genome.fa.s13.2.7.7.80.10.50.1000.164.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_chr11
Parameters: 2 7 7 80 10 50 1000
Length:  102024878

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   

This is table  164  of  310  ( 37082 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)
53774583--53774625	8	5.4	8	80	0	50	44	16	20	18	1.87
53774575--53774625	16	3.2	16	85	0	66	45	19	17	17	1.86
53776522--53776619	49	2.0	49	89	0	151	19	18	32	29	1.96
53789084--53789247	40	4.1	40	88	1	188	28	28	19	23	1.98
53789063--53789247	80	2.3	80	83	4	214	27	28	21	22	1.99
53790963--53791001	19	2.1	19	95	0	69	20	12	33	33	1.91
53796951--53797064	24	4.8	24	90	0	165	21	14	30	32	1.94
53796954--53797081	48	2.7	48	85	4	125	23	14	28	33	1.93
53796951--53797109	72	2.2	72	82	6	180	23	13	28	33	1.93
53801719--53801834	24	4.8	24	91	0	178	20	13	30	35	1.92
53801720--53801876	72	2.2	72	83	2	190	23	12	29	34	1.92
53819620--53819774	43	3.7	43	79	6	172	25	18	26	29	1.98
53819644--53819766	41	2.9	43	82	10	155	26	19	25	28	1.99
53819926--53819956	16	1.9	16	93	0	53	41	6	16	35	1.74
53819942--53819985	19	2.3	18	84	7	52	47	2	15	34	1.58
53826473--53826618	72	2.0	72	98	0	283	23	21	26	28	1.99
53826935--53827065	66	2.0	66	98	0	253	38	16	18	26	1.91
53830124--53830221	27	3.5	28	87	2	126	26	14	28	30	1.95
53830152--53830234	27	3.0	27	85	5	96	30	13	25	31	1.93
53830124--53830235	28	4.0	27	81	6	89	28	13	25	32	1.94
53831228--53831383	78	2.0	78	96	0	285	37	15	24	23	1.93
53832675--53832726	26	2.0	26	88	7	79	34	5	21	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53838640--53838849	40	5.3	39	89	4	242	25	21	27	25	1.99
53838587--53838849	120	2.2	120	82	4	309	25	21	27	25	1.99
53838588--53838884	80	3.7	80	81	6	230	26	21	27	24	1.99
53843866--53844021	43	3.6	42	71	13	120	28	16	22	32	1.96
53845736--53845840	55	1.9	55	84	0	138	23	21	30	23	1.99
53855997--53856175	27	6.6	27	84	3	207	30	27	15	26	1.96
53856018--53856173	82	1.9	81	88	3	233	29	28	15	26	1.96
53865717--53865940	40	5.6	40	85	6	292	25	27	23	23	2.00
53865717--53865940	83	2.8	80	86	4	299	25	27	23	23	2.00
53869514--53869645	54	2.5	53	91	1	210	26	20	24	28	1.99
53871443--53871676	40	5.9	40	88	2	330	25	23	29	22	1.99
53873938--53874059	55	2.2	55	86	0	163	21	22	32	23	1.98
53894323--53894399	22	3.4	22	69	22	68	35	14	27	23	1.93
53894296--53894487	47	4.1	47	89	1	278	35	11	27	25	1.90
53894323--53894444	22	5.3	22	63	30	58	35	13	27	24	1.92
53894461--53894551	46	2.0	46	88	0	137	35	7	29	27	1.85
53896258--53897349	40	27.3	40	99	0	2094	24	22	27	25	2.00
53897377--53897487	57	1.9	57	87	0	159	23	18	27	30	1.97
53904970--53905213	47	5.2	47	92	0	371	25	14	26	34	1.94
53923446--53923504	19	3.1	19	78	4	57	22	22	22	33	1.97
53927205--53927244	10	4.0	10	80	0	53	57	0	0	42	0.98
53927209--53927248	20	2.0	20	95	0	71	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53927276--53927377	18	5.5	19	69	16	63	63	1	5	28	1.28
53927308--53927373	17	3.7	17	70	9	51	65	1	6	27	1.25
53927351--53927410	21	2.9	21	75	18	63	60	5	1	33	1.29
53927729--53927791	10	6.4	10	74	17	51	41	3	0	55	1.16
53927735--53927778	20	2.1	21	88	12	65	36	0	0	63	0.95
53927729--53927792	29	2.2	29	83	8	76	42	3	0	54	1.16
53927806--53927890	38	2.3	38	76	8	86	31	3	0	64	1.10
53928399--53928464	29	2.3	29	80	12	82	34	1	0	63	1.04
53928423--53928491	27	2.7	27	80	8	74	36	0	0	63	0.94
53928655--53928692	18	2.1	19	85	5	51	47	7	10	34	1.67
53930102--53930126	13	1.9	13	100	0	50	40	12	16	32	1.84
53933380--53933439	26	2.3	26	100	0	120	30	28	3	38	1.73
53942397--53942575	38	4.7	38	81	0	205	37	30	17	13	1.89
53942397--53942575	76	2.4	76	83	3	234	37	30	17	13	1.89
53943647--53943688	15	2.7	16	82	14	52	23	4	21	50	1.68
53952121--53952161	19	2.2	19	100	0	82	43	14	21	19	1.87
53955295--53955563	142	1.9	138	81	11	316	27	19	27	25	1.99
53957347--53957390	22	2.0	22	100	0	88	36	13	31	18	1.90
53958654--53958689	14	2.6	14	95	0	63	58	0	11	30	1.33
53961129--53961236	44	2.4	44	87	3	144	29	23	13	33	1.93
53971111--53971168	29	2.0	29	100	0	116	31	20	3	44	1.68
53972016--53972065	25	2.0	25	84	7	66	40	26	14	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53972050--53972115	25	2.7	24	86	9	80	36	22	13	27	1.92
54008556--54008583	13	2.2	13	100	0	56	46	0	7	46	1.30
54008791--54008827	18	2.1	18	100	0	74	16	10	5	67	1.38
54008873--54008911	17	2.3	17	86	8	53	23	2	5	69	1.21
54008848--54009137	152	1.9	152	100	0	580	35	7	7	49	1.59
54009025--54009063	17	2.3	17	86	8	53	23	2	5	69	1.21
54009124--54009183	31	1.9	31	100	0	120	43	0	8	48	1.33
54009274--54009305	17	2.0	17	88	11	50	59	6	3	31	1.38
54014640--54014741	43	2.4	42	91	1	159	21	29	30	18	1.97
54028379--54028554	46	3.8	46	79	12	216	20	21	29	28	1.98
54028376--54028547	93	1.8	93	96	0	317	20	21	29	27	1.98
54031223--54031347	45	2.7	45	81	11	139	23	31	17	28	1.97
54042404--54042430	13	2.1	13	100	0	54	33	29	22	14	1.94
54049816--54050037	46	4.8	44	77	14	200	22	29	20	27	1.99
54049863--54050033	94	1.8	92	86	7	247	22	28	21	28	1.99
54055881--54056061	89	2.0	89	94	0	317	28	23	12	35	1.92
54060293--54060333	20	2.0	20	86	9	57	34	17	2	46	1.61
54062866--54062948	25	3.3	25	76	3	78	39	30	9	20	1.84
54062917--54062967	25	2.0	25	85	7	68	37	25	15	21	1.93
54070276--54070316	18	2.4	18	88	8	59	46	21	4	26	1.72
54072200--54072229	8	3.9	8	91	8	53	53	10	0	36	1.35
54104742--54104766	13	1.9	13	100	0	50	56	12	16	16	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54105231--54105257	6	4.5	6	100	0	54	18	0	0	81	0.69
54105755--54105821	24	2.8	24	75	16	61	31	0	1	67	1.00
54106122--54106185	24	2.7	23	77	13	67	75	0	23	1	0.90
54106335--54106468	60	2.2	61	86	4	191	32	0	11	55	1.36
54109673--54109767	33	2.9	33	80	3	84	14	49	11	24	1.76
54114992--54115038	22	2.2	21	82	14	53	53	4	8	34	1.51
54115013--54115065	27	2.0	26	81	3	61	60	3	7	28	1.41
54114974--54115116	47	3.0	49	76	16	131	54	4	6	33	1.49
54114992--54115461	23	19.7	23	69	20	154	55	4	5	33	1.45
54114992--54115127	25	5.7	23	67	20	59	54	5	6	33	1.49
54115257--54115443	24	7.7	23	75	17	112	56	5	4	33	1.43
54115622--54115679	26	2.2	26	85	11	75	62	5	3	29	1.33
54115623--54115686	15	4.5	15	69	25	50	60	6	3	29	1.36
54117329--54117438	44	2.5	46	82	4	136	26	25	18	30	1.98
54117426--54117514	44	2.0	45	88	2	135	28	25	20	25	1.99
54117710--54117765	29	1.9	29	85	7	78	25	33	21	19	1.97
54117739--54117901	89	1.8	89	81	0	200	35	19	17	26	1.94
54117809--54117975	74	2.2	75	86	1	228	34	19	19	26	1.96
54117884--54118045	89	1.8	89	84	4	220	34	20	17	26	1.95
54117739--54118439	163	4.3	165	85	4	842	34	21	16	27	1.95
54117972--54118139	75	2.2	76	84	4	216	38	20	16	25	1.92
54118133--54118450	77	4.2	76	91	1	494	34	21	16	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54118133--54118457	153	2.1	152	89	2	508	35	20	16	27	1.94
54130606--54130652	22	2.2	21	82	14	53	53	6	6	34	1.52
54130627--54130679	27	2.0	26	81	3	61	60	3	7	28	1.41
54130665--54130732	25	2.8	24	80	6	82	54	5	7	32	1.52
54130820--54130849	14	2.1	14	100	0	60	53	13	6	26	1.64
54130870--54131079	23	8.6	25	76	13	174	56	5	5	32	1.44
54130927--54131060	24	5.3	28	72	23	84	60	5	2	30	1.36
54130925--54131060	48	2.7	47	83	14	159	59	5	2	31	1.36
54131180--54131209	15	2.0	15	93	0	51	63	0	3	33	1.11
54134536--54134592	10	5.5	10	75	8	51	35	5	1	57	1.31

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