genome.fa.s25.2.7.7.80.10.50.1000.143.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  143  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)
49330570--49330693	27	4.6	27	92	2	194	29	29	12	28	1.93
49330570--49330693	55	2.3	54	91	1	194	29	29	12	28	1.93
49338629--49338667	12	3.2	12	92	0	60	15	28	51	5	1.64
49347020--49347078	9	6.4	9	84	2	73	54	20	1	23	1.54
49347020--49347078	27	2.1	27	87	9	84	54	20	1	23	1.54
49347121--49347204	34	2.5	34	78	7	91	42	15	8	33	1.77
49348430--49348484	18	3.1	18	100	0	110	27	10	12	49	1.74
49350647--49350817	93	1.8	93	92	2	290	29	28	20	21	1.98
49350642--49350814	46	3.7	46	75	14	185	30	27	20	21	1.98
49353215--49353270	15	3.7	15	86	9	87	60	10	16	12	1.58
49355418--49355468	26	2.0	26	96	0	93	45	9	7	37	1.67
49358788--49358959	67	2.7	64	75	7	168	29	17	29	24	1.97
49359981--49360012	17	1.9	17	93	6	57	56	0	12	31	1.37
49361921--49362152	49	4.7	49	80	5	259	29	25	18	26	1.98
49361921--49362150	100	2.3	101	82	3	261	29	24	19	26	1.98
49368571--49368976	54	7.6	54	78	11	392	35	17	24	22	1.95
49368519--49368964	209	2.1	208	95	0	793	34	16	24	23	1.95
49368625--49368910	155	1.8	154	84	5	371	35	16	24	23	1.95
49372569--49372840	43	6.4	43	78	8	295	26	17	25	30	1.97
49372571--49372840	86	3.2	85	85	4	332	26	17	25	30	1.98
49374148--49374180	13	2.4	14	90	5	50	24	0	12	63	1.28
49378437--49378608	93	1.8	93	87	2	256	22	20	29	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49381773--49381813	21	2.0	20	90	4	64	58	2	31	7	1.38
49382332--49382361	12	2.5	12	88	0	51	26	40	30	3	1.72
49382635--49382665	15	2.0	16	93	6	55	45	35	6	12	1.68
49384070--49384181	29	3.9	29	82	5	147	25	16	33	25	1.96
49384062--49384174	58	2.0	57	89	5	174	28	15	31	24	1.95
49390660--49390732	29	2.6	28	77	10	76	45	10	8	35	1.69
49392267--49392344	29	2.7	28	79	15	79	38	12	6	42	1.69
49403566--49403614	26	1.9	25	84	12	64	24	10	12	53	1.69
49412209--49412551	49	6.8	51	76	3	356	28	18	24	28	1.98
49412209--49412546	100	3.4	100	98	0	649	28	19	24	28	1.98
49414151--49414212	32	1.9	32	100	0	124	35	9	22	32	1.87
49415588--49415652	15	4.4	15	70	16	55	9	13	13	63	1.53
49418071--49419054	100	9.8	100	99	0	1914	28	17	24	29	1.98
49421968--49422157	55	3.5	53	82	6	222	22	24	17	35	1.95
49422143--49422264	47	2.6	47	96	0	217	25	24	14	35	1.94
49422127--49422399	47	5.9	45	75	10	144	23	24	17	34	1.96
49435115--49435146	13	2.4	14	85	15	50	71	0	0	28	0.86
49435986--49436077	40	2.3	39	81	5	105	20	27	16	35	1.94
49436934--49437012	35	2.2	35	90	2	131	40	18	2	37	1.65
49437109--49437278	45	3.9	45	81	5	181	26	28	20	24	1.99
49438071--49438291	110	2.0	110	97	0	415	45	17	5	31	1.71
49442159--49442190	16	2.0	16	100	0	64	43	18	0	37	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49443511--49443570	27	2.3	26	85	2	75	36	20	21	21	1.95
49443609--49443668	27	2.3	26	85	2	75	36	20	21	21	1.95
49443636--49443777	71	2.1	67	84	5	176	30	22	27	19	1.98
49443495--49443738	98	2.5	98	97	0	463	32	20	25	20	1.97
49450956--49451007	27	2.0	26	84	3	68	34	21	26	17	1.95
49452561--49452711	75	2.0	75	100	0	302	47	19	10	22	1.80
49470797--49470913	27	4.4	27	89	2	164	35	19	21	23	1.96
49471545--49471720	67	2.6	67	98	0	334	19	30	21	29	1.97
49479605--49479782	27	6.6	27	81	3	187	27	15	27	29	1.96
49479606--49479756	82	1.9	81	87	4	223	27	15	27	29	1.96
49479602--49479779	82	2.2	81	80	3	205	28	15	26	29	1.96
49489813--49490047	115	2.1	115	93	0	400	22	17	29	30	1.97
49490182--49490326	54	2.7	54	86	2	193	36	18	20	24	1.95
49490181--49490326	27	5.4	26	85	6	175	36	18	20	24	1.95
49494335--49494366	13	2.5	13	100	0	64	40	0	0	59	0.97
49495531--49495565	16	2.2	16	90	10	54	68	0	0	31	0.90
49495833--49495870	20	2.1	18	85	14	51	36	0	10	52	1.36
49496560--49496736	39	4.5	40	78	5	180	15	27	19	37	1.92
49496564--49496744	20	9.1	20	64	4	71	16	28	18	37	1.92
49497828--49497856	12	2.4	12	100	0	58	6	24	41	27	1.80
49498690--49499082	155	2.5	156	82	1	475	34	16	32	17	1.92
49498690--49499083	39	10.1	39	75	1	351	34	16	32	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49509302--49509381	15	5.4	15	75	7	74	11	18	12	57	1.64
49513482--49513612	47	2.8	47	93	3	212	20	20	29	29	1.98
49513497--49513612	46	2.5	42	91	4	108	19	19	30	30	1.97
49524246--49524318	27	2.7	27	84	0	92	36	20	19	23	1.95
49528419--49528479	30	2.0	30	87	0	86	31	22	6	39	1.80
49535214--49535301	27	3.3	27	85	0	113	35	20	20	23	1.96
49535663--49535727	19	3.4	19	93	0	112	32	24	35	7	1.84
49535992--49536043	27	2.0	26	84	3	68	17	26	21	34	1.95
49536915--49536953	18	2.2	18	86	9	53	10	46	30	12	1.75
49545615--49545739	29	4.3	29	86	1	171	30	29	12	27	1.93
49549273--49549364	27	3.4	27	77	3	78	38	16	19	26	1.92
49555428--49555838	39	10.6	39	80	2	407	34	18	30	16	1.93
49555428--49555838	77	5.3	78	83	1	427	34	18	30	16	1.93
49555709--49555768	20	3.1	19	69	13	50	31	16	33	18	1.93
49557499--49557540	20	2.1	20	100	0	84	38	33	9	19	1.84
49558072--49558170	43	2.3	42	82	5	119	30	23	17	29	1.97
49558103--49558186	42	2.0	43	83	6	109	35	26	13	25	1.92
49562166--49562197	5	6.4	5	100	0	64	81	0	0	18	0.70
49567407--49567474	25	2.7	25	83	0	82	32	23	20	23	1.98
49567647--49567720	30	2.4	31	74	19	73	40	2	18	37	1.65
49573526--49573768	50	4.9	50	78	1	245	27	18	23	29	1.98
49573966--49573995	16	1.9	15	93	6	51	43	0	23	33	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49582152--49582236	42	2.0	42	90	0	134	25	34	24	15	1.95
49589413--49589737	46	6.9	47	73	13	256	22	30	20	26	1.98
49595804--49595986	49	3.7	50	77	11	164	22	29	20	27	1.98
49595805--49596073	96	2.8	96	79	10	268	23	29	19	27	1.98
49595807--49596073	46	5.6	48	76	12	234	23	29	19	28	1.98
49602014--49602127	29	4.0	29	82	13	121	26	29	16	27	1.97
49602967--49603013	19	2.4	19	80	20	60	55	0	27	17	1.42
49602967--49603013	21	2.3	20	83	16	62	55	0	27	17	1.42
49604368--49604874	126	3.7	140	82	9	609	32	23	16	27	1.96
49607402--49607547	39	3.7	39	87	2	204	19	28	26	24	1.99
49611816--49611888	36	2.0	36	89	0	110	23	16	19	41	1.90
49615815--49615889	34	2.2	34	81	11	82	29	25	25	20	1.99
49619888--49620065	40	4.5	40	88	3	236	23	23	29	24	1.99
49622644--49622801	44	3.7	42	76	12	144	33	25	16	24	1.96
49624378--49624418	19	2.1	20	86	13	59	17	4	7	70	1.28
49628661--49628783	28	4.4	28	89	2	167	32	29	12	26	1.92
49629912--49629984	33	2.2	32	79	13	78	53	17	2	26	1.57
49630549--49630735	94	2.0	94	97	0	356	45	14	7	32	1.73
49634731--49634809	37	2.1	37	88	4	115	25	30	18	25	1.98
49634979--49635485	47	10.8	47	99	0	951	31	31	6	30	1.83
49644958--49645011	26	2.1	26	82	6	65	38	11	22	27	1.88
49645236--49645269	9	3.7	9	84	7	50	29	0	8	61	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49645237--49645271	10	3.6	10	84	7	54	28	0	8	62	1.24
49645550--49645574	5	5.0	5	100	0	50	20	0	0	80	0.72
49649029--49649079	20	2.5	20	84	6	68	35	0	5	58	1.22
49650146--49650177	13	2.4	14	90	10	50	31	0	0	68	0.90
49654185--49654382	98	2.0	98	99	0	387	34	15	19	31	1.92
49656985--49657026	21	2.0	21	90	0	66	52	11	11	23	1.71
49659793--49659847	24	2.3	24	76	17	60	41	9	5	43	1.59
49662402--49662441	21	2.0	20	90	5	62	42	22	0	35	1.54
49665348--49665429	38	2.2	38	88	0	119	24	24	25	25	2.00
49665368--49665443	38	2.0	38	89	0	116	22	23	25	28	1.99

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