genome.fa.s24.2.7.7.80.10.50.1000.14.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: D11
Parameters: 2 7 7 80 10 50 1000
Length:  73211361

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   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   

This is table  14  of  240  ( 28759 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)
5168876--5168916	21	2.0	21	95	0	73	31	21	26	19	1.97
5170821--5170854	16	2.1	16	88	0	50	50	14	17	17	1.79
5179897--5179921	9	2.8	9	100	0	50	80	0	0	20	0.72
5186263--5186305	22	1.9	23	85	4	61	44	0	0	55	0.99
5187069--5187110	20	2.1	20	86	0	57	52	2	0	45	1.13
5199012--5199048	11	3.2	12	81	11	51	70	0	0	29	0.88
5199012--5199054	22	2.0	21	86	9	59	65	0	0	34	0.93
5199012--5199051	10	3.6	11	86	6	55	67	0	0	32	0.91
5204394--5204445	24	2.2	24	82	0	59	51	13	5	28	1.64
5204489--5204594	54	2.0	54	100	0	212	32	29	12	26	1.92
5206615--5206728	50	2.3	51	90	1	185	27	24	14	33	1.95
5222182--5222245	26	2.5	27	80	17	82	51	0	1	46	1.10
5222187--5222220	16	2.2	16	90	10	54	55	0	0	44	0.99
5222186--5222245	10	5.9	10	75	14	52	51	0	1	46	1.10
5231064--5231101	8	4.6	8	87	6	58	55	0	0	44	0.99
5234273--5234332	28	2.1	28	81	6	68	35	0	3	61	1.12
5237495--5237519	4	6.2	4	100	0	50	52	0	0	48	1.00
5239262--5239294	3	11.0	3	100	0	66	66	0	0	33	0.92
5249132--5249172	21	2.0	21	90	0	64	19	29	21	29	1.98
5253603--5253811	52	4.1	51	85	11	286	35	14	22	27	1.93
5253595--5253811	98	2.1	99	86	8	294	35	14	22	27	1.93
5253707--5253811	46	2.3	46	93	3	176	37	13	20	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5253775--5253883	37	3.0	37	88	7	170	35	16	22	25	1.94
5255135--5255230	49	1.9	50	95	2	176	25	12	26	36	1.91
5258374--5258582	52	4.1	51	85	11	286	35	14	22	27	1.93
5258366--5258582	98	2.1	99	86	8	294	35	14	22	27	1.93
5258478--5258693	37	5.3	44	86	10	199	37	14	20	27	1.92
5258546--5258691	37	4.0	37	92	5	235	36	16	21	25	1.94
5262341--5262386	20	2.3	21	74	11	51	67	0	2	30	1.03
5262584--5262659	38	2.0	38	100	0	152	47	21	10	21	1.80
5267351--5267394	17	2.5	18	82	10	56	36	0	0	63	0.95
5280450--5280482	14	2.4	14	90	10	50	66	6	3	24	1.28
5289899--5289944	24	1.9	24	86	8	67	32	26	28	13	1.93
5292531--5292562	15	2.0	17	88	11	50	31	3	3	62	1.26
5300018--5300077	31	2.0	30	83	3	75	51	3	11	33	1.55
5305061--5305147	42	2.1	42	100	0	174	36	20	17	25	1.94
5330855--5330909	3	18.3	3	88	0	65	0	25	32	41	1.56
5333567--5333593	13	2.1	13	100	0	54	59	14	18	7	1.58
5337739--5337772	17	2.0	17	94	0	59	44	50	0	5	1.26
5342378--5342411	17	2.0	17	94	0	59	44	50	0	5	1.26
5344948--5345009	30	2.1	30	93	0	106	58	12	3	25	1.50
5345688--5345734	16	2.8	17	81	15	53	36	0	10	53	1.36
5346876--5346912	18	2.0	19	89	5	58	43	0	0	56	0.99
5346876--5346948	19	3.9	18	77	13	67	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5346895--5346957	20	3.2	20	81	0	63	46	0	1	52	1.10
5346890--5346948	9	6.4	9	79	11	50	44	0	0	55	0.99
5346882--5346952	29	2.5	29	76	15	76	42	0	0	57	0.98
5348261--5348365	50	2.1	49	80	10	113	45	4	15	34	1.67
5348983--5349033	21	2.4	22	80	6	61	11	9	15	62	1.53
5350102--5350660	159	3.5	159	94	2	926	40	10	25	23	1.86
5355754--5355829	15	5.0	15	71	16	50	34	1	5	59	1.28
5360874--5361297	51	8.4	51	78	4	279	29	14	25	30	1.95
5360909--5361340	102	4.3	102	83	3	496	29	14	25	30	1.95
5360908--5361308	153	2.6	150	79	4	412	29	14	25	30	1.95
5363303--5363347	17	2.5	18	82	10	56	68	0	0	31	0.89
5366334--5366405	35	2.1	35	100	0	144	30	11	18	40	1.85
5374368--5374514	43	3.4	43	90	0	240	33	29	19	17	1.95
5381030--5381090	2	30.5	2	100	0	122	50	0	49	0	1.00
5401698--5401752	27	2.0	27	92	0	92	41	14	16	27	1.87
5403020--5403095	35	2.2	35	85	4	100	22	19	10	47	1.80
5413540--5413572	10	3.3	10	100	0	66	51	39	0	9	1.34
5419558--5419605	23	2.1	23	100	0	96	52	12	16	18	1.75
5422216--5422266	23	2.2	23	82	0	57	49	3	0	47	1.20
5425917--5425954	20	2.0	20	84	5	51	68	5	7	18	1.34
5431476--5431567	9	10.2	9	98	0	157	21	10	29	38	1.88
5431728--5431752	12	2.1	12	100	0	50	16	24	36	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5434250--5434383	63	2.1	65	92	2	227	29	4	8	57	1.48
5437021--5437092	30	2.4	30	79	9	83	33	12	8	45	1.72
5444611--5444971	185	2.0	185	89	0	551	28	19	12	39	1.88
5448222--5448307	43	2.0	43	100	0	172	27	25	13	32	1.94
5470446--5470497	19	2.7	20	79	11	72	61	3	11	23	1.46
5470709--5470748	21	2.0	21	85	5	55	22	5	5	67	1.30
5496877--5496941	13	5.0	13	73	0	58	32	1	26	40	1.65
5501726--5501754	12	2.3	13	94	5	51	72	6	0	20	1.07
5505853--5505901	25	2.0	25	95	0	89	32	14	10	42	1.79
5509862--5509908	21	2.2	22	92	3	78	21	19	38	21	1.94
5511191--5511271	25	3.3	23	69	20	58	49	1	4	44	1.32
5527226--5527266	3	13.7	3	94	0	73	34	31	2	31	1.71
5528426--5528459	17	2.0	17	88	11	52	67	2	0	29	1.05
5528449--5528543	26	3.5	27	90	7	140	40	10	0	49	1.37
5528587--5528671	27	3.2	26	80	11	84	31	23	23	21	1.98
5528746--5528815	19	3.7	19	82	3	97	37	10	0	52	1.35
5528751--5528821	37	1.9	37	100	0	142	39	11	0	49	1.39
5529188--5529256	27	2.5	28	95	2	122	46	1	13	39	1.52
5540026--5540071	23	2.0	23	100	0	92	13	21	17	47	1.81
5544339--5544383	24	2.0	24	86	8	67	75	4	8	11	1.17
5557834--5557862	10	2.9	10	100	0	58	37	10	0	51	1.36
5558493--5558523	12	2.6	12	100	0	62	64	0	6	29	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5560837--5560861	13	1.9	13	100	0	50	32	0	0	68	0.90
5576502--5576657	46	3.5	46	94	2	264	34	15	22	27	1.94
5577211--5577283	36	2.0	36	97	0	137	17	19	34	28	1.95
5577329--5577391	33	1.9	33	81	12	76	42	3	1	52	1.27
5577560--5577613	16	3.4	16	84	5	65	33	25	1	38	1.67
5577566--5577614	16	3.0	17	85	5	66	30	28	4	36	1.76
5579584--5579610	4	6.8	4	100	0	54	74	0	0	25	0.83
5579896--5579941	14	3.6	13	77	22	53	63	0	0	36	0.95
5579896--5579957	24	2.7	23	87	2	88	59	0	1	38	1.07
5582002--5582051	19	2.5	21	78	12	61	62	0	4	34	1.14
5582904--5582952	18	2.7	18	74	20	57	20	6	0	73	1.04
5585408--5585472	33	2.0	33	93	0	112	38	18	6	36	1.76
5585886--5585993	51	2.1	51	98	1	207	26	15	14	42	1.86
5597493--5597743	124	2.0	124	100	0	502	29	19	28	22	1.98
5603956--5603995	13	3.0	14	79	20	50	35	15	0	50	1.44
5604395--5604448	21	2.6	22	77	11	60	64	1	1	31	1.14
5607835--5607870	3	12.0	3	100	0	72	0	33	0	66	0.92
5613668--5613696	6	4.8	6	100	0	58	17	48	17	17	1.82
5621133--5621320	104	1.8	104	86	6	274	23	26	19	30	1.98
5621133--5621363	104	2.2	104	80	6	236	25	25	16	32	1.97
5629911--5629949	3	13.0	3	100	0	78	0	33	0	66	0.92
5632411--5632460	7	7.1	7	93	6	84	58	2	0	40	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5636523--5636696	85	2.0	85	92	2	287	37	15	20	27	1.92
5639241--5639428	67	3.0	61	83	12	238	35	7	17	39	1.79
5639330--5639367	20	1.9	20	88	0	58	18	5	28	47	1.70
5639387--5639593	110	1.9	110	100	0	414	30	11	20	37	1.87
5648140--5648197	30	1.9	30	89	0	89	41	3	24	31	1.71
5648409--5648440	13	2.5	13	94	0	55	31	0	12	56	1.37
5648535--5648776	50	4.7	50	86	4	297	26	24	29	19	1.99
5648535--5648784	100	2.4	103	88	6	364	26	24	29	20	1.99
5659603--5659642	19	2.1	19	85	4	53	57	10	7	25	1.57
5664183--5664224	11	3.5	13	84	15	56	38	4	0	57	1.20

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   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240