genome.fa.s25.2.7.7.80.10.50.1000.37.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  37  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)
10156409--10156433	13	1.9	13	100	0	50	44	0	8	48	1.32
10164532--10164625	48	1.9	49	86	2	136	21	14	22	41	1.89
10170136--10170181	24	1.9	24	86	0	65	39	2	0	58	1.10
10179041--10179080	19	2.1	19	100	0	80	20	0	35	45	1.51
10183779--10183896	57	2.1	57	87	4	166	25	18	6	49	1.72
10188268--10188475	40	5.2	40	92	0	301	27	28	19	24	1.99
10188266--10188530	80	3.3	80	85	2	257	27	27	19	24	1.99
10188266--10188530	120	2.2	118	80	4	298	27	27	19	24	1.99
10196208--10196415	40	5.2	40	92	0	310	26	28	20	24	1.99
10196211--10196470	80	3.3	80	85	2	238	26	28	20	24	1.99
10196206--10196470	120	2.2	118	80	4	298	27	27	20	24	1.99
10199091--10199120	12	2.5	12	94	0	51	23	43	26	6	1.78
10201120--10201174	19	2.8	20	70	25	55	60	0	1	38	1.08
10204960--10205035	38	2.0	39	87	5	111	39	1	3	55	1.27
10208363--10208426	32	2.0	32	100	0	128	21	37	6	34	1.79
10210645--10210727	26	3.3	26	67	13	82	20	27	7	44	1.78
10210641--10210744	50	2.1	50	100	0	208	19	25	5	50	1.69
10211613--10211658	24	1.9	24	86	0	65	13	41	4	41	1.63
10211681--10211710	14	2.1	14	93	0	51	10	43	10	36	1.72
10211868--10211893	13	2.0	13	100	0	52	23	7	15	53	1.67
10212149--10212206	27	2.1	27	100	0	116	34	31	10	24	1.89
10213546--10213588	17	2.7	15	83	13	59	23	11	9	55	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10214499--10214529	15	2.1	15	100	0	62	38	35	0	25	1.56
10214653--10214714	18	3.2	18	66	16	52	56	3	3	37	1.32
10214650--10214723	20	3.7	20	72	13	80	58	2	4	35	1.31
10214836--10214873	14	2.7	14	87	0	58	39	18	7	34	1.80
10225864--10226128	103	2.6	103	89	3	406	20	20	29	30	1.97
10227546--10227600	23	2.3	23	85	14	85	41	0	9	49	1.34
10227555--10227596	13	3.5	13	75	18	54	38	0	11	50	1.40
10228344--10228540	98	2.0	98	93	0	340	37	24	10	28	1.88
10229653--10229766	55	2.0	58	86	6	162	12	26	2	58	1.47
10230308--10230993	44	15.6	44	73	13	416	26	23	21	29	1.99
10230440--10230914	45	10.7	45	74	12	292	25	23	20	29	1.99
10230399--10230691	134	2.2	134	94	0	514	24	23	22	30	1.99
10230534--10230996	218	2.1	218	92	0	764	26	23	21	28	1.99
10236210--10236406	98	2.0	98	94	0	349	37	25	9	27	1.87
10237545--10237653	32	3.5	32	70	11	109	7	25	2	64	1.33
10237529--10237651	61	2.0	62	95	3	223	10	26	4	58	1.49
10237544--10237672	60	2.1	61	82	4	154	10	24	6	59	1.52
10241915--10241995	25	3.2	25	84	6	101	33	20	20	24	1.97
10241907--10242019	50	2.3	50	82	0	136	32	20	20	26	1.97
10247732--10247764	16	2.1	16	100	0	66	24	6	21	48	1.72
10247871--10247938	34	2.0	34	94	5	120	26	4	30	38	1.76
10250738--10250807	31	2.3	31	76	0	77	47	8	1	42	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10253032--10253065	14	2.5	14	95	4	61	50	35	0	14	1.44
10255499--10255536	20	1.9	20	94	0	67	65	18	0	15	1.27
10259116--10259162	18	2.6	18	89	0	67	29	23	27	19	1.98
10259111--10259171	18	3.3	18	79	6	52	34	24	22	18	1.96
10261429--10261466	18	2.2	18	90	9	62	71	2	5	21	1.19
10261524--10261665	73	1.9	73	94	0	248	34	16	7	41	1.77
10267957--10268127	85	2.0	85	95	0	306	37	20	8	33	1.82
10270013--10270061	25	1.9	25	84	12	64	59	8	4	28	1.45
10275420--10275555	41	3.5	40	77	9	154	33	25	16	25	1.95
10276433--10276493	4	13.8	4	74	19	50	3	21	6	68	1.27
10276491--10276572	36	2.3	34	85	6	101	43	4	2	48	1.37
10284365--10284488	43	2.9	43	83	1	149	27	19	21	31	1.97
10290074--10290151	31	2.5	31	85	0	93	32	7	16	43	1.76
10290272--10290524	43	5.9	43	88	0	362	27	15	24	32	1.95
10299338--10299380	21	2.0	21	90	0	68	39	27	4	27	1.76
10300398--10300437	2	20.0	2	100	0	80	50	0	50	0	1.00
10301009--10301041	6	5.5	6	100	0	66	15	0	48	36	1.45
10329317--10329398	42	2.0	42	87	4	121	50	10	3	35	1.55
10329550--10329586	10	3.6	10	88	3	56	0	29	0	70	0.88
10330385--10330436	21	2.5	21	87	0	77	25	7	36	30	1.84
10334110--10334298	94	2.0	92	82	2	225	35	9	22	32	1.86
10335610--10335653	21	2.1	21	95	0	79	9	13	31	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10336394--10336458	30	2.2	30	94	0	112	27	29	3	40	1.71
10337693--10337979	150	1.9	150	89	1	450	31	20	19	29	1.97
10338785--10338832	25	1.9	25	87	8	71	37	0	4	58	1.18
10341816--10342085	125	2.2	126	89	2	400	31	18	14	34	1.91
10342221--10342293	21	3.5	21	69	14	69	47	23	0	28	1.52
10345648--10345699	21	2.5	22	81	12	56	32	1	17	48	1.58
10348675--10348805	57	2.3	57	84	2	156	41	4	19	34	1.72
10350222--10350271	21	2.4	21	78	15	68	40	10	2	48	1.48
10350387--10350474	41	2.1	41	83	4	106	32	23	17	26	1.96
10357836--10357885	21	2.4	21	78	15	68	40	10	2	48	1.48
10357971--10358090	41	2.9	40	83	2	132	30	24	18	27	1.98
10361187--10361257	30	2.4	30	87	0	106	50	15	5	28	1.66
10373604--10373645	18	2.2	20	91	8	70	52	7	0	40	1.29
10375619--10375646	14	2.0	14	100	0	56	50	0	35	14	1.43
10378235--10378271	5	7.2	5	93	6	65	18	2	0	78	0.87
10378238--10378268	16	1.9	16	100	0	62	19	3	0	77	0.90
10379361--10379400	15	2.7	15	84	0	53	37	5	2	55	1.35
10384542--10384600	6	9.3	6	85	10	73	83	0	3	13	0.78
10384542--10384597	20	2.8	20	86	2	78	83	0	3	12	0.76
10385554--10385652	45	2.2	44	78	8	112	31	13	24	31	1.93
10385666--10386462	44	17.7	43	72	13	399	31	19	20	27	1.97
10385603--10386147	139	4.0	138	79	6	488	32	18	20	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10385668--10386619	317	3.0	315	86	5	1228	32	20	20	26	1.97
10386540--10386641	44	2.3	44	93	0	177	31	27	20	20	1.98
10386223--10386641	185	2.3	176	77	5	419	31	21	21	25	1.98
10386361--10386620	141	1.8	141	81	4	319	30	20	23	25	1.98
10387788--10387817	14	2.1	14	93	0	51	40	6	3	50	1.45
10388413--10388521	41	2.7	41	85	2	148	26	27	19	26	1.99
10391367--10391406	15	2.7	15	84	0	53	37	5	2	55	1.35
10396467--10396500	5	6.4	5	87	12	50	79	0	0	20	0.73
10396452--10396501	22	2.3	21	80	16	57	80	0	4	16	0.87
10396470--10396504	17	2.1	17	94	0	61	80	0	0	20	0.72
10397454--10397552	45	2.2	44	78	8	112	31	13	24	31	1.93
10397566--10398360	44	17.7	44	75	10	507	31	20	20	27	1.97
10397568--10398516	317	3.0	315	86	5	1219	32	20	20	26	1.97
10398259--10398510	140	1.8	140	83	5	339	29	19	24	26	1.98
10398437--10398538	44	2.3	44	93	0	177	31	27	20	20	1.98
10398121--10398538	184	2.3	176	77	4	426	30	22	21	25	1.98
10399682--10399711	14	2.1	14	93	0	51	40	6	3	50	1.45
10400307--10400415	41	2.7	41	85	2	148	26	27	19	26	1.99
10403280--10403319	15	2.7	15	84	0	53	37	5	2	55	1.35
10410600--10410625	4	6.5	4	100	0	52	73	0	0	26	0.84
10410645--10410676	15	2.1	15	100	0	64	18	6	6	68	1.32
10419340--10419401	31	2.0	31	87	6	90	38	4	12	43	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10422055--10422542	161	3.0	164	88	3	750	26	17	17	39	1.91
10422568--10422596	5	6.0	5	92	8	51	41	0	0	58	0.98
10424643--10424712	31	2.2	32	89	2	106	38	8	8	44	1.66
10435161--10435244	41	2.0	41	97	0	159	33	4	21	40	1.74
10436599--10436666	26	2.6	26	90	2	100	61	4	1	32	1.24
10445663--10445858	50	3.8	50	78	8	155	30	19	26	23	1.98
10445718--10445857	50	2.8	50	83	0	163	30	22	26	20	1.98
10446823--10447166	124	2.8	124	93	0	573	28	14	22	34	1.94
10450210--10450316	19	5.7	20	76	21	124	50	2	8	38	1.47
10450200--10450327	37	3.5	37	97	0	247	50	3	7	39	1.45

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