	10	0	70	1.15
43582511--43582557	24	2.0	24	91	4	78	21	19	0	59	1.38
43583360--43583470	25	4.4	26	71	6	86	20	27	18	33	1.96
43583361--43583475	50	2.3	49	80	3	113	21	26	18	33	1.96
43583403--43583497	25	3.8	25	79	5	93	22	28	20	29	1.98
43583403--43583497	50	1.9	50	82	4	120	22	28	20	29	1.98
43584216--43584320	28	3.8	28	84	2	131	28	20	24	25	1.99
43584197--43584338	56	2.4	61	74	13	152	32	19	22	25	1.98
43584657--43584922	27	9.9	27	79	11	228	18	20	18	42	1.89
43584654--43584931	54	5.2	54	80	5	278	19	20	17	42	1.89
43584655--43584910	107	2.4	105	83	7	309	18	21	17	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43590756--43590796	21	1.9	22	85	5	57	12	7	2	78	1.06
43606512--43606552	21	1.9	22	85	5	57	43	4	14	36	1.67
43609616--43609653	20	1.9	20	89	10	60	34	2	7	55	1.43
43613481--43613603	29	4.4	28	74	9	92	35	21	30	13	1.91
43613519--43613597	26	3.0	26	79	7	79	35	21	31	11	1.89
43616644--43616693	6	8.2	6	82	12	57	46	0	0	54	1.00
43616635--43616681	25	1.9	24	95	4	85	40	0	0	59	0.97
43616634--43616712	31	2.6	30	86	9	108	39	0	0	60	0.97
43616717--43616769	20	2.6	19	80	14	52	28	0	7	64	1.21
43617466--43617496	7	4.3	7	92	8	53	45	0	0	54	0.99
43617466--43617496	15	2.1	14	94	5	53	45	0	0	54	0.99
43625911--43626055	63	2.3	63	86	0	191	26	6	34	33	1.81
43633844--43633884	21	2.0	21	100	0	82	4	51	4	39	1.45
43643578--43643611	9	3.8	9	92	0	59	38	29	8	23	1.85
43651048--43651100	27	1.9	28	88	3	81	45	0	0	54	0.99
43651054--43651112	27	2.2	27	84	6	75	47	0	0	52	1.00
43651175--43651294	33	3.4	33	65	20	89	40	10	4	45	1.57
43651893--43651987	44	2.1	45	86	9	133	36	4	24	34	1.75
43652140--43652323	64	3.1	58	72	19	198	51	4	1	42	1.31
43652141--43652397	119	2.2	120	94	0	453	51	4	1	42	1.30
43652336--43652425	44	2.1	43	83	6	110	50	6	1	42	1.36
43652331--43652435	43	2.5	44	75	14	105	52	5	0	40	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43653760--43653826	33	2.0	33	100	0	134	46	14	8	29	1.76
43655493--43655526	17	2.0	17	94	0	59	50	17	2	29	1.61
43658278--43658338	27	2.3	27	82	5	70	22	26	14	36	1.93
43662007--43662062	29	1.9	29	88	0	85	35	16	12	35	1.86
43663220--43663297	37	2.1	38	87	2	113	48	3	10	37	1.55
43680255--43680292	11	3.7	10	83	16	51	18	2	5	73	1.14
43680227--43680292	20	3.2	20	76	17	71	22	3	4	69	1.20
43683587--43683666	21	4.0	21	85	9	114	36	15	10	38	1.80
43683607--43683670	19	3.3	19	93	4	101	37	15	9	37	1.80
43684374--43684482	19	5.7	19	86	0	164	39	10	12	37	1.77
43684381--43684482	38	2.7	38	95	0	186	40	9	11	38	1.75
43684374--43684510	19	6.9	20	82	5	122	39	8	13	37	1.76
43689837--43689885	12	3.8	12	82	12	53	79	0	20	0	0.73
43689842--43689892	7	7.6	7	80	14	54	76	0	21	1	0.88
43689837--43689892	20	2.8	20	84	7	71	78	0	19	1	0.84
43689849--43689892	6	7.0	6	82	10	52	77	0	20	2	0.88
43691127--43691356	44	5.2	44	82	4	268	27	13	26	32	1.94
43691125--43691389	132	2.0	132	84	4	347	29	14	25	30	1.95
43691341--43692261	132	7.1	132	90	2	1407	29	18	22	29	1.97
43692588--43692679	19	4.8	19	84	0	130	41	9	11	36	1.75
43692588--43692679	38	2.4	38	94	0	157	41	9	11	36	1.75
43694528--43694655	42	3.0	42	77	8	116	44	21	20	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43701109--43701142	14	2.3	15	90	5	52	47	0	2	50	1.16
43701200--43701241	18	2.3	18	83	4	57	52	0	0	47	1.00
43702854--43703598	107	7.1	107	85	8	909	38	14	15	30	1.88
43702854--43703598	216	3.5	215	84	8	922	38	14	15	30	1.88
43704619--43704706	46	1.9	46	92	0	149	22	12	7	56	1.61
43704874--43704899	7	3.7	7	100	0	52	11	11	0	76	1.01
43706095--43706269	89	2.0	89	86	6	248	42	2	4	50	1.37
43706158--43706219	20	3.0	20	85	2	79	45	1	3	50	1.27
43706835--43706888	27	2.0	27	96	0	99	27	7	31	33	1.84
43714481--43714594	54	2.1	53	85	4	156	36	7	3	51	1.48

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