genome.fa.s2.2.7.7.80.10.50.1000.145.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  145  of  322  ( 38559 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)
47552489--47552841	49	7.4	49	95	1	587	29	29	7	32	1.86
47555432--47555627	40	4.9	40	86	3	261	26	25	22	26	2.00
47555685--47555759	38	2.0	38	86	5	107	24	26	18	30	1.98
47557892--47558393	47	10.6	47	94	2	835	29	29	8	32	1.87
47557892--47558393	96	5.3	96	93	4	842	29	29	8	32	1.87
47569990--47570044	23	2.3	23	81	6	65	47	0	7	45	1.30
47570317--47570467	75	2.0	75	96	0	275	36	11	18	33	1.87
47573922--47573984	3	21.0	3	75	18	51	68	1	3	26	1.14
47573922--47573984	18	3.5	18	83	12	76	68	1	3	26	1.14
47573938--47573991	21	2.7	20	83	11	74	72	1	0	25	0.95
47576673--47576795	45	2.8	44	82	8	135	26	26	16	31	1.96
47601496--47601534	22	1.9	21	85	15	55	58	0	7	33	1.26
47601990--47602052	21	3.0	20	77	20	67	73	1	3	22	1.07
47603007--47603040	11	3.1	11	91	0	50	8	20	58	11	1.59
47605613--47605661	21	2.3	21	80	13	55	53	0	8	38	1.31
47605897--47605945	21	2.5	21	84	15	61	36	12	0	51	1.40
47607244--47607272	3	9.7	3	100	0	58	34	0	0	65	0.93
47607365--47607436	39	1.9	38	83	8	94	40	1	5	52	1.33
47607396--47607464	29	2.4	27	80	17	77	37	2	2	56	1.29
47614471--47614523	18	2.9	18	85	0	61	39	16	7	35	1.78
47614665--47614699	6	5.8	6	86	0	52	45	17	17	20	1.85
47616265--47616379	58	2.0	58	92	0	194	40	15	5	39	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47621009--47621041	6	5.5	6	100	0	66	48	15	18	18	1.81
47631978--47632038	21	3.0	21	87	2	88	24	24	39	11	1.88
47633268--47633384	49	2.4	49	84	5	130	23	28	19	29	1.98
47638641--47638684	21	2.1	21	86	0	61	25	22	38	13	1.91
47653290--47653317	6	4.7	6	100	0	56	32	0	0	67	0.91
47663978--47664111	41	3.3	40	73	10	121	22	17	26	33	1.96
47671469--47671844	44	8.5	44	73	3	245	26	18	20	33	1.96
47671279--47671750	44	10.6	44	70	9	215	28	20	19	31	1.97
47672177--47672208	14	2.3	14	94	0	55	40	9	12	37	1.75
47673941--47674040	49	2.0	49	96	0	182	51	3	10	36	1.51
47674034--47674076	9	4.8	9	94	0	68	23	9	27	39	1.85
47674237--47674261	12	2.1	12	100	0	50	16	24	36	24	1.94
47677919--47677980	24	2.6	24	100	0	124	16	20	19	43	1.88
47682063--47682129	26	2.6	27	72	11	68	56	0	10	32	1.33
47682203--47682312	27	4.2	26	80	13	102	62	2	4	30	1.29
47682232--47682312	23	3.3	23	81	14	99	66	2	3	27	1.21
47695852--47695912	10	5.9	10	74	11	52	34	11	19	34	1.88
47695852--47695912	21	2.9	20	78	4	68	34	11	19	34	1.88
47695852--47695904	11	5.0	11	75	6	56	33	13	20	32	1.91
47695960--47696030	25	2.9	24	78	14	65	28	25	22	23	2.00
47696056--47696143	38	2.4	36	90	5	133	15	11	40	31	1.83
47702217--47702258	18	2.3	19	83	4	50	26	7	16	50	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47704053--47704123	24	2.9	25	89	4	108	36	23	12	26	1.91
47704159--47704222	10	6.3	10	77	12	60	34	10	20	34	1.88
47704163--47704238	21	3.7	20	80	5	80	34	13	18	34	1.89
47706285--47706341	17	3.3	17	69	11	53	49	12	10	28	1.73
47706397--47706454	30	1.9	30	85	0	80	37	8	25	27	1.85
47711411--47711450	20	2.0	20	95	4	73	25	0	20	55	1.44
47723141--47723218	39	2.0	39	92	0	129	21	37	11	29	1.89
47731485--47731588	41	2.5	42	77	13	106	28	27	16	26	1.97
47731898--47731941	15	2.8	16	86	10	56	45	18	0	36	1.49
47738147--47738655	254	2.0	255	95	0	912	28	16	23	31	1.96
47740182--47740417	118	2.0	118	98	0	454	31	10	20	38	1.86
47741757--47742059	40	7.6	40	94	0	518	22	22	27	27	1.99
47749933--47750548	40	15.4	40	97	0	1114	23	22	27	26	1.99
47758770--47758803	18	1.9	17	94	5	59	26	8	0	64	1.22
47760237--47760300	27	2.4	26	82	7	74	21	21	18	37	1.94
47762339--47762398	31	1.9	31	96	0	111	23	16	21	38	1.93
47762521--47762554	13	2.6	13	90	0	50	47	0	20	32	1.51
47764743--47764849	42	2.5	42	74	5	101	27	15	25	31	1.96
47767637--47767671	17	2.1	17	89	5	54	48	5	14	31	1.67
47768321--47768482	41	4.0	41	91	1	236	19	18	29	33	1.95
47775307--47775435	41	3.1	41	90	0	222	30	17	27	24	1.97
47781474--47782449	72	13.6	72	99	0	1943	42	24	5	26	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47782450--47782499	3	16.7	3	100	0	100	68	0	0	32	0.90
47784701--47784733	16	2.1	16	94	0	57	39	6	9	45	1.61
47785482--47785516	18	1.9	18	94	0	61	22	45	8	22	1.79
47792166--47792206	21	2.0	21	90	0	64	46	12	2	39	1.54
47792193--47792233	19	2.2	19	91	8	66	41	7	4	46	1.53
47796470--47796520	6	8.3	6	91	4	75	78	3	1	15	0.99
47798614--47798654	19	2.2	19	86	0	55	53	0	46	0	1.00
47808450--47808490	21	2.0	21	95	0	73	43	9	2	43	1.50
47809667--47809708	22	1.9	22	90	0	66	14	9	21	54	1.68
47811327--47811377	24	2.2	25	83	13	65	50	7	1	39	1.42
47813583--47813618	18	2.0	18	94	0	63	22	13	30	33	1.93
47814178--47814233	21	2.7	21	97	0	103	28	19	23	28	1.98
47822823--47823414	86	6.8	87	87	3	764	19	23	22	34	1.96
47822823--47823503	44	15.7	43	70	11	392	19	23	21	34	1.96
47831606--47831647	19	2.2	20	82	4	50	50	7	14	28	1.69
47835343--47835380	17	2.2	17	90	0	58	60	2	2	34	1.24
47840658--47840698	21	1.9	22	85	5	57	31	24	4	39	1.76
47842648--47842693	10	4.7	10	76	15	51	17	2	2	78	0.96
47843443--47843533	43	2.1	43	81	0	101	19	37	19	23	1.94
47844828--47844919	45	2.0	45	93	4	159	39	13	29	18	1.88
47848763--47848796	17	2.0	17	94	0	59	26	11	14	47	1.79
47849122--47849496	33	11.0	33	82	6	435	27	34	16	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47849879--47850248	183	2.0	183	97	0	704	31	14	26	26	1.95
47850376--47850464	45	2.0	45	95	0	160	25	30	15	28	1.96
47869005--47869088	42	2.0	42	100	0	168	30	16	16	35	1.92
47869447--47869485	19	2.1	19	90	0	60	30	30	0	38	1.58
47871552--47871688	62	2.3	57	83	7	157	47	0	3	48	1.24
47871856--47871910	16	3.4	16	87	0	83	29	29	7	34	1.84
47873279--47873321	21	2.0	21	86	4	59	58	4	0	37	1.19
47874363--47874421	31	1.9	31	83	13	77	42	3	8	45	1.51
47875311--47876386	484	2.2	484	99	0	2116	33	13	22	30	1.93
47876541--47876597	23	2.5	22	83	13	71	45	5	12	36	1.64
47876795--47876835	22	1.9	21	85	14	57	75	2	12	9	1.13
47877747--47877807	21	2.9	21	80	2	77	14	18	24	42	1.88
47881779--47882034	21	12.2	21	73	8	74	18	20	15	44	1.86
47881792--47882031	42	5.7	42	83	3	277	18	20	15	45	1.85
47886154--47886381	46	5.0	46	87	1	296	40	15	24	20	1.90
47886164--47886376	92	2.3	92	90	0	327	40	15	23	19	1.90
47886662--47886694	17	2.0	17	94	5	59	48	0	15	36	1.45
47909156--47909202	18	2.6	18	83	6	51	65	4	2	27	1.22
47918795--47918840	24	1.9	24	100	0	92	34	21	13	30	1.91
47920205--47920472	89	3.0	89	99	0	527	29	19	12	38	1.88
47926223--47926283	9	6.8	9	96	0	104	22	9	29	37	1.87
47926444--47926468	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)
47929301--47929461	61	2.6	61	76	5	164	39	18	4	38	1.70
47940231--47940265	18	2.0	18	88	5	54	22	17	34	25	1.96
47942893--47942969	27	2.9	27	92	0	127	40	16	16	25	1.90
47952004--47952172	46	3.6	46	77	10	130	26	17	29	26	1.98
47961794--47961850	28	2.0	28	89	0	87	22	12	19	45	1.83
47965543--47965573	16	1.9	16	93	0	53	54	0	3	41	1.16
47971327--47971372	24	1.9	24	100	0	92	34	21	13	30	1.91
47976239--47976268	16	1.9	16	93	6	53	70	0	10	20	1.16
47985304--47985334	15	2.1	15	100	0	62	25	41	6	25	1.79
47985609--47985663	26	2.2	24	78	15	58	45	5	0	49	1.25

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   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322