genome.fa.s25.2.7.7.80.10.50.1000.130.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  130  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)
39555713--39555750	19	2.0	19	85	10	51	42	0	15	42	1.47
39556006--39556037	13	2.5	13	100	0	64	40	6	6	46	1.54
39556607--39556671	23	3.0	22	80	15	89	16	21	23	38	1.93
39561938--39562002	23	3.0	22	82	8	80	40	23	20	16	1.92
39562930--39562978	9	5.4	9	80	9	55	4	16	4	75	1.11
39562930--39562978	18	2.7	18	84	6	64	4	16	4	75	1.11
39563202--39563263	24	2.6	24	94	0	106	35	20	4	38	1.74
39565653--39565885	46	5.1	46	93	0	378	30	24	9	36	1.86
39567132--39567177	17	2.8	17	83	3	58	56	13	0	30	1.37
39567720--39567766	21	2.2	21	88	0	67	2	44	19	34	1.62
39568868--39568908	21	2.0	21	85	9	57	31	2	24	41	1.68
39569396--39569465	26	2.7	26	84	2	79	17	25	20	37	1.94
39569571--39569630	25	2.4	25	85	0	84	23	31	18	26	1.97
39581335--39581424	42	2.1	42	83	0	108	20	34	23	22	1.97
39582317--39582593	43	6.4	43	88	2	396	26	33	18	21	1.97
39585517--39585563	15	3.3	15	79	8	53	40	34	0	25	1.56
39585952--39586216	85	3.1	85	89	2	399	27	32	17	22	1.97
39585956--39586216	42	6.1	43	86	2	366	26	32	18	22	1.97
39589750--39589809	10	5.8	10	76	11	50	46	5	1	46	1.34
39590521--39590560	21	1.9	21	89	0	62	42	37	0	20	1.52
39590548--39590608	7	8.6	7	81	3	68	49	31	0	19	1.49
39590552--39590603	15	3.6	15	84	7	72	46	36	0	17	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39590733--39590866	66	2.0	66	98	0	259	41	7	6	44	1.59
39590985--39591304	41	7.8	41	92	1	509	28	28	24	17	1.98
39591368--39591477	40	2.8	40	83	9	145	20	23	22	32	1.98
39591842--39592266	117	3.7	113	84	3	539	25	25	22	26	2.00
39596612--39596671	22	2.8	21	80	12	59	55	3	1	40	1.27
39596641--39596746	39	2.7	38	88	7	149	63	0	0	35	1.01
39596694--39596718	10	2.5	10	100	0	50	56	0	0	44	0.99
39596641--39596746	38	2.7	38	89	7	149	63	0	0	35	1.01
39596702--39596746	16	2.8	16	82	3	54	60	0	0	40	0.97
39597720--39597808	45	2.0	45	93	4	153	29	24	25	20	1.99
39598967--39599021	9	6.2	9	91	2	76	23	10	23	41	1.86
39599181--39599205	12	2.1	12	100	0	50	16	24	36	24	1.94
39601292--39601390	23	4.3	23	94	0	171	21	21	27	30	1.98
39601292--39601390	46	2.2	46	98	0	189	21	21	27	30	1.98
39602936--39603029	30	3.0	30	79	14	118	43	18	2	36	1.62
39602936--39603030	33	3.0	33	86	7	126	43	18	2	35	1.63
39612916--39612986	35	2.0	35	100	0	142	42	25	5	26	1.77
39624310--39624456	73	2.0	73	100	0	294	38	20	10	29	1.87
39624985--39625080	2	48.0	2	97	0	183	48	50	1	0	1.07
39642776--39642843	34	2.0	34	97	0	127	41	22	11	25	1.87
39649083--39649161	41	2.0	40	85	9	108	63	5	0	31	1.16
39649828--39649863	17	2.1	17	89	0	54	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39679651--39679694	21	2.2	21	88	11	67	36	0	20	43	1.52
39682971--39683006	16	2.2	16	100	0	72	22	0	25	52	1.47
39683822--39683966	55	2.6	55	91	1	236	24	9	15	50	1.74
39690052--39690095	22	2.0	22	90	0	70	54	15	9	20	1.68
39692666--39692862	98	2.0	98	92	0	331	37	24	10	27	1.88
39693499--39693542	22	2.0	23	90	4	72	56	4	9	29	1.50
39694165--39694296	19	6.8	19	89	3	210	36	14	10	38	1.81
39694161--39694295	59	2.3	59	91	3	211	37	13	10	39	1.79
39694440--39694589	38	3.9	37	69	13	113	21	20	16	42	1.90
39694457--39694651	79	2.5	79	86	0	248	22	21	16	40	1.91
39695855--39695882	7	4.0	7	100	0	56	14	0	0	85	0.59
39713761--39713794	16	2.2	16	89	5	52	14	2	0	82	0.79
39713922--39713947	11	2.4	11	100	0	52	15	0	0	84	0.62
39717108--39717137	4	7.5	4	100	0	60	50	23	0	26	1.50
39720229--39720273	22	2.0	23	87	8	67	51	4	8	35	1.54
39720892--39720955	13	4.9	13	70	12	51	34	9	21	34	1.86
39720892--39720955	26	2.5	26	73	19	62	34	9	21	34	1.86
39723303--39723379	24	3.2	23	73	14	75	50	19	27	2	1.60
39726896--39726927	15	2.1	15	100	0	64	18	0	25	56	1.42
39728770--39728856	30	2.8	30	89	10	122	34	3	0	62	1.12
39731249--39731331	31	2.7	31	88	0	112	45	13	10	30	1.77
39737711--39737752	16	2.6	16	88	0	57	42	7	21	28	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39737708--39737762	16	3.4	16	84	0	56	40	7	21	30	1.81
39737924--39737975	22	2.4	22	96	0	95	44	0	5	50	1.26
39737969--39738083	58	2.0	58	84	3	151	53	5	0	40	1.23
39738096--39738141	23	2.0	23	87	8	67	58	6	0	34	1.24
39747830--39747860	14	2.2	14	100	0	62	58	6	6	29	1.48
39748821--39748895	31	2.4	29	79	20	80	32	28	12	28	1.92
39748842--39748904	31	2.2	27	81	18	74	34	26	9	28	1.88
39749091--39749277	41	4.6	41	91	1	277	18	29	21	29	1.97
39750793--39750848	26	2.2	26	83	6	69	41	12	0	46	1.42
39755427--39756261	29	28.9	29	91	3	1299	44	24	0	29	1.59
39755857--39755942	23	3.5	23	81	17	109	46	24	0	29	1.53
39759456--39759735	124	2.3	124	92	1	481	33	20	14	30	1.93
39762892--39762924	11	2.9	12	91	8	52	69	0	0	30	0.88
39762895--39762945	26	2.0	25	84	3	66	74	0	0	25	0.82
39774566--39774668	54	1.9	54	86	4	145	37	13	8	39	1.76
39778715--39778777	31	2.1	29	82	8	74	46	11	7	34	1.69
39780268--39780320	27	1.9	28	84	3	72	26	11	15	47	1.79
39780296--39780376	32	2.5	32	78	5	85	34	16	8	40	1.79
39789644--39789668	2	12.5	2	100	0	50	52	0	0	48	1.00
39803652--39803705	27	2.1	26	93	6	92	7	22	24	46	1.77
39811688--39811728	13	3.2	13	86	6	57	0	29	0	70	0.87
39831825--39831954	25	5.2	25	76	10	88	34	20	27	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39834985--39835016	2	16.0	2	100	0	64	0	50	0	50	1.00
39842155--39842351	103	1.9	103	85	6	274	36	10	16	37	1.82
39848854--39848936	43	1.9	43	88	9	125	15	18	31	34	1.92
39849234--39849548	47	7.0	47	85	8	449	32	11	14	41	1.82
39849231--39849548	93	3.5	94	87	5	464	33	11	14	41	1.81
39849231--39849550	140	2.4	130	89	5	471	32	11	14	41	1.81
39849460--39849533	36	2.1	36	97	0	139	29	10	13	45	1.77
39849895--39849919	12	2.1	12	100	0	50	40	0	8	52	1.31
39850083--39850173	25	3.7	24	77	4	101	36	19	26	17	1.94
39851710--39851766	21	2.7	21	94	0	96	42	0	5	52	1.24
39851710--39851777	21	3.2	21	83	6	84	36	0	7	55	1.28
39853796--39853865	31	2.3	30	85	9	88	51	4	5	38	1.45
39857783--39857817	6	5.8	6	100	0	70	34	0	14	51	1.42
39861783--39861838	27	2.1	27	93	6	96	33	12	3	50	1.58
39873570--39873638	11	6.5	11	76	19	67	40	2	0	56	1.14
39873560--39873628	30	2.4	28	87	7	102	40	1	0	57	1.07
39873583--39873616	17	2.0	17	94	0	59	38	0	0	61	0.96
39873570--39873674	48	2.1	51	89	8	162	40	1	0	58	1.09
39873611--39873708	37	2.8	34	82	13	103	35	1	1	62	1.09
39873661--39873721	32	1.9	32	83	6	79	31	0	4	63	1.15
39874943--39875012	31	2.3	29	82	4	77	38	11	8	41	1.72
39880172--39880240	27	2.6	27	81	4	86	23	20	36	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39880298--39880343	21	2.3	19	85	7	56	69	2	26	2	1.11
39882267--39882395	49	2.7	46	82	10	138	38	20	25	15	1.92
39882270--39882395	22	5.3	24	81	10	136	38	20	25	15	1.92
39883459--39883495	16	2.3	16	95	0	65	59	0	0	40	0.97
39883458--39883489	8	4.0	8	91	0	55	59	0	0	40	0.97
39883458--39883538	13	6.1	13	73	17	53	55	3	0	40	1.17
39883479--39883555	42	1.9	39	80	17	88	57	5	0	37	1.21
39887711--39887832	60	2.0	60	88	3	183	54	13	0	31	1.45
39887855--39887998	61	2.4	61	96	0	261	55	13	0	30	1.39
39887976--39888037	19	3.2	19	88	8	97	54	12	1	30	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