genome.fa.s2.2.7.7.80.10.50.1000.163.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  163  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)
53507917--53507961	17	2.5	18	89	7	65	35	15	11	37	1.83
53508335--53508520	45	4.2	45	85	1	221	26	29	12	31	1.93
53508335--53508504	89	1.9	89	85	2	234	28	29	12	30	1.93
53508534--53508750	78	2.8	78	86	2	292	26	22	18	33	1.97
53508656--53508931	121	2.3	121	98	0	534	25	21	18	34	1.96
53508898--53509091	90	2.2	90	86	3	268	28	22	19	29	1.98
53508813--53509403	220	2.7	220	91	0	923	25	21	20	32	1.97
53518524--53518682	39	4.1	39	95	0	282	23	30	25	20	1.98
53521463--53521493	10	3.2	10	95	4	55	45	19	19	16	1.86
53522896--53522978	18	4.1	21	80	10	68	42	15	7	34	1.75
53522896--53522953	22	2.6	22	81	7	64	41	17	5	36	1.72
53522925--53523015	35	2.6	35	85	13	125	38	14	8	38	1.77
53522932--53523003	19	3.9	19	89	10	123	37	15	9	37	1.80
53524998--53525026	13	2.1	14	93	6	51	44	0	0	55	0.99
53528409--53528626	21	10.3	21	72	3	114	16	19	14	49	1.80
53528408--53528630	42	5.3	42	78	2	187	17	20	14	48	1.81
53528408--53528591	84	2.2	84	81	1	208	16	20	13	49	1.79
53529673--53529783	45	2.5	45	86	0	141	42	15	18	24	1.88
53532447--53532664	21	10.3	21	72	3	114	16	19	14	49	1.80
53532446--53532668	42	5.3	42	78	2	187	17	20	14	48	1.81
53532446--53532629	84	2.2	84	81	1	208	16	20	13	49	1.79
53533711--53533821	45	2.5	45	86	0	141	42	15	18	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53538027--53538092	25	2.6	25	92	0	105	36	21	25	16	1.94
53537945--53538132	25	7.6	25	72	5	103	36	19	25	18	1.95
53539867--53539936	25	2.8	25	79	10	65	27	22	24	25	2.00
53540764--53540805	21	2.0	21	90	9	68	23	9	4	61	1.45
53542954--53543353	56	7.1	56	81	5	452	33	16	18	32	1.93
53546544--53546719	47	3.8	46	78	14	177	59	0	14	25	1.39
53546690--53546802	27	4.4	27	71	22	116	55	0	15	28	1.46
53546551--53546748	95	2.2	91	80	12	210	59	0	14	25	1.39
53546631--53546802	76	2.3	73	91	5	272	56	0	16	26	1.44
53546765--53546868	40	2.5	42	80	15	135	63	0	9	26	1.25
53546825--53546857	15	2.1	16	88	5	50	72	0	0	27	0.85
53546855--53546912	11	5.3	11	80	15	75	53	0	27	18	1.45
53546878--53546920	22	2.0	22	90	0	68	55	0	23	20	1.43
53547098--53547178	30	2.8	30	78	14	89	67	2	7	22	1.27
53547083--53547160	15	5.2	14	75	16	59	66	2	6	24	1.28
53547199--53547233	12	3.0	12	87	8	54	60	0	8	31	1.27
53547358--53547400	11	3.9	11	82	17	54	58	0	13	27	1.37
53547359--53547415	5	10.6	5	81	10	60	57	0	17	24	1.39
53547354--53547417	22	2.9	23	79	13	71	57	0	15	26	1.38
53549735--53549822	31	2.8	31	81	5	97	30	3	3	62	1.28
53558980--53559034	27	2.0	28	86	6	78	60	0	3	36	1.15
53561503--53561536	13	2.5	13	90	9	50	35	2	14	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53561816--53561917	40	2.6	40	83	10	129	26	22	26	24	2.00
53573079--53573341	46	5.7	46	88	0	339	42	13	23	20	1.87
53576884--53576932	10	5.1	9	85	11	62	55	2	10	32	1.45
53578418--53578505	46	1.9	46	88	0	122	27	30	22	19	1.98
53590012--53590038	14	1.9	14	100	0	54	25	0	0	74	0.83
53590237--53590315	39	2.0	39	97	0	149	26	10	8	54	1.63
53590529--53590574	9	5.2	9	81	5	58	26	0	2	71	0.97
53594672--53594714	20	2.2	20	95	0	77	25	13	11	48	1.77
53600441--53600493	18	2.9	18	91	0	88	32	26	15	26	1.95
53608108--53608177	36	1.9	36	88	0	104	28	4	31	35	1.77
53637694--53637724	7	4.3	7	95	4	53	70	0	0	29	0.87
53640462--53640505	18	2.4	19	81	14	56	63	2	4	29	1.26
53640840--53640903	31	2.1	29	85	5	83	35	1	1	60	1.15
53640836--53640903	30	2.2	32	85	15	90	36	1	1	60	1.15
53643890--53644137	43	5.8	43	90	0	363	28	32	18	21	1.96
53646532--53646656	62	2.0	62	100	0	250	42	17	4	35	1.71
53652218--53652365	40	3.7	40	85	1	163	35	26	16	22	1.95
53654857--53655023	77	2.2	77	79	4	176	23	22	19	34	1.96
53655508--53655534	12	2.2	12	100	0	54	44	11	22	22	1.84
53660357--53660509	28	5.4	27	75	10	128	22	16	5	54	1.64
53660796--53660869	34	2.2	34	87	4	105	37	9	9	43	1.70
53660807--53660871	34	1.9	34	93	6	114	36	9	9	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53663432--53663607	46	3.8	46	79	12	216	20	21	29	28	1.98
53663429--53663600	93	1.8	93	96	0	317	20	21	29	27	1.98
53665990--53666040	22	2.3	23	80	6	61	33	0	0	66	0.92
53674946--53674991	17	2.7	18	83	12	53	39	2	4	54	1.32
53676045--53676128	38	2.3	36	87	4	114	20	9	26	44	1.82
53676315--53676362	23	2.0	24	84	4	62	29	22	4	43	1.72
53677518--53677576	27	2.2	27	87	3	84	54	15	3	27	1.57
53677642--53677688	22	2.1	22	92	0	76	53	14	19	12	1.73
53679302--53679331	15	2.0	15	100	0	60	40	40	6	13	1.71
53679604--53679783	89	2.0	89	92	0	297	39	16	14	29	1.88
53679892--53679934	18	2.4	18	84	0	59	60	13	6	18	1.55
53679892--53679946	18	3.1	18	76	10	58	60	12	7	20	1.56
53680392--53680431	21	1.9	21	94	0	71	22	30	20	27	1.98
53681131--53681273	48	3.0	48	85	0	178	13	39	14	32	1.86
53694011--53694094	42	2.0	42	97	0	159	47	17	9	25	1.78
53695191--53695219	12	2.5	12	94	5	51	86	0	13	0	0.58
53698477--53698601	62	2.0	62	93	0	214	42	8	8	40	1.65
53701842--53701887	24	2.0	23	86	4	65	45	2	0	52	1.13
53711641--53711691	9	5.6	9	76	4	57	41	0	0	58	0.98
53711657--53711691	18	1.9	18	100	0	70	40	0	0	60	0.97
53722836--53722868	3	11.0	3	100	0	66	33	33	0	33	1.58
53722884--53723150	3	89.3	3	72	6	139	31	10	1	57	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53722943--53722996	22	2.5	22	75	6	56	31	7	1	59	1.36
53730585--53730745	81	2.0	82	88	1	243	26	15	6	51	1.67
53734263--53734296	17	1.9	17	88	5	50	82	0	17	0	0.67
53735205--53736100	44	20.0	45	67	12	218	31	17	21	28	1.96
53735206--53735997	44	17.8	44	70	9	410	31	18	21	28	1.97
53735336--53735683	130	2.6	134	81	7	429	31	18	20	29	1.96
53735521--53735764	86	2.8	86	82	5	280	32	17	19	30	1.95
53735459--53735897	216	2.0	216	94	0	761	32	17	20	28	1.96
53735607--53735945	130	2.6	132	83	4	438	30	17	22	29	1.97
53735737--53735895	86	1.8	86	85	5	223	30	20	20	27	1.98
53735921--53736044	49	2.5	50	88	4	187	33	13	23	29	1.93
53737579--53737609	3	10.3	3	100	0	62	32	32	0	35	1.58
53737608--53737922	3	105.7	3	73	8	214	31	8	0	60	1.31
53737709--53737762	22	2.5	22	81	6	65	31	5	1	61	1.30
53738916--53738989	20	3.7	20	78	8	71	32	1	6	59	1.32
53738926--53738986	19	3.2	18	84	11	77	36	1	6	55	1.36
53744192--53744236	22	2.0	23	91	8	76	6	33	24	35	1.82
53744003--53744418	204	2.0	212	85	8	571	26	20	20	32	1.97
53745463--53745519	27	2.1	27	90	6	89	24	17	42	15	1.88
53746412--53746479	9	7.6	9	80	6	84	42	22	8	26	1.82
53746412--53746479	18	3.8	18	86	7	93	42	22	8	26	1.82
53746567--53746599	17	1.9	17	93	0	57	9	3	45	42	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53754555--53754788	121	2.0	118	86	5	328	56	8	5	29	1.51
53756547--53756655	37	3.2	36	77	12	122	35	27	8	28	1.86
53770572--53770609	3	13.3	3	83	10	53	0	36	0	63	0.95
53772089--53772135	23	2.0	23	100	0	94	51	25	17	6	1.69
53774865--53774962	49	2.0	49	89	0	151	26	19	6	47	1.72
53775299--53775425	45	2.8	45	84	8	161	25	19	19	35	1.95
53775493--53775526	15	2.3	15	90	10	52	52	11	0	35	1.38
53776410--53776524	56	2.1	56	93	0	194	46	13	3	36	1.61
53778454--53778844	197	2.0	197	94	0	692	23	19	14	42	1.88
53790759--53790896	70	1.9	74	81	12	171	28	28	0	42	1.56

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