genome.fa.s20.2.7.7.80.10.50.1000.29.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  29  of  199  ( 23844 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)
9371912--9372560	132	4.9	132	91	0	987	28	17	24	29	1.97
9372624--9373003	132	2.9	131	89	3	548	31	19	22	27	1.98
9372733--9372978	44	5.6	44	71	9	151	31	19	23	26	1.98
9374558--9374615	3	19.3	3	78	7	64	36	3	1	58	1.25
9397671--9397723	27	2.0	26	85	10	72	24	13	5	56	1.58
9403572--9403613	20	2.0	21	86	4	59	26	2	11	59	1.45
9407483--9407508	3	8.7	3	100	0	52	65	0	0	34	0.93
9415053--9415323	124	2.2	125	90	5	424	29	15	22	32	1.94
9417204--9419772	856	3.0	856	97	0	4836	27	19	25	27	1.99
9420187--9420611	29	14.7	29	84	5	511	29	1	23	44	1.64
9420187--9420611	59	7.3	57	87	3	419	29	1	23	44	1.64
9420187--9420601	148	2.8	144	89	6	631	30	1	23	44	1.64
9420897--9420952	24	2.3	24	93	0	94	19	16	35	28	1.93
9422226--9422320	39	2.4	39	96	0	163	44	16	3	35	1.64
9422250--9422314	22	3.2	22	70	20	68	47	16	4	30	1.67
9422256--9422317	19	3.2	19	70	20	65	45	16	3	35	1.63
9422236--9422298	20	3.2	20	70	20	60	46	12	3	38	1.58
9422356--9422401	9	5.1	9	83	0	56	13	36	10	39	1.79
9424851--9424970	42	2.9	42	87	5	197	41	3	5	50	1.41
9425837--9425881	8	6.1	8	75	19	53	64	11	0	24	1.26
9429599--9429946	52	6.9	52	85	7	468	34	14	22	28	1.93
9429651--9429957	98	3.1	98	91	1	438	35	14	22	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9429585--9429946	150	2.4	144	92	5	580	34	14	22	28	1.93
9429921--9430103	37	5.0	37	95	1	307	37	16	21	24	1.94
9431772--9431828	29	2.0	29	89	6	89	56	1	1	40	1.20
9431864--9431914	22	2.3	21	83	9	66	33	0	33	33	1.58
9432595--9432625	15	2.0	16	93	6	55	16	0	12	70	1.16
9442672--9442785	60	1.9	61	87	5	169	35	17	10	36	1.84
9442849--9442996	60	2.5	60	84	6	183	39	12	18	29	1.88
9446153--9446227	30	2.5	30	76	8	80	44	2	0	53	1.14
9448026--9448089	29	2.2	29	85	2	83	62	6	6	25	1.42
9448940--9448993	19	2.8	19	88	0	81	38	11	16	33	1.84
9448953--9449019	19	3.2	21	79	10	75	37	7	17	37	1.79
9449200--9449244	23	2.0	23	81	0	54	22	0	15	62	1.33
9454829--9455479	88	7.4	88	89	1	991	29	27	23	20	1.99
9455025--9455429	44	9.3	43	62	7	143	29	27	23	19	1.98
9454829--9455490	263	2.5	264	90	0	1004	29	28	22	19	1.98
9454829--9455479	351	1.9	352	91	1	1083	29	27	23	20	1.99
9455490--9455610	43	2.8	44	85	7	158	26	17	27	28	1.97
9455974--9456298	44	7.5	44	70	12	174	30	19	21	28	1.97
9456316--9456431	45	2.6	45	87	2	144	28	24	21	25	1.99
9456988--9457098	19	5.8	19	94	0	186	36	9	16	37	1.80
9456988--9457121	38	3.4	38	91	4	196	36	8	16	38	1.78
9457303--9457347	23	2.0	23	81	0	54	22	0	15	62	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9457501--9457538	20	1.9	20	88	0	58	36	0	0	63	0.95
9459228--9459272	20	2.1	22	88	8	67	46	2	6	44	1.42
9463919--9463967	21	2.3	22	78	3	55	65	2	0	32	1.04
9465150--9465287	59	2.3	59	85	2	179	40	11	10	36	1.77
9465150--9465315	59	2.8	59	80	5	158	39	12	10	37	1.78
9478753--9478793	13	3.2	13	85	0	55	56	0	0	43	0.99
9478762--9478818	25	2.3	24	84	3	69	56	0	3	40	1.17
9481367--9481418	25	2.1	25	100	0	104	34	19	3	42	1.69
9490925--9491317	166	2.4	166	91	0	617	29	22	23	24	1.99
9491808--9491844	14	2.7	14	88	12	51	13	0	32	54	1.40
9491884--9491933	22	2.3	22	82	6	66	18	8	40	34	1.79
9492174--9492225	21	2.5	21	75	6	52	25	0	21	53	1.45
9492638--9492797	83	1.9	83	85	0	221	32	16	21	28	1.96
9492656--9492821	83	2.0	83	83	2	208	33	18	20	28	1.96
9492867--9492905	15	2.6	15	100	0	78	28	43	7	20	1.79
9494567--9494608	7	6.1	7	80	5	50	35	2	16	45	1.61
9494563--9494606	20	2.1	21	87	4	63	34	2	13	50	1.55
9495595--9495662	22	3.3	20	80	13	84	44	1	0	54	1.09
9495596--9495656	22	2.9	22	88	11	101	44	0	0	55	0.99
9495687--9495724	19	2.1	19	90	9	62	47	0	0	52	1.00
9495779--9496126	9	40.4	9	70	17	199	45	20	1	32	1.61
9495782--9495863	12	7.2	12	75	18	61	46	14	0	39	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9495784--9495863	32	2.4	33	81	12	101	46	15	0	38	1.46
9495849--9496126	25	11.0	25	81	6	212	45	21	2	30	1.64
9495862--9495937	34	2.2	34	83	0	89	43	22	3	30	1.71
9495842--9496078	59	4.0	60	74	12	202	45	21	1	31	1.62
9495921--9496077	34	4.7	33	73	16	128	44	22	0	31	1.58
9495980--9496078	16	5.8	18	71	18	52	46	22	1	30	1.58
9496098--9496130	16	2.1	16	94	0	57	48	21	0	30	1.50
9498659--9498824	87	1.9	87	89	0	260	39	19	28	12	1.88
9498785--9498834	21	2.4	21	86	0	64	34	18	42	6	1.74
9499334--9499451	42	2.7	43	80	8	141	28	20	26	24	1.99
9499418--9499602	43	4.3	43	89	0	264	26	21	23	28	1.99
9499946--9500009	32	2.0	32	84	6	85	57	1	0	40	1.08
9501616--9501648	17	1.9	17	93	0	57	54	0	9	36	1.32
9501913--9501962	20	2.5	20	87	3	66	44	2	0	54	1.11
9504866--9504928	29	2.2	29	85	5	83	30	4	17	47	1.68
9509051--9509096	23	2.0	23	100	0	92	21	21	13	43	1.86
9512003--9512035	17	1.9	17	93	0	57	78	6	0	15	0.93
9516996--9517020	13	1.9	13	100	0	50	68	24	0	8	1.16
9517476--9517659	15	12.1	15	74	4	163	28	27	22	21	1.99
9525051--9525118	30	2.3	29	87	5	102	25	32	25	17	1.97
9527938--9527978	18	2.2	20	86	8	59	19	0	14	65	1.26
9530084--9530237	60	2.6	60	84	4	177	29	20	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9530023--9530244	15	14.8	15	74	1	140	30	22	20	27	1.98
9530142--9530261	60	2.0	58	80	9	134	28	17	25	29	1.97
9534284--9534402	62	1.9	61	94	1	211	22	16	25	35	1.95
9536232--9536301	35	2.0	35	100	0	140	28	14	11	45	1.79
9541532--9541661	22	6.0	22	74	4	120	44	17	21	16	1.86
9541536--9541669	44	3.0	43	85	4	178	44	17	22	15	1.87
9551421--9551473	22	2.4	22	84	6	72	33	32	0	33	1.58
9551507--9551563	29	2.0	29	90	10	91	42	0	1	56	1.10
9551509--9551570	29	2.1	29	82	11	74	43	0	1	54	1.09
9551661--9551694	15	2.3	15	90	5	52	26	0	5	67	1.13
9553498--9553553	24	2.3	24	93	0	94	30	33	16	19	1.94
9553912--9555029	28	40.1	28	77	13	854	43	23	0	32	1.59
9553903--9553951	23	2.1	23	92	0	80	48	16	0	34	1.46
9554077--9554177	53	1.9	52	93	2	175	39	31	0	28	1.57
9553919--9555029	256	4.4	253	86	8	1405	43	23	0	32	1.59
9554733--9554830	37	2.7	36	78	9	110	42	26	0	30	1.55
9558238--9558504	125	2.1	125	90	4	423	32	22	16	28	1.96
9558727--9558780	29	1.9	27	88	7	81	37	16	16	29	1.91
9567433--9567494	16	3.8	16	75	14	54	12	8	3	75	1.14
9567450--9567498	24	2.0	25	84	11	66	12	12	4	71	1.28
9573260--9574246	44	23.1	42	77	9	798	29	24	16	28	1.97
9596827--9596976	45	3.3	45	86	1	194	21	18	18	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9599043--9599204	40	4.1	40	88	0	229	39	25	17	17	1.91
9599043--9599196	79	1.9	79	88	2	229	38	25	16	18	1.92
9607315--9607371	19	3.1	18	75	9	60	29	0	3	66	1.08
9618852--9618911	30	2.0	31	86	3	86	40	0	40	20	1.52
9619126--9619162	9	4.1	9	86	13	58	32	10	10	45	1.74
9628097--9628129	16	2.0	17	94	5	59	66	0	15	18	1.25
9629369--9630239	128	6.8	128	92	1	1388	32	19	22	24	1.97
9630230--9630994	44	17.8	44	66	13	153	28	18	25	27	1.98
9630213--9631007	217	3.7	215	89	3	1172	28	18	25	27	1.98
9632567--9632601	17	2.0	18	88	5	54	40	8	0	51	1.33

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