genome.fa.s25.2.7.7.80.10.50.1000.168.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   

This is table  168  of  297  ( 35593 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)
56595703--56596072	50	7.6	50	77	7	293	21	29	20	28	1.98
56595703--56596083	95	3.9	96	78	10	350	22	28	19	29	1.98
56595702--56596070	145	2.5	145	77	7	381	21	28	20	29	1.98
56598229--56598496	48	5.6	48	76	7	195	27	27	19	26	1.99
56603510--56603560	20	2.7	19	82	14	54	41	0	21	37	1.54
56603705--56603737	17	1.9	17	88	11	50	48	0	15	36	1.45
56604766--56604841	13	5.9	13	79	3	82	30	6	27	35	1.82
56609340--56609365	7	3.7	7	100	0	52	15	53	0	30	1.42
56617403--56617439	17	2.2	17	90	4	58	59	5	5	29	1.42
56618457--56618540	27	3.1	27	85	0	105	32	25	9	33	1.88
56618547--56618625	28	2.9	28	88	1	115	40	21	7	30	1.81
56618553--56618653	28	3.6	28	84	4	89	41	22	7	27	1.82
56618649--56618752	27	3.9	27	84	3	140	28	20	9	41	1.84
56618772--56618923	27	5.7	26	75	10	119	40	21	8	29	1.83
56618547--56618922	54	6.9	54	69	10	160	37	21	9	32	1.85
56618943--56619016	27	2.7	27	76	12	71	37	20	20	21	1.94
56619808--56619956	52	2.9	52	92	2	248	27	22	22	27	1.99
56619808--56619956	26	5.8	26	90	0	221	27	22	22	27	1.99
56620101--56620192	42	2.2	42	92	3	150	29	13	22	34	1.92
56620207--56620299	31	3.0	31	92	3	143	31	16	22	30	1.95
56632614--56632795	79	2.3	79	83	8	219	23	27	23	25	2.00
56632614--56632795	40	4.6	39	82	10	201	23	27	23	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56633123--56633237	59	1.9	59	96	0	212	40	19	13	26	1.89
56633238--56633602	182	2.0	182	93	1	624	32	25	10	31	1.90
56633650--56633728	41	2.0	40	88	9	119	46	18	15	18	1.84
56635008--56635049	15	2.7	15	82	14	50	40	2	16	40	1.62
56636641--56636675	13	2.6	14	90	4	54	14	8	28	48	1.73
56640966--56641057	27	3.4	27	80	5	105	38	25	16	20	1.93
56641420--56641459	21	1.9	21	100	0	80	25	15	22	37	1.93
56643299--56643396	27	3.6	27	83	2	108	37	22	19	20	1.94
56644923--56644970	23	2.1	23	100	0	96	37	25	20	16	1.93
56645346--56645399	27	2.0	27	96	0	99	37	20	18	24	1.94
56645384--56645646	27	9.7	27	77	4	206	39	20	10	30	1.85
56645881--56645976	27	3.6	27	82	0	102	18	20	21	38	1.93
56652054--56652083	15	1.9	16	93	6	53	40	10	3	46	1.54
56657105--56657151	19	2.5	19	77	19	53	63	8	2	25	1.34
56674580--56674764	55	3.4	53	84	8	223	21	23	19	35	1.96
56674756--56675581	47	17.6	47	99	0	1625	25	25	14	34	1.94
56682416--56682554	42	3.2	42	79	10	138	35	25	13	25	1.93
56682385--56682554	43	4.0	42	76	13	159	33	25	15	25	1.95
56682437--56682548	44	2.6	44	84	6	140	33	26	15	24	1.95
56684399--56684443	19	2.4	18	79	13	56	68	0	31	0	0.89
56700228--56700356	48	2.7	48	86	1	170	28	14	23	33	1.94
56700330--56700406	38	2.0	38	92	0	127	28	15	25	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56701877--56701928	25	2.1	25	100	0	104	17	11	23	48	1.79
56705406--56705561	43	3.6	42	78	6	161	26	17	25	31	1.97
56705398--56705539	42	3.3	43	78	14	139	24	16	24	34	1.95
56706476--56706682	27	7.6	27	73	7	150	40	20	7	31	1.80
56706557--56706764	54	3.8	55	78	3	197	43	19	7	29	1.78
56706556--56706772	27	8.0	27	79	6	132	42	19	7	30	1.79
56706826--56706890	27	2.4	27	82	5	78	33	20	26	20	1.96
56707698--56707767	25	2.8	25	88	0	104	28	25	21	24	1.99
56707697--56707792	25	3.9	24	78	9	86	29	23	21	25	1.99
56725217--56725296	41	2.1	37	88	9	115	45	21	5	28	1.73
56725819--56725873	28	2.0	28	100	0	110	40	10	7	41	1.68
56727193--56727244	24	2.2	24	86	6	70	19	26	21	32	1.97
56727287--56727350	23	2.8	23	95	0	110	9	21	26	42	1.83
56728243--56728282	16	2.4	17	87	8	64	47	35	5	12	1.63
56729604--56729701	28	3.4	29	80	4	110	26	16	28	28	1.97
56729627--56729710	28	3.0	28	77	11	91	26	15	29	28	1.96
56733749--56733907	43	3.7	43	78	5	160	32	25	15	27	1.96
56737138--56737182	22	2.0	22	95	0	81	31	8	15	44	1.77
56737145--56737200	22	2.5	22	85	5	69	35	8	16	39	1.80
56738206--56738610	217	1.9	217	93	0	702	35	17	20	26	1.94
56744174--56744198	9	2.8	9	100	0	50	52	0	24	24	1.48
56744491--56744621	40	3.3	40	80	0	136	25	16	24	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56747450--56747510	30	2.0	30	83	0	77	31	22	8	37	1.84
56751124--56751208	43	2.0	43	83	4	109	27	18	27	27	1.98
56764146--56764319	49	3.5	49	87	1	258	29	28	16	24	1.97
56764146--56764327	99	1.8	99	96	0	337	29	29	17	24	1.97
56767039--56767075	15	2.5	15	95	0	65	56	13	13	16	1.67
56770169--56770400	49	4.7	49	84	3	311	28	27	19	24	1.99
56772451--56772489	16	2.4	16	91	0	60	46	0	10	43	1.37
56773254--56773411	40	4.0	40	88	0	235	15	28	19	36	1.92
56773352--56773475	64	1.9	64	93	0	212	14	29	17	38	1.89
56773416--56773509	40	2.3	40	81	3	118	15	28	18	37	1.92
56773312--56773503	104	1.8	104	86	2	278	15	28	18	38	1.91
56783884--56783917	18	1.9	18	88	5	52	14	17	11	55	1.68
56785877--56785927	27	1.9	26	84	4	66	35	17	27	19	1.94
56790774--56790809	16	2.2	16	95	0	63	22	2	38	36	1.69
56797415--56797508	38	2.4	38	85	7	118	36	9	10	43	1.72
56797493--56797575	39	2.1	38	84	4	103	30	10	12	46	1.75
56799740--56799936	55	3.6	54	85	4	263	35	18	24	21	1.95
56799748--56799947	108	1.8	109	89	3	314	35	18	25	21	1.95
56801284--56801380	34	2.7	35	78	10	88	62	0	2	35	1.07
56801297--56801382	9	9.9	9	73	19	67	62	0	2	34	1.08
56801333--56801386	23	2.4	23	84	6	67	61	0	3	35	1.14
56801350--56801405	22	2.5	22	83	13	71	60	0	3	35	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56801315--56801410	40	2.5	37	73	20	88	60	0	3	36	1.13
56804459--56804559	40	2.5	40	93	4	170	23	23	25	26	2.00
56808320--56808368	8	5.8	8	83	11	62	85	0	14	0	0.59
56808318--56808361	19	2.4	18	88	7	70	86	0	13	0	0.57
56809339--56809681	44	7.8	43	77	11	306	28	15	27	28	1.96
56809315--56809640	175	1.9	175	88	1	501	30	15	26	28	1.96
56809339--56809750	219	1.9	218	90	1	655	27	14	26	30	1.95
56809646--56810082	87	5.0	87	89	0	642	27	15	26	30	1.96
56809364--56809854	219	2.2	217	85	5	632	28	15	26	29	1.96
56810130--56810413	78	3.6	78	94	0	471	31	19	25	24	1.98
56822384--56823451	40	26.7	40	89	0	1566	26	27	21	24	1.99
56822413--56823451	80	13.0	80	97	0	1864	26	27	21	24	1.99
56824132--56824202	37	1.9	37	91	0	115	26	30	18	23	1.97
56824348--56824532	48	3.8	48	87	4	264	31	25	7	35	1.83
56824348--56824531	98	1.9	97	87	4	273	30	26	7	35	1.83
56824502--56824695	47	4.1	47	88	0	271	27	28	10	32	1.90
56824595--56824666	22	3.1	22	64	24	58	23	29	13	33	1.93
56824455--56824695	94	2.5	93	85	4	288	27	28	9	33	1.89
56827289--56827398	19	5.9	19	90	6	172	40	10	12	36	1.79
56827281--56827396	36	3.2	36	86	4	171	39	12	11	37	1.78
56829252--56829410	86	1.9	85	82	6	205	26	16	24	32	1.96
56829252--56829366	44	2.7	40	77	13	113	25	16	25	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56829244--56829416	43	4.0	43	75	8	172	26	16	24	32	1.96
56836528--56836560	8	4.1	8	96	0	57	51	0	21	27	1.48
56836911--56837083	43	4.0	43	71	11	138	24	17	26	31	1.97
56839619--56839725	33	3.2	33	79	0	115	40	30	11	17	1.85
56843844--56843878	9	3.8	9	85	7	52	11	2	5	80	1.00
56843843--56843878	19	1.9	18	94	5	63	13	2	5	77	1.05
56846700--56846811	55	2.0	55	91	0	179	27	17	16	37	1.92
56848928--56848966	21	2.0	20	85	10	53	53	2	10	33	1.48
56849042--56849162	20	5.9	20	77	5	100	13	25	21	39	1.90
56852797--56852874	37	2.1	37	81	9	88	21	23	12	42	1.87

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