genome.fa.s9.2.7.7.80.10.50.1000.165.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  165  of  284  ( 34012 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)
55467055--55467356	82	3.7	82	92	0	507	34	19	23	22	1.96
55467430--55467473	21	2.0	22	91	4	72	18	0	38	43	1.50
55467696--55467739	21	2.1	21	91	0	70	29	2	34	34	1.70
55468054--55468102	15	3.5	15	73	21	61	18	53	0	28	1.45
55468051--55468103	26	2.0	26	100	0	106	20	49	0	30	1.50
55470648--55470677	14	2.2	13	94	5	51	50	0	13	36	1.42
55470748--55471299	183	3.0	183	98	0	1059	26	15	15	42	1.87
55472381--55472448	24	2.8	24	89	8	111	27	20	7	44	1.78
55472625--55472680	15	3.8	15	80	20	73	46	0	0	53	1.00
55472785--55473010	9	24.6	9	77	8	152	47	13	0	38	1.49
55472785--55473010	18	12.3	18	75	9	170	47	13	0	38	1.49
55472813--55473034	114	1.9	114	87	3	322	47	13	0	38	1.49
55478663--55478724	21	3.0	21	83	9	90	27	20	50	1	1.58
55480452--55480616	20	8.2	20	68	2	98	37	17	29	15	1.91
55480463--55480576	60	1.9	60	83	0	147	40	16	27	15	1.89
55480521--55480660	40	3.5	40	86	5	187	33	19	30	17	1.94
55486916--55486953	14	2.6	15	91	8	69	39	0	0	60	0.97
55486916--55486965	14	3.6	14	89	5	57	42	0	2	56	1.11
55493824--55493877	21	2.6	21	90	0	90	59	11	20	9	1.59
55495599--55495653	16	3.1	18	87	10	78	43	0	0	56	0.99
55495622--55495660	15	2.6	15	88	11	62	46	0	0	53	1.00
55495833--55495871	21	1.9	20	94	5	69	30	25	10	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55500580--55500834	128	2.0	128	99	0	501	29	21	23	25	1.99
55501531--55501570	15	2.7	15	88	0	53	20	20	0	60	1.37
55501544--55501574	15	2.1	15	100	0	62	19	12	0	67	1.22
55512223--55512279	7	8.1	7	96	0	105	29	14	56	0	1.39
55515033--55515094	33	1.9	32	83	9	81	25	3	3	67	1.20
55516656--55516689	15	2.3	15	89	0	50	23	0	8	67	1.18
55518149--55518411	40	6.6	40	87	3	309	26	28	20	23	1.99
55528070--55528382	40	7.8	40	92	0	518	22	27	19	30	1.98
55531994--55532076	28	3.0	28	76	0	94	24	16	4	54	1.62
55532008--55532087	28	2.9	28	75	3	90	21	13	6	58	1.57
55532637--55532960	85	3.8	86	84	2	375	32	18	18	30	1.95
55534683--55534708	12	2.2	12	100	0	52	92	7	0	0	0.39
55535073--55535103	14	2.2	14	100	0	62	48	6	6	38	1.55
55538722--55538829	26	4.2	26	92	2	164	36	22	7	34	1.82
55540430--55540577	74	2.0	74	98	0	287	33	4	20	41	1.71
55544721--55544816	48	2.0	48	95	0	174	45	3	19	31	1.66
55548188--55548232	20	2.3	20	81	14	58	26	15	28	28	1.96
55558984--55559040	21	2.7	21	80	2	60	28	1	8	61	1.36
55558998--55559058	18	3.3	18	75	11	52	27	4	9	57	1.52
55571849--55572330	88	5.5	88	99	0	955	24	20	20	34	1.96
55572279--55572487	56	3.9	54	83	10	263	30	15	17	36	1.91
55572607--55572641	14	2.5	14	90	0	52	20	22	2	54	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55572523--55572754	89	2.7	86	81	9	263	25	18	18	37	1.94
55572696--55572729	13	2.5	13	90	4	50	20	11	8	58	1.59
55578058--55578251	47	4.1	47	87	0	262	32	10	28	27	1.90
55578087--55578158	22	3.1	22	64	24	58	33	13	29	23	1.93
55578455--55578563	37	2.9	37	95	0	191	22	19	31	26	1.98
55579833--55580344	40	12.8	40	98	0	970	22	22	30	25	1.99
55584356--55584549	47	4.1	47	89	0	280	34	10	28	26	1.90
55584428--55584503	22	3.3	22	65	28	59	30	13	31	25	1.93
55584757--55584861	37	2.8	37	94	0	174	23	17	31	27	1.97
55586758--55586875	60	2.0	59	96	1	218	14	25	6	53	1.65
55587695--55587731	6	6.3	6	90	3	58	35	13	0	51	1.41
55587683--55587727	18	2.5	18	92	7	74	31	11	2	55	1.47
55599812--55600074	132	2.0	132	100	0	526	34	22	22	20	1.97
55600035--55600145	43	2.6	43	83	0	141	38	23	18	19	1.93
55600854--55600898	17	2.8	16	83	10	56	48	46	2	2	1.26
55600854--55600898	8	5.6	8	84	7	56	48	46	2	2	1.26
55602808--55602844	6	6.3	6	90	3	58	35	13	0	51	1.41
55602796--55602840	18	2.5	18	92	7	74	31	11	2	55	1.47
55607310--55607441	65	2.0	65	94	0	228	33	22	17	26	1.96
55614213--55614241	14	2.0	15	93	6	51	41	13	0	44	1.44
55615466--55615512	18	2.5	19	83	16	62	27	27	0	44	1.55
55617177--55617321	68	2.1	67	78	6	150	40	13	21	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55620480--55620543	33	1.9	33	90	0	101	18	20	25	35	1.95
55626882--55626956	23	3.3	23	86	5	116	9	18	26	45	1.80
55631943--55631974	13	2.3	15	89	10	50	28	15	9	46	1.77
55632051--55632115	25	2.6	25	87	0	94	27	21	20	30	1.98
55632046--55632131	25	3.4	25	81	0	91	32	19	17	30	1.95
55633451--55633485	4	9.2	4	87	12	56	74	0	0	25	0.82
55645811--55645895	45	1.9	44	87	2	125	28	12	22	36	1.91
55649702--55649761	21	2.9	21	82	2	77	53	8	25	13	1.67
55652354--55652488	43	3.1	43	82	7	159	32	25	17	24	1.97
55659918--55660055	42	3.2	41	82	7	134	31	25	15	26	1.96
55659918--55660055	44	3.2	42	81	7	127	31	25	15	26	1.96
55664726--55664970	55	4.6	54	75	9	202	36	17	24	21	1.95
55672465--55672586	39	3.1	39	78	4	147	23	27	22	26	1.99
55673234--55673279	21	2.1	22	96	4	85	47	13	0	39	1.42
55674931--55675057	46	2.8	46	90	0	191	21	21	26	30	1.98
55683097--55683227	39	3.4	39	84	7	169	23	29	22	24	1.99
55683859--55683904	21	2.1	22	96	4	85	47	13	0	39	1.42
55684195--55684300	50	2.1	50	80	3	124	42	21	7	28	1.80
55686169--55686423	55	4.8	53	80	9	249	36	18	24	20	1.95
55686176--55686376	108	1.8	110	86	4	291	34	19	24	21	1.96
55690488--55690602	54	2.1	55	80	4	126	28	23	25	22	1.99
55692390--55692627	48	5.2	46	83	8	228	29	25	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55692443--55692748	48	6.2	48	78	7	260	32	26	13	28	1.94
55695806--55695864	30	1.9	30	86	3	82	50	13	5	30	1.63
55699677--55699757	42	1.9	42	89	0	126	16	29	27	27	1.97
55706924--55706979	28	2.0	29	86	10	80	16	21	42	19	1.89
55707180--55707224	23	2.0	23	95	0	81	33	17	24	24	1.96
55714340--55714380	20	2.2	20	86	8	59	19	31	26	21	1.97
55720304--55720335	15	2.1	15	100	0	64	50	0	18	31	1.48
55724284--55724558	47	5.8	48	76	10	246	24	29	18	26	1.98
55738216--55738249	5	6.6	5	93	6	59	82	0	0	17	0.67
55745767--55745821	15	3.8	15	85	2	69	1	21	1	74	1.01
55758286--55758362	29	2.7	29	76	13	81	64	2	3	28	1.24
55758329--55758376	14	3.5	13	78	18	53	66	2	2	29	1.14
55758472--55758515	16	2.8	16	85	0	52	47	9	2	40	1.48
55758477--55758525	16	3.1	16	87	0	62	42	6	4	46	1.47
55758682--55758738	24	2.4	24	81	0	69	61	8	3	26	1.42
55773164--55773261	30	3.3	30	72	9	94	28	15	28	27	1.96
55773657--55773726	27	2.7	26	77	14	65	37	15	12	34	1.86
55773677--55773738	26	2.3	26	78	13	72	32	14	16	37	1.89
55783923--55783975	21	2.4	23	81	9	65	5	18	0	75	0.99
55784326--55784403	39	2.0	39	100	0	156	35	20	25	17	1.95
55792617--55793889	50	25.7	50	96	1	2124	36	5	25	32	1.79
55794043--55794151	37	2.9	37	94	0	182	23	19	30	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55794158--55794223	33	2.0	33	96	0	123	30	19	27	22	1.98
55797662--55797833	29	6.0	29	80	4	172	27	12	31	27	1.92
55797662--55797833	86	2.0	86	80	6	197	27	12	31	27	1.92
55802868--55803064	98	2.0	98	98	0	385	37	17	22	22	1.94
55803364--55803584	46	4.8	46	84	9	297	27	29	22	20	1.99
55803418--55803589	93	1.8	93	96	0	317	27	29	22	20	1.98
55805562--55805598	17	2.2	17	100	0	74	48	5	18	27	1.70
55809106--55809382	49	5.8	48	79	10	266	25	16	27	31	1.97
55809099--55809330	49	4.7	49	82	5	279	24	17	27	30	1.97
55809296--55809374	39	2.0	39	100	0	158	22	15	30	31	1.95

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