genome.fa.s2.2.7.7.80.10.50.1000.160.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  160  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)
52621289--52621331	20	2.2	20	95	0	77	25	9	11	53	1.67
52622657--52622797	70	2.0	70	98	0	273	48	25	7	17	1.74
52623306--52623362	16	3.6	16	95	0	87	29	0	36	33	1.58
52634675--52635180	265	1.9	265	96	0	940	32	22	16	29	1.95
52642355--52642429	21	3.5	22	83	7	91	37	26	21	14	1.92
52642354--52642442	21	4.0	23	81	7	87	35	24	21	17	1.95
52648977--52649493	177	2.9	177	91	1	797	29	19	21	29	1.98
52655313--52655355	15	2.8	15	79	13	52	81	6	0	11	0.87
52656624--52656798	12	15.1	12	71	22	99	32	1	1	64	1.11
52656626--52656790	22	8.0	21	69	20	93	32	1	0	65	1.08
52656625--52656791	7	22.1	7	68	22	74	31	1	0	65	1.07
52656624--52656784	52	3.1	52	79	8	170	32	1	0	65	1.08
52656652--52656804	67	2.4	65	76	18	153	32	1	1	64	1.13
52656625--52656804	29	6.8	25	69	23	79	32	1	1	65	1.10
52657158--52657192	18	1.9	18	88	0	52	17	0	8	74	1.06
52664144--52664203	30	2.0	30	87	6	86	28	26	8	36	1.85
52671326--52671636	45	6.9	45	75	9	312	29	16	27	27	1.97
52671282--52671473	89	2.1	90	91	0	305	30	14	28	26	1.95
52671326--52671636	134	2.3	135	93	0	525	29	16	27	27	1.97
52671937--52671965	8	3.6	8	100	0	58	37	0	0	62	0.96
52675941--52676338	45	8.9	45	72	13	327	29	16	27	27	1.97
52675896--52676175	90	3.1	89	89	2	427	29	15	28	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52676028--52676338	134	2.3	135	93	0	525	29	16	27	27	1.97
52676639--52676667	8	3.6	8	100	0	58	37	0	0	62	0.96
52678000--52678028	15	2.0	15	93	6	51	34	0	13	51	1.42
52678413--52678473	21	2.8	23	85	14	94	13	24	27	34	1.93
52678403--52678483	21	3.8	21	80	3	72	14	22	25	37	1.93
52679639--52679784	45	3.2	45	66	11	118	36	15	21	26	1.93
52679585--52679832	90	2.8	89	87	2	352	34	15	24	26	1.95
52681295--52681332	16	2.4	17	82	13	53	34	0	0	65	0.93
52681286--52681339	25	2.2	25	89	0	81	31	0	0	68	0.90
52681373--52681518	17	8.4	17	65	22	56	32	2	0	65	1.09
52681370--52681515	29	5.3	27	73	15	102	32	2	0	65	1.09
52681376--52681515	7	21.4	7	71	19	72	32	2	0	65	1.10
52681434--52681518	44	1.9	45	85	7	120	34	2	0	63	1.07
52681896--52681930	18	1.9	18	88	0	52	17	0	8	74	1.06
52682825--52682895	28	2.6	27	78	10	72	45	16	8	29	1.77
52701940--52701990	13	3.9	13	78	0	66	31	5	25	37	1.80
52701941--52701990	26	1.9	26	87	0	73	32	4	26	38	1.75
52711798--52711831	16	2.1	17	88	5	52	47	0	0	52	1.00
52722019--52722060	18	2.3	18	92	8	68	76	2	11	9	1.12
52727276--52727589	105	3.0	105	81	1	317	35	12	21	30	1.90
52729910--52729981	21	3.5	19	77	11	63	47	1	0	51	1.09
52730202--52730233	13	2.5	13	89	0	55	43	25	9	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52748317--52748361	3	15.0	3	100	0	90	66	0	0	33	0.92
52755694--52755892	107	1.9	107	80	6	233	31	22	18	28	1.97
52759883--52759921	21	1.9	19	90	10	60	41	2	0	56	1.13
52762587--52762636	23	2.2	23	82	7	57	36	8	2	54	1.42
52766587--52766628	21	2.0	21	90	0	66	14	57	7	21	1.61
52768465--52768520	28	2.0	28	85	0	76	46	0	0	53	1.00
52776002--52776061	23	2.7	23	71	16	56	63	0	0	36	0.95
52776001--52776071	31	2.3	31	78	4	81	60	2	0	36	1.11
52784963--52785006	4	11.0	4	100	0	88	50	25	0	25	1.50
52788087--52788333	124	2.0	125	89	2	381	34	6	16	42	1.75
52791455--52791501	24	2.0	24	83	4	60	51	0	8	40	1.33
52797536--52797578	19	2.2	20	84	8	54	44	2	0	53	1.13
52798752--52798777	11	2.4	11	100	0	52	46	19	0	34	1.50
52798913--52799047	48	2.8	48	84	6	150	31	8	6	53	1.58
52800645--52800687	18	2.4	18	88	0	59	20	25	9	44	1.81
52803594--52803773	75	2.4	75	87	0	270	21	22	28	27	1.99
52804236--52804614	126	3.0	126	88	2	548	25	20	18	35	1.96
52804686--52804817	59	2.2	59	77	7	135	45	18	1	34	1.59
52805155--52805207	19	2.8	19	100	0	106	43	22	0	33	1.54
52805285--52805347	24	2.5	26	75	17	71	55	23	0	20	1.43
52805292--52805345	25	2.2	25	83	12	67	59	18	0	22	1.38
52805285--52805360	24	3.2	24	76	14	68	55	23	1	19	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52807760--52807784	3	8.3	3	100	0	50	0	32	0	68	0.90
52811695--52811726	3	10.7	3	100	0	64	65	0	0	34	0.93
52812103--52812149	23	2.0	23	84	8	60	42	2	4	51	1.33
52812478--52812709	79	2.7	88	86	13	383	31	5	7	56	1.49
52812543--52812728	79	2.4	79	100	0	372	30	6	6	55	1.53
52813380--52813437	26	2.2	27	93	3	100	50	6	29	13	1.68
52828761--52828884	33	3.8	33	96	0	230	17	9	42	29	1.81
52828853--52828970	60	2.0	60	98	0	227	28	14	26	30	1.95
52833804--52833886	41	2.0	41	100	0	166	42	31	7	19	1.78
52837822--52837857	17	2.0	19	89	10	58	44	8	30	16	1.77
52839567--52839592	11	2.4	11	100	0	52	76	0	7	15	0.99
52839672--52839731	19	3.0	21	74	20	56	63	5	8	23	1.42
52840917--52840982	32	2.0	33	94	2	116	33	21	1	43	1.62
52841298--52841322	12	2.1	12	100	0	50	36	32	8	24	1.84
52842319--52842367	24	2.0	24	92	0	80	36	14	28	20	1.92
52844996--52845168	84	2.0	86	87	3	251	33	22	20	23	1.97
52853156--52853214	31	1.9	31	89	0	91	37	10	8	44	1.69
52857828--52857870	18	2.5	16	85	14	59	23	2	4	69	1.18
52859999--52860045	21	2.2	22	92	3	78	21	38	19	21	1.94
52871311--52871436	63	2.0	63	96	0	234	40	11	10	37	1.76
52873371--52873472	51	2.0	51	98	0	195	38	11	28	21	1.89
52875303--52876115	150	5.3	149	75	10	527	31	18	17	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52884126--52884162	18	2.1	18	94	0	65	35	5	13	45	1.66
52889088--52889140	28	1.9	28	84	3	72	54	0	5	39	1.24
52894714--52894758	22	2.0	23	86	4	65	31	0	11	57	1.33
52899096--52899132	14	2.7	15	84	16	53	24	0	5	70	1.08
52899965--52900010	23	2.0	23	84	12	60	45	10	4	39	1.59
52899972--52900016	23	2.0	23	82	8	56	40	13	6	40	1.71
52905790--52905830	21	2.0	21	90	9	66	39	2	24	34	1.69
52907122--52907198	39	2.0	39	89	0	118	25	18	29	25	1.98
52909678--52909715	19	2.0	20	85	15	53	36	0	23	39	1.55
52910364--52910646	18	15.3	18	70	11	124	36	14	12	36	1.85
52910364--52910646	36	7.6	36	68	12	151	36	14	12	36	1.85
52910810--52911002	45	4.3	45	91	1	280	41	20	18	19	1.91
52911411--52911457	5	9.2	5	90	4	67	38	23	0	38	1.55
52918486--52918536	13	4.0	13	76	21	54	23	1	0	74	0.92
52918484--52918521	6	6.5	6	91	8	53	18	0	0	81	0.69
52918484--52918536	24	2.2	24	90	6	81	22	1	0	75	0.90
52920761--52920911	44	3.5	44	80	12	154	32	7	13	47	1.70
52926650--52926697	16	2.8	16	78	9	51	54	4	4	37	1.39
52929697--52929731	18	1.9	18	88	0	52	37	0	2	60	1.12
52932412--52932460	17	2.7	18	78	15	57	26	10	14	48	1.75
52935629--52935683	25	2.1	25	83	6	65	58	7	5	29	1.48
52939305--52939333	15	1.9	15	100	0	58	20	6	10	62	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52942442--52942485	19	2.3	19	84	11	54	47	15	4	31	1.66
52956326--52956369	19	2.3	19	84	11	54	47	15	4	31	1.66
52961283--52961344	32	1.9	33	86	3	90	51	0	1	46	1.10
52965308--52965332	12	2.1	12	100	0	50	8	44	0	48	1.32
52967446--52967501	21	2.8	21	74	15	55	57	5	3	33	1.39
52970985--52971010	7	3.7	7	100	0	52	15	0	0	84	0.62
52972826--52972854	15	1.9	15	100	0	58	55	17	6	20	1.65
52975484--52975512	12	2.4	12	100	0	58	6	27	6	58	1.50
52976865--52976918	26	2.1	26	100	0	108	38	14	3	42	1.64
52993633--52993680	19	2.5	18	77	12	51	54	0	2	43	1.12

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