genome.fa.s25.2.7.7.80.10.50.1000.190.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  190  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)
55762974--55763013	9	4.4	9	84	12	55	27	10	17	45	1.80
55766172--55766205	16	2.1	16	88	0	50	23	8	5	61	1.47
55766373--55766409	17	2.1	18	90	5	58	43	5	5	45	1.49
55772799--55774225	100	14.3	100	87	0	1911	33	22	20	23	1.97
55775875--55775911	17	2.1	18	90	5	58	43	5	5	45	1.49
55778582--55778731	26	6.2	23	78	13	106	60	4	6	29	1.41
55778605--55778976	26	14.1	26	75	10	292	60	3	6	29	1.40
55778680--55778728	22	2.3	23	86	10	68	63	4	2	30	1.24
55778628--55778864	75	3.1	74	74	15	192	62	4	4	29	1.33
55778702--55778856	57	2.8	56	80	4	172	63	3	4	29	1.30
55778605--55778976	110	3.5	104	76	13	307	60	3	6	29	1.40
55778913--55778980	29	2.3	29	78	14	77	67	1	5	25	1.21
55779770--55779804	18	2.0	17	88	5	52	80	8	11	0	0.92
55786997--55787060	27	2.3	27	81	7	76	65	3	0	31	1.08
55787643--55787731	29	3.0	30	77	4	92	51	1	1	46	1.15
55793683--55793710	8	3.5	8	100	0	56	89	0	10	0	0.49
55806315--55806503	85	2.2	84	83	3	227	41	17	7	33	1.77
55806755--55806795	19	2.2	19	86	0	55	43	2	0	53	1.13
55806838--55806863	11	2.4	11	100	0	52	15	0	7	76	0.99
55810417--55810480	17	3.6	17	74	15	67	46	12	12	28	1.78
55810435--55810488	17	3.1	17	70	19	56	46	14	12	25	1.81
55810420--55810488	36	1.9	36	96	0	129	46	13	13	27	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55813101--55813164	17	3.6	17	74	15	67	46	12	12	28	1.78
55813119--55813172	17	3.1	17	70	19	56	46	14	12	25	1.81
55813104--55813172	36	1.9	36	96	0	129	46	13	13	27	1.79
55813512--55813549	3	12.3	3	94	5	67	65	31	0	2	1.06
55816263--55816300	19	2.0	20	84	5	51	47	2	0	50	1.15
55824877--55824914	17	2.3	16	95	4	67	65	18	0	15	1.27
55826286--55826330	11	4.3	11	84	15	60	55	0	0	44	0.99
55826273--55826332	32	1.9	31	86	10	86	51	1	0	46	1.10
55826302--55826379	29	2.7	28	81	13	95	60	0	1	38	1.05
55826302--55826379	30	2.7	28	84	9	104	60	0	1	38	1.05
55826273--55826379	30	3.7	30	80	12	93	57	0	0	40	1.11
55826792--55826862	19	3.6	18	72	26	54	54	4	0	40	1.20
55826939--55826972	17	2.0	17	88	0	50	26	0	5	67	1.13
55827302--55827346	7	6.6	7	87	2	65	37	2	2	57	1.23
55829033--55829067	16	2.1	17	89	5	54	22	2	2	71	1.13
55829485--55829540	28	2.0	28	100	0	112	50	7	7	35	1.57
55829892--55829932	20	2.0	20	85	0	55	53	0	19	26	1.45
55830743--55830864	52	2.4	52	84	1	156	36	18	15	29	1.91
55834592--55834624	17	1.9	17	93	0	57	51	12	18	18	1.76
55840634--55840685	15	3.2	15	73	19	50	44	0	1	53	1.11
55840718--55840753	16	2.2	17	90	9	58	36	0	2	61	1.11
55840713--55840759	13	3.3	14	80	14	51	46	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55843300--55843414	44	2.6	44	85	2	149	35	13	22	27	1.92
55843300--55843433	46	3.0	45	82	4	153	35	14	23	26	1.93
55850681--55850795	44	2.6	44	85	2	149	35	13	22	27	1.92
55850681--55850814	46	3.0	45	82	4	153	35	14	23	26	1.93
55853112--55853170	31	1.9	31	92	0	100	22	22	3	52	1.61
55853254--55853388	25	5.6	25	81	10	142	39	19	23	17	1.92
55855619--55855658	21	1.9	21	89	0	62	30	15	2	52	1.55
55857104--55857199	23	4.2	23	81	5	113	31	25	19	23	1.98
55857111--55857201	46	2.0	46	88	0	137	30	24	21	23	1.99
55858389--55858424	18	2.0	18	100	0	72	38	11	5	44	1.63
55860153--55860226	19	3.9	18	77	8	76	31	21	24	22	1.99
55860152--55860226	38	2.0	38	94	0	132	30	21	24	24	1.99
55860302--55860332	6	5.2	6	92	0	53	35	29	0	35	1.58
55860296--55860332	12	3.1	12	88	0	56	40	27	0	32	1.57
55861844--55861901	22	2.6	22	81	7	64	41	17	5	36	1.72
55866877--55867032	46	3.4	45	76	11	147	55	1	5	36	1.35
55866879--55866927	25	2.0	24	84	7	64	59	2	2	36	1.21
55866903--55867036	22	5.9	23	68	16	84	55	1	5	36	1.33
55866879--55867036	23	6.9	23	72	15	96	56	1	5	36	1.32
55868602--55868717	50	2.3	50	95	4	207	47	9	8	34	1.67
55869802--55869844	22	2.0	22	100	0	86	51	9	16	23	1.73
55873696--55873798	42	2.5	42	82	3	118	42	20	21	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55873779--55873843	20	3.2	20	77	2	58	44	15	20	20	1.86
55879530--55879648	21	5.7	21	74	0	112	17	25	15	41	1.89
55879524--55879664	42	3.4	42	82	0	156	19	25	15	39	1.91
55879512--55879631	63	1.9	62	81	1	141	20	24	15	40	1.91
55882440--55882476	9	4.1	9	92	0	65	45	13	10	29	1.77
55882690--55882749	30	2.0	31	86	3	86	20	36	0	43	1.52
55882801--55882837	20	1.9	19	89	10	58	24	32	0	43	1.55
55883873--55883941	34	2.0	35	94	2	122	24	23	18	33	1.97
55885467--55885524	25	2.2	26	82	14	75	29	25	27	17	1.97
55885481--55885705	24	9.2	25	72	10	135	34	20	26	19	1.96
55890194--55890220	7	3.9	7	100	0	54	40	14	0	44	1.46
55890333--55890375	6	6.8	6	81	7	50	44	16	20	18	1.87
55890359--55890504	45	3.2	44	85	3	202	41	21	17	19	1.90
55891446--55891472	9	3.0	9	100	0	54	55	0	0	44	0.99
55894037--55894075	19	2.1	19	85	9	53	43	0	12	43	1.42
55894156--55894447	46	6.5	46	93	2	477	32	16	22	28	1.95
55894156--55894447	91	3.2	91	93	1	491	32	16	22	28	1.95
55903675--55903739	18	3.6	18	91	0	103	33	13	20	32	1.91
55904621--55904645	12	2.1	12	100	0	50	36	16	40	8	1.77
55918651--55918721	29	2.4	30	80	2	81	32	14	8	45	1.74
55918651--55918817	30	5.7	29	71	10	88	34	15	8	41	1.77
55919036--55919079	17	2.7	16	77	19	54	63	0	36	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55919388--55919487	22	4.0	26	76	18	83	78	0	20	2	0.86
55919384--55919473	37	2.4	38	85	14	118	76	0	21	2	0.89
55919384--55919481	40	2.5	41	81	9	123	77	0	20	2	0.87
55919387--55919485	9	10.6	9	73	18	69	78	0	19	2	0.84
55919810--55920310	17	28.1	18	69	16	192	29	12	10	46	1.76
55919881--55920321	17	25.1	17	70	13	250	29	12	10	46	1.75
55919955--55920001	15	2.9	15	84	12	58	31	8	10	48	1.68
55919921--55920367	52	8.5	51	73	10	199	31	11	10	47	1.73
55919810--55920368	35	15.8	34	71	13	240	31	12	10	46	1.74
55919904--55920321	87	4.8	87	74	10	246	30	12	10	47	1.75
55931228--55931257	8	3.6	8	95	4	51	90	0	10	0	0.47
55931228--55931257	9	3.4	9	90	9	53	90	0	10	0	0.47
55931785--55933394	76	20.8	76	83	9	1614	27	15	20	36	1.93
55931782--55933316	78	19.8	78	84	8	1656	26	15	20	37	1.93
55931782--55933447	317	5.4	309	82	9	1499	27	16	19	36	1.93
55931785--55933468	395	4.4	382	85	7	1861	27	16	20	36	1.93
55933675--55933829	30	5.2	28	76	9	130	36	16	3	42	1.67
55933675--55933814	59	2.4	58	79	5	156	37	17	3	42	1.66
55934056--55934089	16	2.1	16	94	0	59	64	0	35	0	0.94
55934063--55934118	16	3.4	16	81	13	69	64	0	35	0	0.94
55934178--55934211	3	11.3	3	87	0	50	61	0	38	0	0.96
55934177--55934211	18	1.9	18	94	0	61	60	0	40	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55934249--55934284	12	3.0	12	87	0	54	22	55	19	2	1.56
55934495--55934590	9	10.0	10	72	20	73	79	0	20	0	0.74
55934505--55934588	22	3.8	22	81	10	100	79	0	20	0	0.73
55934494--55934590	43	2.3	42	84	8	133	79	0	20	0	0.73
55934490--55934587	31	2.9	32	81	16	119	80	0	19	0	0.71
55934911--55935294	18	21.5	18	68	16	124	29	12	10	47	1.74
55935057--55935103	15	2.9	15	84	12	58	31	8	10	48	1.68
55934982--55935293	17	17.8	17	71	11	193	28	12	10	49	1.73
55934982--55935293	35	8.9	34	70	15	165	28	12	10	49	1.73
55938134--55938194	32	1.9	32	90	6	97	27	9	16	45	1.79

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