genome.fa.s7.2.7.7.80.10.50.1000.159.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: At_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   

This is table  159  of  290  ( 34714 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)
54286527--54286593	9	7.8	8	78	17	55	4	11	0	83	0.78
54286529--54286593	22	3.0	21	84	6	85	4	12	0	83	0.80
54292234--54292280	22	2.2	21	84	3	58	36	21	8	34	1.84
54292251--54292348	19	5.2	19	91	7	155	35	15	10	38	1.81
54292251--54292348	36	2.6	37	88	9	144	35	15	10	38	1.81
54293182--54293212	16	2.0	16	93	6	55	12	6	9	70	1.31
54293734--54293773	11	3.7	11	83	3	55	0	22	0	77	0.77
54293743--54293781	20	2.0	20	84	0	51	2	20	0	76	0.90
54293765--54293824	25	2.3	26	80	5	68	13	10	8	68	1.39
54297109--54297145	18	2.1	18	89	0	56	21	16	0	62	1.33
54301112--54301154	2	21.5	2	100	0	86	0	48	0	51	1.00
54305516--54305547	14	2.3	14	100	0	64	28	21	25	25	1.99
54306127--54306154	5	5.6	5	100	0	56	17	0	0	82	0.68
54315857--54315928	35	2.1	35	97	0	135	34	12	19	33	1.89
54321881--54321931	21	2.4	21	80	0	66	21	0	29	49	1.50
54322124--54322174	21	2.5	20	70	17	52	35	27	9	27	1.88
54323006--54323495	127	3.9	127	98	0	944	37	16	17	28	1.92
54323599--54323649	13	3.9	14	77	12	54	64	0	3	31	1.11
54323965--54323995	14	2.2	14	94	0	53	67	0	0	32	0.91
54323967--54324003	19	2.0	18	94	5	65	67	0	0	32	0.91
54324319--54324361	11	3.7	11	84	6	50	44	32	0	23	1.54
54324423--54324495	18	4.0	18	70	16	69	17	1	56	24	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54324432--54324511	37	2.1	37	88	2	124	20	1	51	27	1.55
54324477--54324540	29	2.2	29	77	5	76	17	1	48	32	1.56
54326886--54327079	39	5.0	39	87	1	257	18	20	28	32	1.96
54330337--54330461	49	2.6	49	81	2	144	30	28	16	24	1.97
54344402--54344444	18	2.4	18	92	0	68	88	0	6	4	0.63
54348791--54348824	16	2.1	16	94	0	59	47	26	5	20	1.73
54349280--54349314	16	2.2	16	90	10	54	48	28	5	17	1.69
54348373--54349323	488	1.9	488	98	0	1823	29	18	23	28	1.98
54349673--54349707	16	2.2	16	89	0	52	48	17	22	11	1.79
54349936--54350050	29	4.0	29	82	6	128	28	14	29	26	1.95
54349949--54350059	57	1.9	58	85	1	152	27	15	30	26	1.96
54374173--54374434	39	6.7	40	87	7	337	25	22	27	24	2.00
54388474--54388558	6	13.8	6	67	18	50	48	14	17	20	1.81
54388488--54388558	25	2.8	25	84	0	97	47	14	18	19	1.82
54388654--54388818	27	6.1	27	89	0	240	27	20	17	33	1.95
54388832--54389068	27	8.7	27	85	0	312	40	8	22	28	1.82
54388835--54389068	81	2.9	81	90	0	360	41	8	21	29	1.82
54389080--54389229	27	5.6	27	81	6	169	28	8	22	40	1.83
54389076--54389229	81	1.9	82	82	4	195	29	8	22	39	1.83
54389365--54390713	672	2.0	672	99	0	2689	32	25	12	29	1.92
54393152--54393280	43	3.0	42	75	7	134	30	24	14	30	1.95
54406360--54406621	39	6.7	40	88	7	337	24	27	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54407699--54407725	14	1.9	14	100	0	54	0	7	3	88	0.61
54413632--54413656	10	2.5	10	100	0	50	64	0	28	8	1.22
54417351--54417380	14	2.1	15	93	6	53	20	10	13	56	1.65
54441903--54441932	14	2.1	15	93	6	53	20	10	13	56	1.65
54451240--54451297	30	1.9	30	86	6	82	22	25	29	22	1.99
54471384--54471414	15	2.1	15	93	0	53	48	6	22	22	1.73
54479260--54479476	48	4.5	48	77	5	181	29	18	26	25	1.98
54487335--54487424	29	3.1	29	88	1	128	30	28	12	28	1.93
54488642--54488754	59	1.9	58	82	8	140	25	30	15	28	1.96
54488825--54488871	19	2.5	19	86	3	60	17	36	14	31	1.90
54488972--54489018	24	2.0	24	91	0	76	10	14	19	55	1.68
54492141--54492402	39	6.7	40	87	7	337	25	22	27	24	2.00
54499342--54499450	29	3.8	30	76	8	111	24	32	15	27	1.96
54499526--54499582	17	3.4	17	90	0	96	29	43	19	7	1.77
54499578--54499614	19	1.9	19	88	0	56	18	35	13	32	1.90
54521532--54521872	50	6.7	51	78	8	322	29	24	19	26	1.98
54521591--54521862	101	2.7	101	90	1	429	28	24	19	27	1.98
54522816--54522865	24	2.1	24	100	0	100	38	24	4	34	1.74
54523976--54524080	53	2.0	53	98	0	201	40	7	14	37	1.74
54524210--54524588	39	9.6	39	92	3	561	25	22	27	23	2.00
54528664--54528731	27	2.6	26	79	4	73	44	20	16	19	1.87
54528689--54528778	28	3.3	27	83	10	112	38	24	20	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54539889--54540010	25	4.9	24	73	19	92	33	7	0	59	1.26
54539940--54540102	87	1.8	89	80	6	197	34	7	1	57	1.35
54539978--54540102	47	2.5	50	79	13	127	33	6	1	58	1.33
54540067--54540141	14	4.9	16	67	20	54	30	9	1	58	1.38
54559376--54559637	39	6.7	40	88	7	337	24	27	22	25	2.00
54563103--54563658	206	2.7	205	87	1	781	31	17	22	28	1.97
54575459--54575676	46	4.7	46	98	0	409	29	27	21	21	1.98
54577117--54577183	26	2.7	25	73	19	68	34	7	0	58	1.26
54577173--54577311	46	3.2	40	70	24	97	35	7	0	56	1.32
54577234--54577259	8	3.2	8	100	0	52	34	0	0	65	0.93
54577276--54577350	14	4.9	16	67	20	54	30	9	1	58	1.38
54582637--54583467	419	2.0	420	86	1	1157	22	31	16	30	1.95
54587862--54587992	49	2.7	48	83	4	154	22	29	19	29	1.98
54588050--54588173	46	2.7	46	80	15	150	21	26	19	32	1.97
54600293--54600582	73	4.0	72	85	5	370	27	20	22	30	1.98
54600293--54600582	24	12.0	24	85	5	379	27	20	22	30	1.98
54600314--54600583	97	2.8	96	87	5	400	27	19	22	30	1.98
54600632--54600683	16	3.3	15	84	10	61	32	19	9	38	1.84
54600649--54600687	20	2.0	20	94	0	69	30	20	10	38	1.86
54600731--54600778	25	1.9	25	86	0	69	25	16	25	33	1.96
54608364--54608533	24	7.0	24	89	3	243	25	20	23	30	1.99
54608384--54608532	73	2.0	73	94	0	262	26	19	22	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54608364--54608532	49	3.5	48	87	4	250	26	20	23	30	1.99
54608582--54608614	16	2.1	16	100	0	66	33	18	12	36	1.88
54614179--54614335	43	3.7	42	81	3	161	24	16	24	33	1.96
54614179--54614281	44	2.4	43	87	4	145	23	17	25	33	1.96
54618042--54618098	28	2.0	29	82	3	71	29	3	21	45	1.68
54620975--54621296	109	3.0	109	98	0	608	48	6	12	31	1.67
54622882--54622969	6	14.3	6	68	17	56	48	13	18	19	1.80
54622903--54622969	25	2.7	25	88	0	98	47	13	19	19	1.82
54623066--54623126	27	2.2	28	82	5	72	36	16	22	24	1.94
54623227--54623290	22	2.9	22	81	9	85	32	21	25	20	1.97
54625407--54625504	28	3.5	28	94	1	162	26	13	28	31	1.94
54625407--54625517	28	4.0	27	89	3	125	28	12	26	32	1.93
54627200--54627304	27	3.9	27	87	0	147	26	21	17	34	1.95
54627187--54627295	54	2.0	54	82	7	132	30	22	17	30	1.96
54630855--54630909	28	2.0	28	85	0	74	25	21	25	27	2.00
54631068--54631151	27	3.2	26	86	5	114	36	19	22	21	1.95
54631284--54631346	27	2.4	25	82	10	72	25	28	14	31	1.95
54636070--54636127	30	2.0	30	86	3	82	44	12	8	34	1.72
54646774--54646849	38	2.0	38	97	0	143	30	13	25	31	1.93
54648038--54648182	40	3.6	40	84	4	184	25	24	25	24	2.00
54661437--54661690	46	5.5	46	80	5	232	28	18	28	24	1.98
54665154--54665324	43	4.0	42	77	6	155	26	16	23	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54666151--54666217	34	2.0	34	96	0	125	25	23	11	38	1.89
54666467--54666497	10	3.1	10	90	0	53	54	6	0	38	1.26
54669014--54669915	54	16.7	54	99	0	1741	33	7	17	42	1.76
54673799--54673890	29	3.2	29	90	1	141	30	28	13	28	1.94
54689503--54689678	46	3.8	46	76	12	189	21	19	28	30	1.97
54689500--54689670	93	1.8	93	92	0	288	21	19	29	29	1.98
54692042--54692119	38	2.1	38	95	0	138	26	24	23	25	2.00
54694880--54695055	46	3.8	46	74	14	173	23	19	27	29	1.98
54694877--54695047	93	1.8	93	91	2	281	22	20	27	29	1.99
54698370--54698400	12	2.6	12	94	0	53	38	41	12	6	1.69

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290