genome.fa.s12.2.7.7.80.10.50.1000.133.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   

This is table  133  of  320  ( 38372 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)
43599713--43599762	19	2.8	18	77	19	59	40	48	2	10	1.48
43601928--43602095	41	4.2	40	72	13	146	28	27	20	23	1.99
43601973--43602075	40	2.5	40	87	4	136	27	28	20	24	1.99
43604630--43604694	29	2.2	30	78	8	71	40	4	1	53	1.31
43605187--43605251	24	2.7	25	73	20	66	33	7	4	53	1.50
43609454--43609523	32	2.2	32	92	0	113	44	15	20	20	1.87
43612321--43612368	25	1.9	25	86	0	69	35	22	14	27	1.93
43612412--43612449	20	1.9	20	100	0	76	34	13	21	31	1.91
43612501--43612591	23	4.0	22	92	2	128	25	20	20	32	1.97
43612500--43612615	24	5.0	23	86	6	146	26	20	22	30	1.98
43612809--43612872	31	2.1	31	87	0	92	39	14	21	25	1.91
43619343--43619390	25	1.9	25	91	0	78	33	20	29	16	1.95
43621429--43621476	16	2.9	16	80	17	62	50	0	0	50	1.00
43621429--43621479	18	3.0	18	86	11	72	50	0	0	49	1.00
43621447--43621485	18	2.2	18	86	4	53	56	0	0	43	0.99
43622600--43622720	57	2.1	59	84	6	158	28	18	4	48	1.68
43631049--43631140	28	3.3	28	93	4	152	34	28	7	29	1.85
43631246--43631308	28	2.2	29	88	8	94	22	22	23	31	1.98
43631256--43631319	28	2.2	28	86	2	83	25	25	18	31	1.98
43638933--43639024	28	3.3	28	86	6	134	33	26	8	31	1.87
43639130--43639192	28	2.2	28	83	8	74	23	20	22	33	1.97
43648872--43649055	67	2.8	64	76	11	178	29	15	30	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43664249--43664510	39	6.7	40	87	7	328	24	27	22	25	2.00
43678706--43678770	28	2.3	28	91	0	103	32	27	7	32	1.85
43678876--43678965	28	3.2	27	81	10	94	23	21	23	32	1.98
43678876--43678938	27	2.3	29	86	8	87	20	20	25	33	1.97
43678922--43678976	29	1.9	28	81	3	65	25	23	20	30	1.98
43679418--43679458	18	2.3	18	86	0	55	24	2	4	68	1.22
43681719--43681764	23	2.0	23	84	16	60	45	2	2	50	1.26
43681718--43681764	21	2.1	21	84	11	58	46	2	2	48	1.25
43683838--43684045	40	5.2	39	86	5	224	24	27	22	25	1.99
43683838--43684045	80	2.6	81	84	5	255	24	27	22	25	1.99
43683838--43684098	80	3.3	80	81	7	239	24	27	21	26	1.99
43684030--43684107	40	1.9	41	82	10	97	26	28	20	24	1.99
43688896--43689080	92	2.0	92	97	0	352	43	9	19	27	1.82
43698299--43698627	168	2.0	167	88	0	496	34	21	22	21	1.97
43699831--43699943	27	4.1	27	86	8	149	36	22	23	17	1.95
43699831--43699943	55	2.1	54	90	5	174	36	22	23	17	1.95
43703596--43703661	7	9.4	7	86	0	96	15	3	39	42	1.62
43706379--43706743	47	7.8	47	91	0	525	31	9	32	26	1.88
43706862--43706941	37	2.2	37	84	4	99	25	16	30	28	1.96
43708744--43709326	40	14.6	40	90	2	872	25	21	28	24	1.99
43713133--43713720	47	12.6	47	94	0	946	31	10	32	26	1.89
43713851--43713930	37	2.2	37	86	4	108	25	17	30	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43719363--43719533	93	1.8	93	92	2	290	28	29	21	21	1.98
43719360--43719530	46	3.7	46	79	14	192	29	28	21	21	1.98
43719957--43720016	30	2.0	30	90	0	93	30	25	8	36	1.85
43723122--43723229	48	2.2	48	91	4	182	30	31	16	21	1.95
43723209--43723244	18	2.0	18	94	0	63	27	30	11	30	1.91
43723161--43723292	66	2.0	66	90	0	210	30	31	15	22	1.95
43723227--43723334	48	2.2	48	86	0	153	31	28	15	24	1.96
43726962--43727013	19	2.7	19	90	0	86	26	9	11	51	1.68
43727000--43727033	17	1.9	18	94	5	61	38	14	5	41	1.70
43731592--43731643	19	2.7	19	88	11	88	28	9	13	48	1.74
43731630--43731663	17	1.9	18	94	5	61	38	14	5	41	1.70
43731889--43731926	10	3.7	10	96	3	67	23	0	18	57	1.40
43735324--43735635	152	2.1	152	98	0	597	20	22	33	22	1.97
43747195--43747462	48	5.6	48	74	11	237	28	25	19	26	1.99
43747811--43747839	13	2.1	14	93	6	51	44	6	10	37	1.65
43751423--43751520	27	3.6	27	80	5	101	43	18	8	29	1.79
43751475--43751527	27	2.0	27	96	0	97	41	16	9	32	1.81
43751907--43751971	28	2.3	27	84	2	76	23	21	26	29	1.99
43751935--43751999	32	2.0	33	87	3	96	29	21	23	26	1.99
43753700--43753886	6	30.3	6	72	17	143	49	13	17	19	1.80
43753721--43753886	31	5.5	31	77	13	170	48	13	18	19	1.81
43753764--43753886	25	4.7	25	80	11	147	47	13	18	20	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43753700--43753780	43	1.9	42	85	7	110	53	13	14	18	1.73
43754302--43754516	27	8.0	27	83	5	222	24	20	19	36	1.95
43754303--43754516	54	4.0	53	83	4	268	24	20	18	36	1.94
43754306--43754517	81	2.6	81	87	2	302	24	20	18	37	1.94
43754306--43754544	27	8.9	27	80	6	209	24	20	18	37	1.94
43754306--43754545	81	3.0	81	84	6	292	24	20	18	37	1.94
43754571--43755038	27	17.3	26	81	4	432	31	8	19	40	1.82
43754535--43754800	81	3.3	80	81	6	207	32	9	19	38	1.84
43754671--43755038	54	6.8	54	90	0	547	31	7	19	41	1.79
43754671--43755038	27	13.6	27	86	1	443	31	7	19	41	1.79
43763879--43763990	27	4.2	26	84	7	134	35	22	25	16	1.95
43763882--43763988	54	2.0	54	87	3	153	35	21	25	17	1.95
43764096--43764158	26	2.3	26	84	10	74	28	11	25	34	1.90
43771106--43771171	31	2.1	31	88	5	98	54	21	9	15	1.68
43771427--43771502	21	3.6	21	77	13	84	3	46	17	32	1.66
43771908--43771936	13	2.1	14	93	6	51	55	10	0	34	1.34
43777044--43777210	9	19.0	9	68	14	55	35	1	17	46	1.56
43777068--43777136	36	1.9	36	93	0	120	39	1	13	46	1.52
43777067--43777147	36	2.3	35	87	4	119	37	1	13	48	1.51
43777094--43777202	43	2.5	43	86	0	155	35	0	16	47	1.47
43777103--43777225	43	2.8	43	82	3	140	34	0	16	48	1.46
43779981--43780017	19	1.9	19	100	0	74	21	27	24	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43780048--43780091	19	2.2	20	84	8	63	36	0	36	27	1.57
43781170--43781207	15	2.6	15	91	4	60	23	2	23	50	1.62
43781269--43781466	108	1.8	108	96	0	369	22	4	30	42	1.72
43782038--43782195	80	2.0	82	83	9	209	22	17	18	41	1.90
43781956--43782195	41	5.9	40	75	8	184	24	18	18	37	1.93
43782610--43782934	27	12.0	26	85	3	328	42	20	12	24	1.86
43782612--43782937	81	4.0	81	83	2	361	42	20	12	24	1.87
43783181--43783207	12	2.2	12	100	0	54	48	33	7	11	1.67
43790662--43790793	66	2.0	66	81	0	156	31	15	23	29	1.96
43791620--43791720	49	2.1	49	100	0	202	42	11	8	36	1.73
43794162--43794309	40	3.7	40	94	0	262	25	27	22	24	2.00
43800980--43801026	10	4.7	10	89	5	69	38	12	17	31	1.87
43800980--43801046	21	3.3	21	85	4	75	38	11	17	31	1.87
43801092--43801158	25	2.8	24	88	4	98	32	28	16	22	1.95
43801092--43801162	24	2.9	24	89	4	106	32	26	16	23	1.96
43801092--43801173	24	3.4	25	86	6	91	34	24	18	23	1.96
43809061--43809107	10	4.7	10	94	5	78	38	10	19	31	1.86
43809061--43809127	21	3.3	21	87	4	84	38	10	19	31	1.85
43809173--43809257	25	3.4	25	91	0	134	29	27	22	21	1.99
43810697--43811077	125	3.0	126	89	1	568	34	19	19	27	1.96
43814059--43814104	20	2.4	20	92	7	78	39	8	17	34	1.80
43814581--43814623	18	2.4	18	92	0	68	41	9	27	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43816220--43816342	48	2.6	46	86	8	151	51	5	8	34	1.57
43816476--43816528	11	4.9	11	74	4	54	39	0	16	43	1.49
43819975--43820005	4	7.8	4	100	0	62	48	0	0	51	1.00
43820194--43820237	21	2.0	24	82	13	58	34	2	2	61	1.21
43821556--43821671	33	3.5	33	83	1	144	26	25	14	32	1.95
43821553--43821800	65	3.8	62	76	8	199	28	22	12	35	1.92
43821589--43821776	33	5.8	32	83	5	171	30	23	12	34	1.91
43821589--43821780	98	2.0	98	81	2	224	30	23	12	33	1.92
43822483--43822530	21	2.2	21	82	14	62	35	14	0	50	1.44
43826553--43826591	19	2.0	20	90	5	62	25	15	17	41	1.89

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