genome.fa.s24.2.7.7.80.10.50.1000.13.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  13  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)
4797925--4798000	36	2.1	36	82	4	91	43	35	2	18	1.64
4798117--4798310	93	2.1	93	98	0	370	38	31	13	15	1.88
4798117--4798381	93	2.9	89	83	9	236	38	33	12	15	1.85
4801381--4801510	60	2.2	59	81	5	154	25	12	9	53	1.68
4802088--4802156	32	2.2	32	84	5	86	52	2	11	33	1.53
4806945--4806980	18	1.9	19	88	5	56	58	13	0	27	1.36
4807359--4807390	6	5.3	6	100	0	64	50	34	0	15	1.45
4809485--4809517	15	2.2	15	89	10	50	66	0	0	33	0.92
4816104--4816133	6	5.0	6	100	0	60	66	0	33	0	0.92
4816586--4816628	22	2.0	20	86	13	59	46	0	0	53	1.00
4816617--4816663	22	2.3	20	79	20	53	23	2	6	68	1.24
4817240--4817282	22	2.0	22	90	0	68	32	2	0	65	1.06
4819339--4819370	9	3.6	9	100	0	64	78	0	0	21	0.76
4820742--4820778	18	2.1	18	89	0	56	48	10	0	40	1.38
4845553--4845585	2	16.5	2	93	0	57	3	0	45	51	1.16
4852372--4852427	18	3.2	17	73	12	60	67	0	21	10	1.20
4853936--4853987	27	1.9	27	92	0	86	30	25	32	11	1.91
4854524--4854582	19	3.2	19	80	4	84	38	11	0	49	1.40
4862258--4862283	11	2.4	11	100	0	52	61	0	0	38	0.96
4865644--4865718	37	2.0	37	100	0	150	32	10	24	33	1.89
4870376--4870424	22	2.2	22	82	7	64	77	2	4	16	1.01
4871004--4871094	36	2.4	38	81	17	102	53	0	1	45	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4871003--4871059	27	2.0	28	86	6	80	52	0	0	47	1.00
4871011--4871070	18	3.2	20	73	17	67	53	0	0	46	1.00
4871006--4871068	17	3.6	17	74	19	58	57	0	0	42	0.99
4871000--4871069	27	2.6	28	73	13	67	54	0	0	45	0.99
4874594--4874733	70	2.0	70	100	0	280	44	7	18	30	1.76
4874986--4875043	25	2.3	26	80	16	70	41	1	0	56	1.09
4875702--4875857	76	2.1	76	100	0	312	36	11	10	41	1.75
4880178--4880218	3	13.7	3	100	0	82	65	0	0	34	0.93
4886886--4886933	25	1.9	25	95	0	87	50	0	0	50	1.00
4899174--4899212	16	2.4	17	87	12	55	53	0	2	43	1.14
4903783--4903885	51	2.0	51	88	3	154	25	16	23	34	1.95
4935481--4935602	44	2.8	44	100	0	244	35	9	17	37	1.83
4947380--4947426	24	2.0	24	83	8	60	70	10	8	10	1.35
4949174--4949200	13	2.1	13	100	0	54	0	7	7	85	0.75
4956139--4956170	16	2.0	16	93	0	55	25	15	0	59	1.36
4956398--4956588	51	3.8	51	83	3	260	30	28	16	24	1.97
4956396--4956580	101	1.8	102	91	3	311	31	27	17	23	1.97
4967744--4967770	2	13.5	2	100	0	54	51	48	0	0	1.00
4978778--4978824	16	3.1	15	85	8	60	0	17	0	82	0.66
4978782--4978824	13	3.2	13	80	6	50	0	16	0	83	0.64
5000963--5001003	6	6.8	6	100	0	82	68	0	31	0	0.90
5001504--5001543	2	20.0	2	100	0	80	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5009778--5009830	18	3.2	17	85	15	67	47	0	3	49	1.19
5019432--5019505	20	3.7	20	75	18	66	56	4	0	39	1.18
5019437--5019505	19	3.5	19	73	22	63	57	2	0	39	1.13
5019457--5019513	20	2.9	19	78	5	60	56	3	0	40	1.17
5021266--5021335	29	2.3	30	85	4	88	47	12	15	24	1.81
5021617--5021649	10	3.4	10	87	8	50	66	0	0	33	0.92
5023194--5023224	2	15.5	2	100	0	62	0	48	0	51	1.00
5030208--5030253	23	2.0	24	82	4	58	63	2	0	34	1.07
5030801--5030875	28	2.5	31	82	10	93	50	2	0	46	1.15
5034176--5034267	36	2.6	36	100	0	184	70	0	7	21	1.12
5034186--5034298	36	3.4	30	85	13	127	69	0	7	22	1.13
5034180--5034237	6	9.7	6	77	7	55	75	0	5	18	0.98
5034314--5034359	20	2.2	21	84	3	58	58	2	6	32	1.36
5034367--5034414	18	2.8	17	84	12	62	62	4	6	27	1.38
5034619--5034651	14	2.3	15	89	5	50	15	6	3	75	1.11
5036600--5036638	11	3.6	10	86	13	51	12	0	5	82	0.83
5036600--5036645	22	2.1	22	88	8	67	15	0	4	80	0.86
5038251--5038285	16	2.2	16	90	10	54	40	2	0	57	1.14
5038397--5038452	27	2.0	27	86	3	76	57	1	0	41	1.09
5042043--5042124	2	42.0	2	69	13	55	43	6	2	47	1.41
5043359--5043395	18	2.1	18	100	0	74	27	0	5	67	1.12
5049537--5049606	33	2.1	33	100	0	140	40	20	8	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5074750--5074816	34	1.9	35	84	3	91	43	13	10	32	1.78
5078084--5078115	16	2.1	16	94	5	57	40	0	0	59	0.97
5078071--5078123	27	2.1	26	86	10	74	43	0	0	56	0.99
5080985--5081079	27	3.6	27	80	8	115	21	29	25	24	1.99
5080977--5081232	51	5.1	49	87	2	273	15	32	25	26	1.95
5081081--5081205	24	5.2	24	96	0	214	13	34	25	26	1.93
5080977--5081205	48	4.6	48	89	1	269	16	32	25	25	1.96
5080977--5081210	72	3.1	72	83	6	261	15	32	25	25	1.96
5081026--5081210	24	7.4	27	87	6	193	15	33	25	25	1.95
5080977--5081234	24	10.2	27	83	7	185	15	32	25	26	1.95
5090564--5090656	39	2.4	39	82	7	102	38	18	1	41	1.57
5090573--5090656	26	3.3	26	81	8	91	39	17	1	41	1.58
5090670--5090741	26	2.7	26	74	6	65	31	20	5	41	1.76
5090573--5090714	13	11.0	13	68	4	81	35	19	2	42	1.66
5104313--5104352	14	2.9	14	84	0	53	32	7	17	42	1.77
5104336--5104375	20	2.0	20	90	0	62	27	10	12	50	1.72
5104321--5104387	34	1.9	35	90	3	109	31	8	13	46	1.74
5104315--5104391	14	5.0	15	71	20	52	32	9	15	42	1.78
5104474--5104501	14	2.0	14	100	0	56	42	0	0	57	0.99
5105749--5105817	35	1.9	36	97	2	131	52	18	2	26	1.60
5105785--5105853	27	2.6	27	83	4	86	53	21	2	21	1.59
5107349--5107381	15	2.1	16	94	5	59	60	6	18	15	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5109767--5109818	25	2.1	25	85	7	70	40	11	25	23	1.88
5120627--5120651	3	8.3	3	100	0	50	68	0	32	0	0.90
5121251--5121296	23	2.0	24	82	4	58	63	2	0	34	1.07
5121840--5121890	10	4.9	10	80	7	57	52	0	0	47	1.00
5125050--5125106	6	9.5	6	77	7	53	75	0	5	19	0.99
5125056--5125146	35	2.9	30	83	16	130	69	0	8	21	1.16
5125068--5125124	18	3.2	18	66	14	55	66	0	10	22	1.22
5125046--5125135	35	2.6	36	96	3	166	70	0	7	22	1.13
5125114--5125164	16	3.2	16	70	10	50	66	0	7	25	1.18
5127458--5127496	11	3.6	10	86	13	51	12	0	5	82	0.83
5127458--5127503	22	2.1	22	88	8	67	15	0	4	80	0.86
5129113--5129147	16	2.2	16	90	10	54	40	2	0	57	1.14
5129259--5129314	27	2.0	27	86	3	76	57	1	0	41	1.09
5132936--5132966	12	2.6	12	94	0	53	45	6	0	48	1.28
5134267--5134308	19	2.2	19	100	0	84	26	0	4	69	1.08
5137229--5137271	22	2.0	22	85	0	59	60	6	9	23	1.51
5140725--5140794	33	2.1	33	100	0	140	40	20	8	31	1.82
5143699--5143751	16	3.3	16	86	0	79	39	3	32	24	1.73
5143733--5143825	44	2.1	46	91	4	154	29	4	30	36	1.77
5143733--5143838	39	2.5	44	82	11	132	30	3	31	34	1.75
5143929--5144049	56	2.1	57	79	8	131	48	4	0	46	1.23
5145630--5145770	68	2.1	68	94	2	248	37	17	11	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5155512--5155580	16	4.2	16	92	3	120	24	1	37	36	1.65
5155512--5155580	33	2.1	32	94	2	120	24	1	37	36	1.65
5155561--5155651	45	2.0	45	85	2	121	27	6	28	37	1.82
5155816--5155850	18	2.0	17	88	5	52	54	0	0	45	0.99
5155799--5156540	120	6.2	120	99	0	1450	48	6	1	43	1.38
5158886--5158969	23	3.7	23	88	0	132	44	28	7	20	1.78
5158955--5159000	22	2.1	21	84	4	56	58	19	4	17	1.55
5160870--5160895	5	5.2	5	100	0	52	80	0	19	0	0.71
5164697--5164736	20	2.0	20	95	0	71	30	17	0	52	1.45
5166049--5166082	16	2.1	16	88	0	50	50	14	17	17	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   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