genome.fa.s2.2.7.7.80.10.50.1000.278.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  278  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)
92324463--92324501	17	2.3	17	86	0	51	58	7	0	33	1.26
92325894--92325953	30	2.0	30	93	3	104	25	5	10	60	1.49
92326312--92326348	18	2.1	18	100	0	74	56	10	0	32	1.34
92335411--92335444	16	2.1	16	88	0	50	11	26	32	29	1.92
92335427--92335560	38	3.5	38	84	2	153	12	20	29	37	1.89
92339414--92339479	27	2.4	27	90	5	98	36	9	13	40	1.76
92339440--92339492	27	2.0	27	84	0	70	37	9	16	35	1.82
92340312--92340364	28	1.9	28	81	11	65	49	11	9	30	1.70
92346091--92346159	26	2.7	26	86	4	95	17	24	21	36	1.95
92346100--92346240	25	5.6	25	71	5	99	19	22	22	34	1.96
92357635--92357679	22	2.0	22	95	0	81	46	24	0	28	1.53
92359178--92359215	20	2.0	20	89	5	60	42	2	13	42	1.57
92361330--92361364	16	2.3	16	90	9	56	74	2	5	17	1.14
92364724--92364754	15	2.1	15	93	0	53	16	45	3	35	1.63
92372641--92372697	25	2.3	26	78	9	64	52	0	15	31	1.43
92377363--92377434	36	2.0	36	91	0	117	25	0	47	27	1.52
92381008--92381075	29	2.4	28	80	4	91	52	1	4	41	1.30
92382236--92382357	63	1.9	63	100	0	244	48	3	13	35	1.58
92384518--92385091	289	2.0	289	97	0	1085	32	11	18	37	1.86
92387070--92387212	39	3.7	39	90	0	225	29	16	23	30	1.97
92387042--92387211	78	2.2	77	87	3	234	28	15	23	31	1.96
92389151--92389195	22	2.0	23	91	4	74	37	28	15	17	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92389873--92389945	21	3.5	22	76	14	73	57	15	2	24	1.51
92389888--92389985	42	2.3	42	87	0	133	52	13	8	26	1.68
92389888--92389985	21	4.7	21	82	2	108	52	13	8	26	1.68
92395711--92395773	31	2.0	31	100	0	126	49	15	9	25	1.75
92396976--92397176	89	2.2	88	85	4	251	42	17	9	30	1.81
92397239--92397290	27	2.0	26	88	3	77	57	0	0	42	0.98
92397281--92397348	9	7.6	9	79	11	77	72	0	2	25	0.99
92397254--92397348	9	10.6	8	73	13	55	68	0	2	29	1.01
92397254--92397340	18	4.9	17	76	14	70	67	0	2	29	1.03
92397283--92397339	17	3.3	17	79	13	62	71	0	3	24	1.01
92397312--92397347	17	2.2	16	95	5	63	75	0	0	25	0.81
92397621--92397650	8	3.6	8	95	4	51	43	0	0	56	0.99
92397632--92397679	19	2.5	19	83	16	64	45	2	0	52	1.12
92397718--92397889	87	2.0	87	86	2	238	31	10	22	34	1.88
92398535--92398561	3	9.0	3	100	0	54	66	0	33	0	0.92
92407158--92407196	18	2.2	18	100	0	78	64	12	5	17	1.46
92409741--92409930	72	2.7	72	87	2	258	27	21	24	26	1.99
92410936--92411056	25	4.8	25	78	8	111	34	21	23	19	1.96
92410988--92411081	25	3.8	24	80	6	91	29	22	27	20	1.98
92410988--92411083	50	1.9	49	85	6	131	30	21	27	20	1.98
92410921--92411091	75	2.3	74	80	5	184	33	22	23	19	1.97
92411025--92411201	24	7.1	25	72	10	105	32	20	28	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92411134--92411192	26	2.3	26	85	2	84	37	23	23	15	1.93
92418971--92419056	13	6.4	13	71	14	50	67	1	3	27	1.14
92419021--92419063	19	2.3	19	84	8	52	79	0	6	13	0.93
92421548--92421676	46	2.8	46	89	2	179	21	21	14	41	1.89
92441773--92441841	30	2.3	30	85	5	86	46	5	20	27	1.73
92441783--92441841	29	2.0	29	86	3	82	47	3	22	27	1.67
92443965--92444238	46	6.0	46	96	0	478	38	14	23	22	1.92
92447482--92447605	65	1.9	65	80	3	142	25	20	29	25	1.99
92449151--92449248	42	2.3	42	82	5	126	30	23	19	26	1.98
92452443--92453751	44	28.8	44	70	11	361	33	16	18	31	1.93
92452610--92452782	95	1.8	96	91	1	285	34	16	17	31	1.92
92452577--92452829	140	1.8	138	82	4	328	33	17	18	31	1.94
92452705--92453757	88	11.5	89	70	9	476	34	17	18	30	1.93
92452483--92452918	228	1.9	226	81	4	527	33	16	18	32	1.93
92452705--92453051	177	2.0	177	83	2	437	34	16	17	31	1.92
92452446--92453334	133	6.6	134	73	7	521	33	16	18	31	1.93
92453015--92453190	96	1.8	95	82	3	228	33	17	18	30	1.94
92453015--92453210	96	2.0	96	79	3	207	34	16	18	29	1.94
92453392--92453524	51	2.6	51	78	0	149	36	18	15	30	1.92
92453532--92453717	95	2.0	95	84	2	248	32	16	19	31	1.95
92453440--92453746	139	2.2	139	84	2	400	33	16	18	31	1.93
92453492--92453806	44	7.0	44	77	6	236	32	16	20	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92455190--92455250	3	19.7	3	80	15	63	29	1	3	65	1.18
92458557--92458822	137	1.9	137	83	1	336	33	13	16	37	1.87
92468311--92468357	13	3.7	13	77	5	51	55	0	2	42	1.12
92469032--92469070	16	2.5	15	87	4	51	51	2	0	46	1.14
92470643--92470708	33	2.0	33	96	0	123	34	9	19	36	1.84
92471173--92471203	12	2.6	12	100	0	62	0	29	0	70	0.87
92472734--92472764	13	2.5	13	94	5	55	29	0	0	70	0.87
92474905--92475343	62	7.1	62	84	3	546	21	26	27	25	1.99
92477237--92477275	11	3.5	11	82	6	51	43	5	2	48	1.38
92478264--92478316	27	2.0	27	96	0	97	35	24	11	28	1.90
92481751--92481832	25	3.3	25	87	0	119	30	19	19	30	1.96
92481755--92481860	50	2.1	50	84	6	135	31	21	18	28	1.97
92487016--92487173	54	2.9	54	79	5	151	20	24	15	39	1.91
92487017--92487148	27	4.9	27	77	0	102	18	25	16	39	1.91
92496743--92497157	207	2.0	208	93	0	706	36	21	17	24	1.94
92497262--92497348	6	14.3	6	83	11	115	49	16	16	18	1.80
92497473--92497574	27	3.8	26	84	5	123	37	20	22	19	1.95
92497733--92497797	22	3.0	22	80	8	78	33	23	23	20	1.97
92498223--92498791	80	7.1	81	86	2	675	24	20	18	36	1.94
92498228--92498783	187	3.0	187	90	1	821	24	20	18	36	1.95
92498224--92498783	27	21.0	27	84	2	664	24	20	18	36	1.95
92498264--92498854	53	11.1	53	83	5	234	25	18	18	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92498669--92499007	81	4.2	82	80	6	273	28	11	19	40	1.86
92498774--92499020	54	4.6	54	88	1	334	31	8	19	39	1.82
92498774--92499009	27	8.7	27	83	0	301	30	8	19	41	1.81
92502244--92502298	28	2.0	28	85	0	74	27	23	10	38	1.88
92502281--92502358	28	2.9	27	79	5	86	33	23	14	29	1.93
92502307--92502363	28	2.0	28	89	0	87	31	22	14	31	1.93
92504152--92504176	10	2.5	10	100	0	50	12	32	0	56	1.36
92506447--92506479	17	1.9	17	88	11	50	9	24	0	66	1.20
92507381--92507405	11	2.3	11	100	0	50	60	16	0	24	1.36
92508872--92508990	62	1.9	62	85	0	166	21	22	28	26	1.99
92509399--92509458	17	3.2	19	79	13	70	35	8	20	36	1.82
92522775--92522890	40	2.9	40	97	1	216	24	22	27	25	2.00
92526322--92526375	8	6.9	8	76	16	51	85	0	9	5	0.75
92526319--92526376	12	4.9	11	78	19	55	86	0	8	5	0.71
92527280--92527594	44	7.1	45	70	10	211	32	18	23	26	1.97
92527280--92527599	132	2.4	132	88	1	451	31	18	23	26	1.97
92528228--92528284	17	3.5	15	84	15	53	38	10	15	35	1.82
92528228--92528317	36	2.3	38	88	9	130	36	10	15	37	1.81
92528228--92528308	19	4.3	19	90	9	130	38	9	16	35	1.81
92539600--92539764	28	5.9	29	84	5	171	26	22	15	35	1.94
92539600--92539764	56	2.9	56	84	3	190	26	22	15	35	1.94
92539645--92539773	28	4.6	28	89	3	179	27	21	11	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92544038--92544116	25	3.3	25	61	10	65	32	5	29	32	1.79
92544022--92544309	47	6.1	47	94	1	486	31	9	30	28	1.88
92544022--92544309	96	3.0	94	93	2	486	31	9	30	28	1.88
92544022--92544309	143	2.0	141	93	1	495	31	9	30	28	1.88
92545996--92546100	43	2.5	43	80	10	117	24	17	25	32	1.97
92563958--92564136	27	6.6	27	92	2	205	29	28	13	27	1.95
92563958--92564136	55	3.3	54	93	1	286	29	28	13	27	1.95
92563958--92564136	82	2.2	82	92	0	295	29	28	13	27	1.95
92566881--92566913	17	1.9	17	100	0	66	42	18	15	24	1.88
92571337--92571470	46	2.9	46	85	4	189	27	25	14	32	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