genome.fa.s2.2.7.7.80.10.50.1000.137.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  137  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)
44782316--44782372	29	1.9	30	85	3	80	56	7	1	35	1.37
44783825--44783886	27	2.2	28	80	16	74	32	1	11	54	1.45
44784171--44784276	34	3.1	34	86	5	160	42	0	15	41	1.53
44784391--44784889	127	4.0	127	88	1	655	39	17	15	27	1.90
44786611--44786652	21	2.0	21	85	0	57	69	2	14	14	1.30
44788976--44789921	47	20.1	47	98	0	1811	34	12	27	25	1.92
44789892--44790027	50	2.8	48	86	8	211	36	7	26	30	1.84
44789040--44790048	47	21.3	50	95	3	246	33	12	27	26	1.92
44790175--44790281	37	2.9	37	95	0	187	23	18	31	26	1.97
44794492--44794891	200	2.0	200	96	0	728	31	16	26	25	1.96
44795571--44795618	24	2.0	24	84	15	64	27	2	6	64	1.28
44800175--44800230	12	4.4	13	78	17	64	83	1	8	5	0.85
44800177--44800248	11	5.9	12	70	18	51	81	1	9	6	0.92
44800176--44800258	25	3.6	22	76	17	71	81	2	8	7	0.94
44800176--44800251	23	3.2	25	83	10	88	82	1	9	6	0.88
44800187--44800251	23	2.8	23	90	6	96	83	0	10	6	0.82
44800187--44800251	22	2.9	22	86	8	87	83	0	10	6	0.82
44801359--44801558	66	3.0	66	83	3	269	32	17	12	38	1.87
44802490--44802742	131	1.9	130	88	4	375	32	16	23	26	1.96
44804604--44804651	24	2.0	24	84	15	64	27	2	6	64	1.28
44808062--44808087	12	2.2	12	100	0	52	84	0	0	15	0.62
44814812--44814934	28	4.4	28	88	2	167	33	27	13	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44820146--44820186	20	2.0	21	86	9	59	56	2	0	41	1.13
44820670--44820744	38	2.0	38	84	5	98	38	20	22	18	1.93
44820786--44821126	149	2.3	148	80	7	363	39	13	17	29	1.88
44820837--44821396	108	5.1	107	76	8	422	38	14	20	27	1.91
44820786--44821396	35	16.8	36	74	11	358	38	13	19	27	1.90
44820786--44821385	73	8.2	72	73	12	293	39	13	20	27	1.90
44822856--44822887	16	2.0	16	100	0	64	37	18	12	31	1.88
44823853--44824446	323	1.8	323	96	0	1109	38	20	12	28	1.88
44825812--44825879	31	2.2	31	81	5	84	42	7	7	42	1.60
44826887--44827643	266	2.8	266	84	4	945	32	23	17	26	1.97
44827248--44827645	127	3.0	126	77	11	429	31	24	16	27	1.97
44827368--44827665	140	2.1	141	86	3	404	31	24	16	27	1.96
44828997--44829092	32	3.0	31	75	10	95	28	0	3	68	1.04
44828997--44829092	31	3.0	30	74	15	86	28	0	3	68	1.04
44829052--44829085	10	3.5	10	84	8	52	35	0	2	61	1.11
44835119--44835148	14	2.1	14	93	0	51	46	36	0	16	1.47
44839432--44839854	176	2.4	176	86	4	561	28	23	17	30	1.97
44840109--44840417	64	4.8	64	92	0	485	39	14	17	28	1.89
44840102--44840416	127	2.5	127	90	1	486	39	15	17	28	1.90
44843091--44843171	27	3.0	27	87	1	99	20	23	18	37	1.94
44844377--44844419	13	3.4	12	84	12	59	11	4	0	83	0.78
44855079--44855119	18	2.3	19	83	8	50	75	12	4	7	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44856500--44856550	27	1.9	26	84	4	66	27	7	31	33	1.85
44862081--44862151	35	2.0	35	91	5	117	26	23	11	38	1.89
44862705--44862762	29	2.0	29	100	0	116	34	17	24	24	1.96
44867243--44867313	35	2.0	35	89	5	108	26	25	11	36	1.90
44868655--44868683	13	2.1	14	93	6	51	48	13	0	37	1.43
44871300--44871347	6	8.0	6	82	17	64	81	2	2	14	0.88
44871248--44871336	26	3.5	25	76	15	76	69	4	7	17	1.30
44876739--44876785	22	2.1	22	100	0	94	65	0	8	25	1.20
44887175--44887278	48	2.2	48	84	3	129	14	25	17	43	1.86
44887200--44887337	72	1.9	73	86	4	199	14	24	17	43	1.86
44892012--44892070	18	3.3	18	67	21	52	27	11	23	37	1.90
44892005--44892075	35	2.0	35	97	0	133	25	12	25	36	1.91
44895458--44895504	25	1.9	24	86	4	67	55	2	0	42	1.12
44895587--44895630	23	2.0	23	90	4	72	40	0	0	59	0.98
44897989--44898040	23	2.3	23	76	6	61	40	0	3	55	1.18
44898019--44898057	20	2.0	20	85	5	53	48	2	0	48	1.15
44905025--44905195	84	2.0	84	96	2	317	45	12	11	30	1.77
44907893--44907940	23	2.1	23	88	7	71	47	8	6	37	1.59
44908267--44908308	22	2.0	22	85	4	59	40	14	7	38	1.73
44910849--44910889	3	13.7	3	100	0	82	31	0	0	68	0.90
44911183--44911241	27	2.2	27	100	0	118	33	28	3	33	1.74
44911528--44911561	17	1.9	18	94	5	61	55	5	11	26	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44912290--44912339	10	5.0	10	85	9	66	66	2	8	24	1.29
44912290--44912349	20	3.0	19	80	9	66	68	1	8	21	1.25
44915617--44915720	37	2.8	37	82	0	127	20	20	21	38	1.94
44915898--44916034	26	5.2	26	77	2	112	32	17	21	29	1.96
44923358--44923389	3	10.7	3	93	0	55	31	37	0	31	1.58
44927890--44928285	169	2.3	170	88	1	562	36	9	12	41	1.76
44931755--44931793	11	3.7	11	83	13	55	41	7	10	41	1.68
44931755--44931793	20	2.0	20	94	0	69	41	7	10	41	1.68
44934301--44934336	2	18.5	2	88	5	56	52	0	0	47	1.00
44940069--44940145	30	2.6	30	77	4	75	19	23	29	27	1.98
44940163--44940311	30	5.0	30	70	9	97	18	26	30	24	1.98
44940431--44940552	30	4.1	30	70	6	95	18	23	35	22	1.96
44946441--44946507	30	2.1	32	78	13	77	40	0	7	52	1.30
44946442--44946507	31	2.1	31	83	10	82	40	0	7	51	1.30
44949353--44949424	27	2.7	27	83	10	87	72	8	18	1	1.17
44966155--44966234	41	2.0	40	85	7	108	25	33	18	22	1.97
44968062--44968182	60	2.1	59	87	6	174	37	16	9	37	1.81
44971289--44971358	31	2.3	30	82	4	86	41	12	12	32	1.82
44975791--44975958	74	2.3	74	83	4	196	35	12	14	37	1.84
44977399--44977431	17	2.0	17	88	5	50	45	0	15	39	1.46
44979745--44980058	48	6.6	49	84	6	385	28	28	16	27	1.97
44979745--44980058	96	3.3	96	88	3	429	28	28	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44979745--44980061	144	2.2	142	88	1	454	28	28	17	26	1.97
44982710--44982868	81	2.0	81	93	0	273	40	21	11	25	1.87
44984306--44984413	26	4.2	26	89	0	171	33	8	23	35	1.85
44986200--44986486	137	2.1	137	97	0	538	24	19	25	31	1.98
44988777--44988914	40	3.5	40	84	6	174	24	22	28	24	2.00
44994721--44994953	55	4.2	54	88	3	313	24	7	17	50	1.72
44999511--44999552	20	2.1	20	86	0	57	42	11	7	38	1.69
44999651--44999684	17	2.0	17	88	0	50	23	11	0	64	1.26
45001620--45001877	37	7.0	37	96	0	457	24	20	15	38	1.92
45001840--45002836	52	19.2	52	97	1	1844	27	23	15	34	1.94
45006750--45006822	33	2.2	33	90	0	110	46	9	21	21	1.80
45008287--45008348	29	2.2	28	86	11	83	62	4	4	27	1.36
45008284--45008342	26	2.3	26	82	5	75	62	5	5	27	1.37
45009788--45009838	21	2.4	21	81	12	59	19	29	1	49	1.60
45022967--45023002	2	18.0	2	100	0	72	0	50	0	50	1.00
45030961--45030993	17	1.9	18	88	11	52	45	0	12	42	1.41
45032101--45032157	30	1.9	30	85	0	78	42	12	22	22	1.87
45032417--45032478	21	3.0	20	79	9	72	43	17	24	14	1.86
45033933--45033979	20	2.3	20	100	0	94	8	31	40	19	1.81
45039521--45039775	41	6.2	41	83	1	323	34	24	20	20	1.96
45039941--45039992	14	3.7	14	81	0	59	26	0	25	48	1.52
45040025--45040053	14	2.0	15	93	6	51	20	0	37	41	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45040072--45040097	7	3.7	7	100	0	52	0	0	57	42	0.98
45040069--45040104	14	2.6	14	81	0	54	11	0	50	38	1.38
45044603--45044806	40	5.1	40	91	2	290	26	28	22	22	1.99
45056428--45056611	40	4.6	41	81	12	208	25	22	27	25	2.00
45056428--45056611	79	2.3	81	82	11	222	25	22	27	25	2.00
45056480--45056644	79	2.1	79	82	8	194	26	21	27	24	1.99
45061821--45061959	40	3.5	40	96	0	251	25	29	24	20	1.99
45065854--45065908	19	2.9	19	72	17	53	25	1	3	69	1.15
45066139--45066238	43	2.3	43	87	5	148	21	14	33	32	1.92
45068891--45068985	46	2.0	47	85	2	129	30	31	15	22	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   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