genome.fa.s2.2.7.7.80.10.50.1000.171.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  171  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)
55840236--55840264	14	2.1	14	93	6	51	44	6	6	41	1.58
55840283--55840335	14	3.7	14	79	20	65	22	22	11	43	1.85
55843868--55845458	44	36.2	44	83	6	1809	30	16	25	28	1.96
55846031--55846128	19	5.2	19	90	7	155	37	11	16	34	1.84
55846021--55846128	36	2.9	35	76	20	103	37	11	15	35	1.83
55850730--55850816	33	2.6	33	87	0	111	17	45	13	22	1.83
55854243--55854314	27	2.7	27	84	0	81	19	27	27	25	1.99
55861608--55861677	28	2.5	28	88	9	99	31	27	14	27	1.95
55866662--55866747	34	2.5	34	81	7	93	30	15	12	41	1.84
55867321--55867350	12	2.5	12	100	0	60	26	16	13	43	1.85
55867454--55867496	21	2.0	21	86	9	59	32	2	6	58	1.38
55867454--55867502	21	2.3	20	83	13	55	30	2	6	61	1.32
55877134--55877174	21	1.9	22	90	5	66	68	12	7	12	1.39
55877733--55877799	19	3.6	17	74	16	62	61	2	0	35	1.12
55882256--55882295	21	2.0	20	85	5	53	65	0	5	30	1.14
55882845--55882880	18	2.1	17	89	5	54	47	8	0	44	1.33
55890568--55890655	44	2.0	44	97	0	167	27	19	4	48	1.68
55892655--55892720	33	2.0	33	100	0	132	21	15	21	42	1.89
55897346--55897379	6	5.7	6	92	0	59	29	17	35	17	1.93
55898820--55898871	25	2.1	25	86	10	72	26	1	1	69	1.10
55904445--55904586	40	3.5	40	84	4	178	24	25	23	26	2.00
55907171--55908550	125	11.2	125	85	5	1564	29	16	15	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55908193--55908414	110	2.0	111	84	2	295	26	17	12	43	1.85
55908069--55908529	235	2.0	236	85	4	637	27	16	13	42	1.85
55908654--55908749	34	2.9	34	86	7	135	43	14	0	41	1.45
55909418--55909540	8	14.4	9	71	15	59	67	0	3	28	1.12
55909810--55909879	32	2.2	32	94	2	122	38	17	12	31	1.87
55931639--55931717	36	2.2	35	84	4	104	44	32	11	11	1.76
55934400--55934435	17	2.1	17	89	0	54	13	30	33	22	1.93
55938293--55938375	41	2.0	41	92	0	139	22	42	19	15	1.89
55940700--55940784	43	2.0	43	90	0	134	23	14	28	34	1.93
55940933--55940959	13	2.1	13	100	0	54	14	37	33	14	1.88
55948739--55948870	40	3.3	39	80	5	149	23	21	27	28	1.99
55951320--55951913	295	2.0	295	100	0	1188	35	17	15	31	1.91
55954201--55954232	16	2.0	16	93	0	55	34	18	0	46	1.49
55954443--55954671	50	4.6	50	79	5	246	30	24	17	27	1.97
55954493--55954674	101	1.8	101	86	2	267	29	25	18	26	1.98
55963333--55963377	18	2.5	19	89	10	67	11	22	46	20	1.81
55963710--55963786	40	1.9	40	81	5	93	14	15	33	36	1.88
55967521--55967551	11	2.8	11	100	0	62	35	0	9	54	1.33
55968206--55968249	22	2.0	22	100	0	88	50	9	9	31	1.65
55968842--55968975	50	2.7	50	82	4	166	26	26	18	28	1.98
55968847--55969071	48	4.6	48	74	7	172	24	27	20	28	1.99
55968842--55969024	98	1.9	98	85	4	255	24	26	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55968842--55969071	96	2.4	96	81	7	234	24	26	20	29	1.99
55968897--55969114	96	2.3	96	80	4	226	26	27	18	27	1.98
55968897--55969134	48	5.0	48	77	5	187	27	27	18	26	1.98
55968848--55969130	144	2.0	144	82	8	351	26	27	18	27	1.98
55972708--55972744	19	1.9	19	100	0	74	48	8	10	32	1.67
55975850--55975931	43	1.9	43	89	0	128	34	24	14	26	1.94
55976316--55976417	53	2.0	49	88	7	150	40	11	7	40	1.71
55976938--55976981	20	2.1	21	91	4	72	63	9	11	15	1.51
55983025--55983065	18	2.3	18	91	0	64	12	19	0	68	1.21
55984891--55984976	42	2.1	41	82	6	102	37	25	11	25	1.90
55985114--55985240	63	2.0	63	96	0	236	51	17	6	25	1.69
55985544--55985570	11	2.5	11	100	0	54	66	11	0	22	1.22
55986132--55986231	10	10.3	10	70	14	75	37	1	1	61	1.10
55986131--55986212	19	4.4	18	78	9	76	35	1	1	62	1.11
55986132--55986213	9	8.7	9	76	12	76	34	1	1	63	1.10
55986142--55986243	28	3.6	28	77	13	93	35	0	0	62	1.08
55990456--55990530	22	3.3	23	78	14	84	20	10	5	64	1.45
55990456--55990530	23	3.3	24	78	17	88	20	10	5	64	1.45
55990391--55990530	45	3.1	46	79	4	160	17	12	9	60	1.57
55995365--55995484	25	4.8	25	93	0	195	28	20	23	27	1.99
55995688--55995830	27	5.4	27	85	2	184	23	20	19	36	1.95
55995700--55995961	81	3.2	80	78	8	203	28	14	19	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55995840--55996582	81	9.2	81	71	9	410	33	9	20	36	1.85
55995811--55996582	27	28.7	27	81	2	309	33	9	21	36	1.85
55996091--55996676	242	2.4	242	95	0	1028	34	9	21	34	1.85
55996537--55996676	27	5.2	27	80	3	84	36	5	22	35	1.78
55996575--55997162	27	21.8	27	80	2	320	38	7	20	32	1.81
55996010--55997162	54	21.4	54	75	3	357	36	8	21	33	1.84
55996575--55997162	81	7.3	81	76	2	446	38	7	20	32	1.81
56000002--56000071	27	2.6	27	95	2	113	31	28	12	27	1.93
56000002--56000099	28	3.5	28	90	2	135	31	28	13	26	1.94
56002947--56002998	25	2.1	25	85	3	70	30	21	17	30	1.96
56002960--56003048	25	3.6	25	86	4	126	25	21	24	28	1.99
56003268--56003448	27	6.7	27	84	6	233	25	20	18	35	1.95
56003268--56003448	80	2.2	81	91	0	283	25	20	18	35	1.95
56003279--56003471	80	2.4	80	86	4	246	28	19	16	35	1.93
56003279--56003498	81	2.7	81	82	8	209	29	18	16	35	1.93
56003426--56003571	27	5.4	27	78	6	107	30	11	19	38	1.87
56003348--56003581	54	4.3	54	77	5	145	29	14	18	38	1.90
56003547--56003775	54	4.2	54	85	2	190	40	8	20	30	1.82
56003546--56003780	81	2.9	81	85	2	249	39	8	21	30	1.83
56003574--56003780	27	7.7	27	88	0	279	40	8	22	28	1.82
56003761--56003814	27	2.0	27	81	0	63	31	7	20	40	1.80
56003978--56004004	12	2.2	12	100	0	54	48	25	0	25	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56007783--56007820	20	2.0	20	89	5	60	39	0	0	60	0.97
56014822--56014913	29	3.1	29	80	9	98	31	1	17	50	1.53
56014822--56014886	30	2.2	29	88	2	94	30	0	18	50	1.47
56015295--56015345	18	2.8	18	80	11	68	31	1	17	49	1.58
56016013--56016099	17	5.1	17	80	0	102	31	8	13	47	1.72
56016013--56016099	34	2.6	34	88	0	120	31	8	13	47	1.72
56025526--56025550	2	12.5	2	100	0	50	0	48	0	52	1.00
56029543--56029580	19	2.0	19	89	0	58	31	21	10	36	1.87
56030187--56030223	18	2.1	18	94	0	65	32	10	8	48	1.67
56030215--56030257	18	2.3	18	80	4	50	53	18	6	20	1.67
56033116--56033161	21	2.2	21	84	7	58	39	13	4	43	1.63
56045265--56045449	79	2.3	81	83	7	227	24	22	27	24	2.00
56045266--56045449	40	4.6	40	82	9	207	25	22	27	24	2.00
56045318--56045472	79	2.0	79	83	7	199	26	21	27	25	1.99
56047529--56047563	18	2.0	18	94	5	63	57	5	17	20	1.60
56048953--56049172	48	4.6	48	80	4	237	30	19	25	24	1.98
56051418--56051463	22	2.1	22	95	0	83	26	23	19	30	1.98
56056477--56056530	25	2.0	28	82	10	69	33	1	20	44	1.62
56056619--56056891	48	5.7	48	79	6	304	28	20	28	21	1.98
56056619--56056894	96	2.9	97	86	3	398	29	20	28	21	1.98
56059189--56059306	62	1.9	62	89	0	182	22	28	23	25	1.99
56076716--56076786	35	2.0	35	94	0	124	22	12	12	52	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56099372--56099543	40	4.3	40	84	5	224	24	22	26	26	2.00
56099771--56099812	22	1.9	22	85	9	59	33	9	14	42	1.78
56102082--56102149	34	2.0	34	97	0	127	25	26	23	25	2.00
56107478--56107654	40	4.4	40	84	3	205	23	22	28	24	1.99
56107478--56107654	80	2.2	79	85	3	230	23	22	28	24	1.99
56107649--56107898	136	1.8	136	98	0	482	31	15	21	32	1.94
56108018--56108059	22	1.9	22	85	9	59	33	9	14	42	1.78
56110766--56110817	26	2.0	26	96	0	95	61	5	21	11	1.50
56111135--56111219	6	14.3	6	76	11	68	77	1	7	14	1.03
56111140--56111219	31	2.7	30	83	9	103	78	1	6	13	0.99

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