genome.fa.s2.2.7.7.80.10.50.1000.144.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  144  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)
47182638--47182752	18	5.8	22	86	10	96	35	9	17	37	1.82
47183021--47183054	18	1.9	17	88	5	50	29	0	0	70	0.87
47192897--47193020	27	4.6	27	86	6	151	27	13	28	30	1.94
47192897--47193020	55	2.3	54	87	4	169	27	13	28	30	1.94
47193301--47193385	43	2.0	43	88	0	125	35	7	27	30	1.83
47201133--47201283	27	5.5	27	93	3	239	31	28	13	26	1.94
47201133--47201283	55	2.7	55	94	0	257	31	28	13	26	1.94
47217892--47217929	18	2.1	18	100	0	76	42	31	0	26	1.56
47220844--47221073	118	2.0	117	88	0	343	45	15	13	26	1.83
47222496--47222556	27	2.3	27	82	0	68	34	21	11	32	1.89
47222514--47222663	81	1.9	81	91	0	246	30	19	8	41	1.81
47222512--47222663	27	5.6	27	91	0	214	30	19	8	41	1.81
47222642--47222916	27	10.2	27	77	5	225	40	21	8	29	1.82
47222494--47222691	81	2.4	81	83	0	243	33	20	8	37	1.83
47222642--47222918	81	3.4	80	81	5	299	40	21	8	29	1.83
47224747--47224838	40	2.3	40	90	3	141	23	20	29	26	1.99
47226330--47226413	27	3.1	27	86	3	116	29	21	27	21	1.98
47226343--47226422	27	3.0	27	80	10	76	31	18	26	23	1.98
47227190--47227334	26	5.7	26	90	0	222	24	22	25	28	1.99
47227479--47227570	42	2.2	42	86	0	121	29	14	19	36	1.91
47227594--47227703	31	3.5	31	88	4	168	29	17	24	29	1.97
47233756--47233852	40	2.4	40	93	3	160	25	29	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47238503--47238765	40	6.6	39	86	4	278	25	27	21	25	1.99
47238503--47238765	120	2.2	119	82	4	307	25	27	21	25	1.99
47238697--47238774	40	1.9	41	82	10	97	26	28	20	24	1.99
47242695--47242777	41	2.0	41	85	0	112	24	18	27	30	1.98
47246448--47246670	40	5.6	40	83	7	206	26	26	21	26	1.99
47254764--47254799	18	2.0	18	94	0	63	27	25	0	47	1.52
47256782--47256812	16	1.9	16	93	0	53	41	9	0	48	1.36
47257809--47257957	17	8.5	18	66	21	68	50	3	3	42	1.35
47258980--47259087	26	4.2	26	97	0	189	30	5	25	37	1.79
47260708--47260812	27	3.9	27	86	9	135	19	24	21	34	1.96
47262283--47262357	36	2.1	36	100	0	150	42	18	14	24	1.88
47262677--47262707	16	1.9	16	93	0	53	70	9	9	9	1.33
47264386--47264566	40	4.6	40	94	2	294	23	28	22	25	1.99
47271695--47271766	16	4.4	16	71	10	65	50	5	1	43	1.34
47271804--47271910	37	2.9	35	74	16	92	50	1	1	45	1.23
47272089--47272128	15	2.7	15	92	0	62	7	25	32	35	1.84
47273535--47273568	16	2.1	16	94	0	59	70	2	5	20	1.21
47274463--47274493	16	1.9	16	93	0	53	48	3	0	48	1.17
47277059--47277364	103	3.0	103	84	4	393	29	20	20	28	1.98
47291124--47291148	12	2.1	12	100	0	50	32	12	8	48	1.69
47291158--47291232	23	3.3	23	88	0	114	36	0	14	49	1.44
47293951--47294004	22	2.3	24	78	9	58	51	5	5	37	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47299095--47299153	22	2.8	21	82	7	75	50	0	0	49	1.00
47305140--47305195	8	6.5	8	78	17	51	30	1	1	66	1.12
47305140--47305195	19	3.2	17	81	16	62	30	1	1	66	1.12
47305148--47305222	19	4.2	17	73	19	55	28	4	4	64	1.30
47305140--47305222	27	3.1	26	77	16	80	28	3	3	63	1.28
47305128--47305196	18	3.8	17	78	14	68	28	2	1	66	1.14
47305456--47305524	32	2.2	32	97	0	129	26	11	17	44	1.82
47311108--47311139	10	3.2	10	95	0	55	53	15	12	18	1.73
47317461--47317497	13	2.8	13	87	0	56	8	40	29	21	1.82
47321022--47321176	26	6.0	26	96	0	283	32	7	24	35	1.84
47327801--47327908	26	4.2	26	93	0	189	32	7	24	36	1.83
47338361--47338571	48	4.4	48	79	7	191	35	27	19	17	1.95
47342965--47343020	26	2.2	26	96	0	103	30	7	25	37	1.82
47351511--47351600	45	2.0	45	95	0	162	51	13	6	28	1.66
47354094--47354192	51	2.0	50	85	2	135	32	25	17	25	1.97
47354151--47354319	43	4.0	43	79	1	151	31	28	16	23	1.96
47355453--47355503	16	3.2	16	72	8	50	50	3	0	45	1.20
47364207--47364578	130	2.9	130	84	0	440	29	18	18	34	1.94
47376042--47376442	44	9.1	44	85	1	500	30	15	28	24	1.96
47379094--47379461	130	2.8	130	79	2	364	29	16	17	35	1.93
47380652--47385817	47	109.4	47	98	0	9551	23	27	12	35	1.92
47380803--47380880	25	3.2	25	66	23	76	29	33	10	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47388709--47388742	16	2.0	18	88	11	54	58	5	29	5	1.45
47395805--47395860	24	2.3	24	79	14	62	48	16	0	35	1.46
47396472--47396507	15	2.3	16	95	4	65	0	22	0	77	0.76
47396472--47396507	16	2.3	15	90	4	54	0	22	0	77	0.76
47401446--47401492	24	2.0	24	84	16	62	51	14	0	34	1.43
47402296--47402334	20	2.0	20	95	5	71	41	5	2	51	1.38
47403603--47403706	22	4.6	23	80	4	122	21	17	20	41	1.90
47403635--47403715	22	3.6	22	77	1	81	20	19	23	35	1.96
47406355--47406411	29	2.0	29	93	3	98	31	22	22	22	1.98
47408756--47409157	209	1.9	209	96	0	741	36	19	16	27	1.94
47411452--47411590	70	2.0	70	97	0	260	37	17	13	31	1.89
47411641--47412051	203	2.0	204	99	0	806	30	23	15	30	1.95
47414785--47414902	39	3.0	39	79	9	134	31	25	21	22	1.98
47415908--47416080	49	3.6	48	82	7	194	24	28	19	27	1.99
47415910--47416222	49	6.6	47	69	15	191	24	29	19	27	1.98
47415866--47416225	142	2.5	143	76	11	344	24	28	19	26	1.99
47416868--47416918	20	2.7	18	82	14	59	37	21	0	41	1.54
47423691--47423917	45	5.1	45	82	6	225	33	25	16	25	1.96
47428367--47428568	84	2.4	82	82	6	237	39	8	18	33	1.81
47428637--47428817	82	2.2	83	88	3	258	39	7	19	32	1.81
47428721--47428938	121	1.8	121	83	4	296	43	7	17	31	1.77
47430587--47430634	17	2.8	17	81	6	53	66	2	0	31	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47430597--47430656	17	3.7	15	76	17	50	66	1	0	31	1.01
47432723--47434004	641	2.0	641	99	0	2546	30	13	21	34	1.91
47437420--47437567	48	3.1	48	88	0	224	38	7	24	29	1.83
47440665--47440820	43	3.6	43	90	0	231	32	31	23	12	1.91
47445074--47445177	50	2.1	50	96	1	192	28	10	23	37	1.88
47448900--47448970	34	2.1	34	81	5	81	53	14	18	14	1.73
47450528--47450582	22	2.4	24	87	6	78	38	5	9	47	1.58
47450739--47450859	42	2.9	43	82	4	131	20	16	33	29	1.95
47452306--47452352	20	2.3	20	88	0	67	29	36	25	8	1.86
47454274--47454320	20	2.3	20	88	0	67	29	36	25	8	1.86
47455851--47455979	55	2.3	57	82	6	156	49	6	16	27	1.71
47460566--47460784	46	4.7	45	79	8	185	23	29	18	28	1.98
47468241--47468449	46	4.6	44	77	12	174	23	28	19	28	1.98
47468235--47468457	94	2.4	91	79	10	240	23	29	19	27	1.98
47469501--47469605	53	2.0	52	98	1	201	38	15	9	37	1.80
47503563--47503778	46	4.7	44	74	17	165	25	20	29	24	1.99
47507054--47507098	10	4.5	10	86	5	56	26	6	0	66	1.16
47507829--47507862	18	1.9	18	88	5	52	26	14	5	52	1.64
47509949--47509983	16	2.2	16	89	0	52	45	14	25	14	1.82
47510220--47510285	29	2.3	29	89	0	96	27	19	25	27	1.99
47519036--47519214	85	2.1	85	98	0	349	26	26	8	38	1.85
47525540--47525722	79	2.3	81	83	7	223	24	27	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47525519--47525722	40	5.1	40	81	8	229	24	27	22	25	2.00
47526851--47526970	56	2.1	56	98	0	231	22	23	9	45	1.81
47527547--47527632	43	2.0	43	97	0	163	19	16	12	51	1.76
47534862--47534927	34	1.9	34	96	0	123	22	7	16	53	1.68
47535436--47535493	21	2.8	20	84	10	71	25	3	3	67	1.22
47545025--47545136	43	2.6	43	84	5	129	33	16	18	31	1.93
47547365--47547542	27	6.6	27	83	3	196	26	15	28	29	1.96
47547366--47547521	82	1.9	81	86	3	224	26	16	28	28	1.97
47547362--47547542	82	2.2	81	82	2	220	27	16	27	29	1.97
47552489--47552843	47	7.4	47	95	1	575	29	29	7	32	1.86

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