genome.fa.s25.2.7.7.80.10.50.1000.132.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  132  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)
40129133--40129227	12	7.9	12	72	13	54	69	3	5	22	1.23
40134764--40134797	15	2.2	16	89	5	52	44	0	0	55	0.99
40135906--40135963	28	2.1	28	81	12	66	32	1	1	63	1.14
40137489--40137532	18	2.4	18	88	0	70	20	27	9	43	1.82
40137895--40138089	93	2.1	93	93	0	327	36	2	5	55	1.36
40138028--40138149	55	2.2	55	84	5	149	40	2	4	51	1.36
40138115--40138144	9	3.4	9	90	9	53	36	0	0	63	0.95
40144293--40144337	15	3.0	15	80	0	54	73	0	13	13	1.10
40152298--40152329	14	2.2	15	94	5	57	50	3	6	40	1.43
40152604--40152637	18	1.9	17	94	5	59	35	0	0	64	0.94
40152602--40152660	25	2.4	24	81	15	68	32	0	0	67	0.91
40152868--40152920	24	2.3	23	80	3	61	52	9	5	32	1.57
40153000--40153038	16	2.3	18	86	8	55	58	5	2	33	1.33
40159227--40159296	29	2.3	29	82	4	86	38	10	11	40	1.75
40159449--40159560	31	3.7	31	78	9	106	41	11	11	35	1.78
40163369--40163469	51	2.0	50	86	1	139	28	12	18	39	1.88
40163324--40163951	44	14.1	44	74	8	367	29	18	16	35	1.93
40167147--40167181	10	3.5	10	84	0	52	14	22	25	37	1.92
40173425--40173476	19	2.7	20	85	11	65	42	5	21	30	1.76
40180882--40180922	21	2.0	21	85	0	55	36	0	4	58	1.20
40183380--40183422	21	2.1	20	82	4	50	27	6	0	65	1.18
40186173--40186232	31	1.9	31	89	0	93	35	13	10	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40195473--40195497	2	12.5	2	100	0	50	48	0	0	52	1.00
40198385--40198409	11	2.3	11	100	0	50	8	8	0	84	0.79
40199255--40199288	7	4.9	7	89	10	52	14	0	0	85	0.60
40204631--40204767	49	2.8	49	90	0	211	35	26	12	25	1.91
40211492--40212250	44	16.7	44	75	9	531	35	17	18	28	1.94
40211492--40212155	89	7.3	88	78	7	467	35	17	18	28	1.94
40211492--40211984	184	2.7	176	80	7	494	35	17	18	28	1.94
40212024--40212204	51	3.7	50	77	13	205	37	17	17	28	1.92
40211720--40212252	89	5.8	95	81	8	434	35	16	19	28	1.94
40212265--40212368	44	2.4	44	86	0	136	33	15	24	26	1.95
40212654--40212682	9	3.2	9	100	0	58	37	31	20	10	1.86
40215998--40216343	47	7.4	47	92	0	559	28	30	7	32	1.85
40216213--40216288	22	3.3	22	67	16	64	27	30	9	32	1.88
40220926--40220976	26	2.0	26	88	0	75	27	45	5	21	1.75
40222652--40222676	9	2.8	9	100	0	50	36	0	8	56	1.29
40225146--40225233	26	3.5	25	77	7	97	56	9	9	25	1.59
40235048--40235160	23	4.7	24	82	6	140	21	25	5	47	1.71
40235979--40236021	16	2.5	17	77	11	52	23	13	0	62	1.31
40241668--40241692	2	12.5	2	100	0	50	52	0	0	48	1.00
40242058--40242103	23	2.0	24	86	4	67	50	6	0	43	1.28
40244063--40244119	15	3.5	15	71	17	51	49	1	1	47	1.22
40246731--40246794	30	2.1	31	88	5	96	37	20	14	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40261878--40261907	11	2.7	11	100	0	60	66	0	0	33	0.92
40263129--40263186	22	2.5	23	78	16	66	17	1	13	67	1.32
40263520--40264323	93	8.8	95	70	14	376	28	21	17	32	1.96
40263702--40263970	49	5.8	46	75	7	175	27	18	17	35	1.94
40263527--40264287	139	5.5	139	79	5	597	28	20	18	32	1.96
40263481--40264282	44	17.6	45	73	10	372	28	20	18	32	1.96
40265210--40265257	17	2.9	17	82	14	64	0	20	0	79	0.74
40267582--40267606	10	2.5	10	100	0	50	44	0	8	48	1.32
40269972--40270047	35	2.2	35	97	0	143	34	26	10	28	1.90
40277488--40277515	12	2.3	12	100	0	56	14	25	25	35	1.93
40279923--40280117	93	2.1	92	88	4	286	44	4	4	47	1.41
40280095--40280193	52	2.0	52	80	11	118	45	6	2	46	1.39
40280150--40280183	17	2.0	17	94	0	59	44	5	0	50	1.26
40280155--40280202	17	3.0	16	79	17	55	45	6	2	45	1.40
40280247--40280298	15	3.6	15	80	12	56	44	0	1	53	1.11
40280192--40280414	120	1.9	120	95	1	403	41	2	5	50	1.39
40280376--40280417	15	2.7	16	82	14	52	45	0	2	52	1.13
40280367--40280408	15	2.9	15	82	10	52	47	0	0	52	1.00
40280351--40280664	154	2.0	156	95	1	560	46	4	3	45	1.40
40280517--40280551	18	2.0	17	88	5	52	45	0	0	54	0.99
40280784--40280822	16	2.4	16	86	0	51	28	33	2	35	1.71
40280797--40280853	16	3.6	16	95	0	87	33	36	0	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40281005--40281072	16	4.2	16	94	0	109	27	0	35	36	1.58
40281053--40281147	45	2.1	44	86	1	127	34	5	26	33	1.79
40281309--40281343	18	2.0	17	88	5	52	54	0	0	45	0.99
40281267--40281339	27	2.7	27	76	8	76	52	2	0	45	1.15
40281456--40281490	18	2.0	17	88	5	52	54	0	0	45	0.99
40281228--40281502	147	1.9	149	95	1	500	46	3	2	47	1.35
40281558--40281610	16	3.4	17	73	21	53	56	0	0	43	0.99
40281484--40281670	60	3.1	59	66	13	157	49	6	2	41	1.42
40281436--40281730	119	2.5	120	93	2	495	50	4	2	43	1.35
40284708--40284766	29	2.0	31	86	6	86	38	10	16	33	1.83
40287903--40287970	31	2.2	31	84	5	84	39	10	14	35	1.80
40290178--40290277	46	2.1	47	96	3	193	38	26	19	17	1.93
40291973--40292132	42	3.9	41	85	3	212	23	20	21	35	1.96
40292514--40292564	21	2.4	21	96	0	93	1	45	17	35	1.60
40292449--40292608	87	1.8	87	94	0	275	12	30	17	40	1.86
40292899--40293103	42	4.8	43	84	5	256	27	32	18	22	1.97
40293101--40293130	16	1.9	16	93	6	53	50	3	0	46	1.18
40293376--40293466	43	2.1	43	87	2	130	43	9	10	35	1.73
40298333--40298577	41	6.0	41	92	0	382	27	28	23	20	1.99
40298631--40298763	40	3.3	41	79	7	141	24	22	20	32	1.98
40298752--40298777	12	2.2	12	100	0	52	46	30	15	7	1.74
40303654--40303711	26	2.2	26	90	0	98	41	6	12	39	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40303699--40303940	9	27.4	9	72	12	180	34	1	18	45	1.57
40303699--40303952	34	6.9	36	71	11	142	34	1	18	45	1.59
40303701--40303828	43	2.9	43	74	13	111	35	0	18	45	1.56
40303697--40303958	113	2.4	107	94	3	443	34	1	18	45	1.60
40303960--40304066	29	3.5	29	71	15	99	32	3	14	49	1.60
40303957--40304055	33	3.1	33	67	21	93	31	4	15	49	1.63
40304427--40304474	25	1.9	25	87	8	71	62	2	0	35	1.07
40305429--40305809	191	2.0	191	91	0	618	43	11	26	18	1.85
40306477--40306520	21	2.1	21	83	8	54	38	36	0	25	1.56
40307260--40307891	114	5.7	112	78	10	616	24	20	19	35	1.96
40307268--40307890	227	2.8	226	81	6	688	23	21	19	35	1.95
40307260--40307760	113	4.4	113	82	4	605	25	20	18	35	1.95
40307665--40307854	100	1.9	100	87	7	278	26	22	17	33	1.96
40314874--40314898	12	2.1	12	100	0	50	48	8	0	44	1.32
40317587--40317624	15	2.5	15	95	0	67	21	0	5	73	1.02
40317626--40317677	13	4.1	13	75	12	54	55	0	0	44	0.99
40317628--40317697	22	2.9	25	83	12	76	54	0	0	45	0.99
40317653--40317716	11	6.1	11	83	8	89	56	0	0	43	0.99
40317645--40317705	22	2.6	25	75	20	67	57	0	0	42	0.98
40317656--40317728	22	3.5	20	74	9	56	58	0	2	38	1.12
40322719--40322905	98	1.9	98	92	0	311	26	11	23	37	1.89
40334286--40335020	44	16.7	43	65	14	270	29	19	25	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40334279--40335041	132	5.8	132	95	0	1319	30	19	25	24	1.98
40334279--40335130	396	2.2	396	89	3	1245	30	20	24	25	1.99
40337357--40337407	23	2.3	22	80	9	59	64	5	0	29	1.17
40347791--40347826	18	2.1	18	89	5	56	61	0	2	36	1.11
40348987--40349039	8	7.0	7	80	16	61	16	0	1	81	0.79
40348986--40349039	23	2.4	22	87	6	72	18	0	1	79	0.82
40348997--40349039	9	4.6	9	80	8	50	16	0	2	81	0.79
40349283--40349502	111	2.0	111	89	0	341	25	22	22	29	1.99
40349394--40350136	128	5.8	128	89	1	986	26	23	19	30	1.98
40349926--40350515	132	4.5	132	96	0	1054	29	25	17	27	1.97

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