genome.fa.s25.2.7.7.80.10.50.1000.110.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  110  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)
39455308--39455486	48	3.7	48	77	5	148	27	27	16	28	1.97
39455311--39455486	96	1.8	96	85	4	248	27	27	16	28	1.97
39460056--39460234	48	3.7	48	83	7	220	26	29	17	26	1.98
39473365--39473440	37	2.1	37	87	5	109	26	30	18	25	1.98
39473559--39474032	47	10.1	47	94	0	752	27	29	10	32	1.89
39483914--39483970	29	2.0	28	83	12	73	33	5	26	35	1.79
39485845--39485963	27	4.4	27	83	0	157	24	17	19	38	1.93
39485845--39485963	54	2.2	54	89	0	175	24	17	19	38	1.93
39493552--39493608	29	2.0	28	83	12	73	35	5	24	35	1.78
39506517--39506542	10	2.6	10	100	0	52	50	0	23	26	1.50
39507493--39507677	50	3.6	50	80	3	165	24	15	26	34	1.95
39507535--39507688	50	3.0	51	81	0	175	25	16	26	31	1.96
39507493--39507695	51	4.0	51	79	1	192	25	15	26	33	1.95
39507593--39507759	51	3.3	51	78	5	122	25	16	27	29	1.97
39511403--39511625	40	5.6	40	86	3	245	24	20	27	26	1.99
39511478--39511660	79	2.3	80	82	1	226	25	20	27	25	1.99
39526402--39526487	31	2.8	31	87	1	138	26	26	15	31	1.95
39526883--39526930	25	1.9	25	86	0	69	29	16	22	31	1.96
39529128--39529383	40	6.4	39	90	2	318	25	28	22	24	2.00
39530577--39530618	21	2.0	21	95	0	75	16	38	4	40	1.70
39534007--39534299	27	10.9	26	84	3	271	39	22	9	28	1.85
39534001--39534348	108	3.2	108	77	8	264	38	22	8	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39534331--39534927	27	22.2	27	86	3	749	36	17	20	25	1.94
39535317--39535380	22	2.9	22	81	9	85	21	20	23	34	1.97
39535539--39535646	27	4.0	27	78	5	112	19	21	21	37	1.94
39535539--39535646	54	2.0	53	81	1	126	19	21	21	37	1.94
39535786--39535888	6	16.8	6	70	15	68	18	18	14	48	1.81
39535774--39535828	25	2.2	25	86	0	74	20	21	12	45	1.84
39535786--39535879	37	2.5	37	87	0	134	18	19	13	48	1.80
39543809--39543892	42	2.0	42	100	0	168	35	2	23	38	1.68
39547063--39547118	27	2.1	27	100	0	112	39	7	21	32	1.80
39555461--39555510	20	2.5	20	90	0	73	24	32	0	44	1.54
39558936--39559025	29	3.1	29	96	0	162	44	20	4	31	1.71
39565999--39566110	43	2.7	43	84	2	138	29	24	16	30	1.96
39568506--39568553	25	1.9	25	83	8	62	33	20	18	27	1.96
39574699--39574804	53	2.0	53	98	0	203	21	8	22	47	1.78
39574809--39574845	3	12.3	3	100	0	74	67	0	0	32	0.91
39574834--39574879	24	1.9	24	82	8	58	65	2	10	21	1.35
39578028--39578344	27	11.7	27	86	0	400	28	22	9	40	1.84
39578008--39578373	81	4.5	81	82	1	367	30	21	8	39	1.84
39578141--39578409	54	5.0	54	81	0	180	33	22	7	36	1.82
39578323--39578543	27	8.2	27	79	6	171	41	21	7	29	1.80
39578337--39578543	80	2.6	80	80	4	220	42	20	7	28	1.80
39578323--39578627	54	5.6	54	76	6	231	40	20	7	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39578332--39578628	27	11.0	27	77	7	147	40	19	8	30	1.82
39578645--39578719	27	2.8	27	76	11	73	37	20	20	22	1.94
39578659--39578723	27	2.4	27	82	5	78	35	18	24	21	1.96
39579326--39579373	25	1.9	25	100	0	96	27	20	20	31	1.98
39579400--39579475	20	3.9	20	86	8	104	36	10	19	32	1.86
39579420--39579475	11	5.5	11	75	16	66	37	12	19	30	1.89
39579525--39579647	52	2.4	51	95	2	221	26	22	23	27	2.00
39579525--39579647	26	4.8	26	91	1	187	26	22	23	27	2.00
39579792--39579883	42	2.2	42	92	0	148	28	11	19	40	1.87
39579907--39579984	31	2.5	31	91	2	131	25	17	26	29	1.98
39583724--39583801	24	3.2	24	88	0	111	33	3	43	19	1.69
39585229--39585312	27	3.2	26	86	5	114	15	23	21	39	1.92
39591232--39591739	259	2.0	250	93	3	854	31	12	27	28	1.93
39591767--39591820	24	2.2	24	83	0	72	33	1	42	22	1.64
39608271--39608347	27	2.9	27	82	3	84	33	15	20	29	1.94
39608505--39608550	22	2.1	22	91	0	74	17	23	21	36	1.94
39610865--39610889	11	2.3	11	100	0	50	28	0	0	72	0.86
39615980--39616039	24	2.5	24	94	0	102	21	40	3	35	1.70
39618028--39618077	25	2.0	25	100	0	100	28	36	4	32	1.76
39622315--39622425	27	4.1	27	81	5	127	38	20	24	16	1.92
39622315--39622425	54	2.1	53	84	5	143	38	20	24	16	1.92
39622704--39622812	57	1.9	57	98	0	209	31	25	16	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39623915--39623991	24	3.2	24	92	0	118	20	41	3	33	1.71
39625633--39625735	28	3.7	28	84	0	125	28	28	12	31	1.93
39625721--39625828	41	2.7	41	84	7	132	32	29	17	20	1.96
39631182--39631211	14	2.1	14	100	0	60	43	6	20	30	1.77
39631642--39632428	53	14.8	53	86	3	926	38	19	9	31	1.85
39631642--39632335	105	6.6	106	90	2	916	38	19	9	31	1.85
39631642--39632428	158	4.9	159	88	3	1036	38	19	9	31	1.85
39631668--39632442	27	29.2	27	80	8	168	38	19	9	31	1.85
39632902--39632927	11	2.4	11	100	0	52	26	0	19	53	1.45
39636110--39636139	14	2.1	14	100	0	60	43	6	20	30	1.77
39640134--39640192	28	2.2	27	85	11	77	22	8	18	50	1.73
39651772--39651896	43	2.9	43	86	2	144	31	26	16	25	1.97
39653410--39653804	135	2.9	135	90	0	610	24	22	21	30	1.99
39655237--39655290	22	2.5	21	72	3	54	18	35	29	16	1.93
39658070--39658186	27	4.3	27	84	0	135	24	21	17	36	1.94
39665068--39665249	39	4.6	39	81	8	183	27	21	26	24	1.99
39665029--39665249	40	5.6	40	80	6	220	27	22	26	24	2.00
39665084--39665257	79	2.2	80	83	9	198	27	20	27	25	1.99
39672394--39673353	79	12.2	79	98	0	1802	24	21	28	25	1.99
39672382--39673353	39	24.7	38	81	11	389	24	21	28	25	1.99
39675013--39675079	28	2.3	29	87	2	100	31	31	11	25	1.92
39680642--39680718	39	2.0	39	92	0	127	49	18	9	23	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39685900--39685951	26	2.0	25	92	3	86	38	17	9	34	1.82
39686765--39687016	68	3.7	69	83	2	276	27	21	16	34	1.95
39687704--39687755	21	2.5	21	80	0	59	51	1	26	19	1.57
39688939--39689331	215	1.8	214	93	4	693	37	14	23	25	1.92
39690458--39690570	29	4.0	28	85	6	122	27	12	26	33	1.92
39690458--39690556	27	3.5	28	87	5	130	24	13	30	32	1.93
39690486--39690570	27	3.0	28	86	5	109	29	11	25	32	1.91
39698474--39698571	27	3.5	28	86	5	119	26	13	27	32	1.93
39698502--39698586	27	3.0	27	84	5	80	31	11	23	32	1.91
39702187--39702244	27	2.2	26	79	14	64	39	1	18	39	1.61
39703515--39703548	16	2.2	16	90	10	54	17	0	35	47	1.48
39704862--39704969	43	2.5	43	89	0	162	24	14	24	37	1.93
39704862--39704996	43	3.1	42	82	6	155	23	14	25	35	1.94
39706221--39706260	18	2.2	18	86	8	55	42	2	15	40	1.60
39710428--39710844	40	10.5	40	96	1	725	25	28	23	23	2.00
39728844--39728932	5	16.8	5	74	19	67	76	1	4	17	1.02
39728844--39728937	25	3.8	24	74	16	84	76	1	4	18	1.00
39734292--39734324	13	2.6	13	90	4	50	48	12	0	39	1.40
39735499--39735607	37	2.9	37	93	0	173	27	30	18	23	1.98
39735819--39736817	51	19.7	51	92	3	1558	28	26	13	31	1.94
39740872--39741330	40	11.5	40	95	0	810	26	29	21	22	1.99
39741473--39741560	43	2.0	43	95	0	158	31	29	3	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39742627--39742735	37	2.9	37	88	0	155	28	29	17	24	1.97
39742944--39743140	47	4.1	47	83	7	223	27	29	11	30	1.92
39745374--39745592	44	5.1	44	62	25	128	27	25	8	38	1.85
39745332--39745672	85	4.0	85	99	0	664	27	26	8	37	1.85
39773813--39773880	12	5.4	12	72	16	57	66	1	5	26	1.23
39773853--39773878	6	4.3	6	100	0	52	69	0	0	30	0.89
39775058--39775167	56	2.0	56	98	0	211	26	17	15	40	1.89
39779397--39779434	17	2.1	19	90	9	62	0	23	0	76	0.79
39786227--39786311	44	2.0	43	83	6	109	23	20	25	30	1.98
39790070--39790140	27	2.6	28	79	2	81	26	8	12	52	1.68

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