genome.fa.s2.2.7.7.80.10.50.1000.125.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  125  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)
40884346--40884425	40	2.0	40	97	0	151	42	17	11	28	1.84
40884764--40885470	49	14.6	49	97	1	1286	29	29	8	32	1.86
40888275--40888383	57	1.9	58	86	1	157	29	28	18	23	1.98
40888595--40889306	40	17.8	40	98	0	1352	24	29	22	22	1.99
40894664--40895175	40	12.8	40	94	2	823	27	26	20	25	1.99
40896605--40897016	49	8.5	49	95	1	692	29	29	8	33	1.86
40903536--40903586	26	2.0	26	88	0	75	43	15	15	25	1.86
40906625--40906664	21	1.9	21	89	0	62	42	17	27	12	1.85
40908955--40909026	35	2.1	35	91	0	117	36	12	25	26	1.91
40914134--40914205	35	2.1	35	91	0	117	36	12	25	26	1.91
40915556--40915617	30	2.1	29	84	3	79	46	20	9	22	1.80
40918297--40918355	31	2.0	31	83	6	77	25	22	11	40	1.88
40922417--40922467	23	2.2	23	82	6	59	41	13	9	35	1.78
40938114--40938177	32	2.0	32	100	0	128	40	12	9	37	1.75
40943245--40943295	24	2.1	24	100	0	102	37	11	25	25	1.90
40965368--40965405	19	2.0	20	85	15	53	39	23	0	36	1.55
40965635--40965805	93	1.8	93	91	0	279	29	28	19	22	1.98
40965630--40965802	46	3.7	46	76	10	190	30	27	19	22	1.98
40972983--40973020	19	2.0	20	85	15	53	39	23	0	36	1.55
40973250--40973420	93	1.8	93	89	0	270	29	28	19	22	1.98
40973245--40973417	46	3.7	46	76	10	181	30	27	19	23	1.98
40976273--40976346	30	2.4	29	82	8	85	62	9	12	16	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40977542--40977584	15	2.9	14	83	10	59	72	0	0	27	0.85
40978866--40978895	15	2.0	15	100	0	60	53	0	20	26	1.46
40980566--40980600	12	3.1	12	88	12	56	34	0	0	65	0.93
40983214--40983272	31	1.9	31	85	0	82	44	10	6	38	1.65
40983592--40983643	24	2.2	24	85	0	68	53	5	3	36	1.43
40986358--40986401	20	2.0	23	87	12	67	43	2	13	40	1.57
40988905--40988929	13	1.9	13	100	0	50	48	16	0	36	1.46
41004829--41004948	56	2.1	56	96	0	222	44	10	23	22	1.83
41006077--41006250	79	2.2	80	82	8	212	24	23	27	25	2.00
41006078--41006353	40	6.6	39	76	16	234	25	22	26	26	2.00
41006200--41006303	52	2.0	52	90	3	165	25	22	25	26	2.00
41006164--41006342	92	2.0	91	95	1	322	25	21	25	27	2.00
41009408--41009441	16	2.2	15	89	5	50	55	0	0	44	0.99
41019269--41019467	68	3.0	64	81	8	168	24	28	16	30	1.96
41021007--41021100	40	2.4	39	82	5	100	27	14	28	28	1.96
41027232--41027288	25	2.3	25	93	0	96	24	17	21	36	1.94
41031448--41031672	40	5.7	40	85	5	269	25	28	21	24	1.99
41031450--41031672	119	1.9	120	84	6	301	25	27	21	24	1.99
41034077--41034156	41	2.0	41	97	0	151	38	6	23	31	1.80
41040681--41040720	14	3.1	13	86	10	55	20	7	10	62	1.50
41041988--41042053	19	3.5	17	73	18	60	56	1	3	39	1.24
41041990--41042058	10	7.1	10	75	15	56	57	1	2	37	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41043329--41043361	15	2.2	15	94	0	57	33	15	0	51	1.43
41043494--41043544	26	1.9	26	88	4	75	64	1	0	33	1.05
41043494--41043557	28	2.4	26	84	5	74	64	1	0	34	1.03
41045548--41045632	42	2.0	41	95	2	152	35	21	24	17	1.94
41049098--41049138	21	2.0	21	81	18	50	21	26	19	31	1.97
41052977--41053056	35	2.3	36	72	14	85	22	18	16	42	1.89
41053174--41053252	40	2.0	40	94	0	140	24	16	3	55	1.57
41063998--41064037	19	2.2	19	86	4	55	70	5	2	22	1.19
41068516--41068558	14	3.1	14	93	0	77	39	0	37	23	1.55
41068587--41068626	19	2.1	19	90	9	64	30	12	32	25	1.92
41068643--41068672	14	2.1	14	93	0	51	13	3	40	43	1.60
41068700--41068735	13	2.6	14	86	8	56	27	0	38	33	1.57
41069684--41069733	21	2.3	23	89	6	77	38	38	4	20	1.71
41069726--41069844	7	16.7	7	70	10	62	47	26	2	24	1.65
41069993--41070265	41	6.7	41	84	4	291	20	21	22	35	1.96
41078315--41078369	29	2.0	27	89	7	83	34	0	0	65	0.93
41078441--41078489	20	2.4	21	82	3	64	34	2	0	63	1.06
41078445--41078523	29	2.5	30	78	21	83	31	1	0	67	0.99
41078481--41078539	26	2.3	26	82	5	66	28	1	1	67	1.10
41081698--41081796	17	6.4	17	71	21	51	59	0	5	35	1.19
41081715--41081787	11	6.4	11	71	13	58	60	0	4	35	1.16
41086799--41086836	20	1.9	20	88	0	58	21	26	28	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41088132--41088236	42	2.7	38	75	11	106	48	8	12	30	1.71
41091395--41091436	22	1.9	22	90	9	68	21	2	0	76	0.90
41101534--41101595	1	62.0	1	73	0	52	87	0	12	0	0.55
41101534--41101595	7	8.6	7	78	18	65	87	0	12	0	0.55
41101537--41101595	16	3.9	15	82	6	75	86	0	13	0	0.57
41101534--41101595	23	2.8	22	85	4	88	87	0	12	0	0.55
41101537--41101589	9	5.7	9	80	14	63	86	0	13	0	0.56
41102657--41103090	87	5.0	87	66	19	237	33	19	19	27	1.96
41102655--41103177	175	3.0	175	89	2	786	32	18	20	27	1.96
41103592--41103670	19	4.2	19	87	9	117	37	11	16	34	1.85
41104192--41104226	18	2.0	17	88	5	52	31	0	0	68	0.90
41105188--41105237	23	2.1	24	82	10	59	26	6	6	62	1.42
41116977--41117059	43	1.9	44	92	2	141	32	16	25	25	1.96
41117197--41117422	44	5.2	44	75	13	214	30	13	26	30	1.94
41117145--41117401	131	2.0	131	94	0	451	28	15	26	30	1.96
41119254--41119303	23	2.1	24	82	10	59	26	6	6	62	1.42
41124446--41124513	21	3.2	21	79	4	84	42	7	23	26	1.80
41127694--41127732	21	1.9	20	85	15	53	23	5	0	71	1.05
41127733--41127787	22	2.3	23	87	9	76	38	5	0	56	1.23
41127798--41127968	12	15.1	12	70	22	79	32	2	1	63	1.14
41127831--41127905	19	3.7	19	70	16	62	32	4	1	62	1.22
41127838--41127916	14	5.6	14	80	17	83	32	5	1	60	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41127799--41127950	33	4.2	35	74	16	107	32	2	0	64	1.12
41127805--41127947	76	1.9	76	84	8	193	32	2	0	64	1.13
41128780--41128820	21	2.0	21	90	0	64	7	17	26	48	1.73
41139760--41140341	44	13.4	44	85	8	750	29	16	26	28	1.97
41139874--41140012	41	3.3	41	71	15	140	30	19	24	25	1.98
41140324--41140358	17	2.1	17	88	0	52	17	14	25	42	1.86
41140280--41140402	61	2.0	61	85	0	165	26	13	26	33	1.94
41140236--41140446	105	2.0	105	91	0	341	27	14	27	30	1.95
41140192--41140489	149	2.0	149	91	1	481	27	15	27	29	1.96
41140341--41140513	44	4.0	43	88	3	202	28	13	27	30	1.94
41140148--41140513	193	1.9	193	90	1	590	28	14	27	29	1.95
41154235--41154307	36	2.0	36	94	0	128	26	13	21	38	1.91
41164776--41164891	59	2.0	59	91	0	187	22	17	12	48	1.80
41165676--41166040	133	2.8	133	94	0	642	27	17	24	29	1.97
41165589--41166169	88	6.6	88	74	16	447	27	17	24	30	1.97
41165492--41166261	353	2.2	353	93	0	1292	28	17	24	29	1.97
41165492--41167274	573	3.1	572	88	5	2390	27	16	25	31	1.96
41166162--41166789	88	7.1	88	99	0	1211	25	15	26	32	1.95
41165589--41167396	661	2.7	661	92	3	2839	27	15	25	31	1.96
41166823--41167396	88	6.5	88	97	0	1058	26	15	25	32	1.95
41167333--41167547	78	2.8	75	85	6	268	33	16	24	26	1.96
41169224--41169258	16	2.1	17	94	5	63	25	11	0	62	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41169388--41169426	20	2.0	20	84	0	51	41	2	0	56	1.13
41171593--41171682	19	4.7	19	86	9	112	38	15	8	36	1.79
41171626--41171682	17	3.5	15	88	11	53	35	15	10	38	1.82
41172126--41172619	175	2.8	175	89	0	738	27	19	18	34	1.95
41172184--41172459	86	3.2	86	69	19	255	26	18	19	35	1.95
41173679--41173732	7	7.7	7	84	12	67	0	12	0	87	0.56
41173679--41173734	16	3.3	16	85	9	76	0	12	0	87	0.54
41173692--41173734	19	2.3	19	95	0	77	0	11	0	88	0.52
41173685--41173734	9	5.7	9	90	4	75	0	12	0	88	0.53
41179354--41179413	17	3.2	19	86	13	88	35	16	10	38	1.82

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