genome.fa.s2.2.7.7.80.10.50.1000.105.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   
          321   322   

This is table  105  of  322  ( 38559 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)
34133403--34133451	22	2.2	22	78	7	55	57	0	6	36	1.24
34133602--34133626	12	2.1	12	100	0	50	68	0	0	32	0.90
34135940--34136011	25	3.0	23	84	10	81	27	22	23	26	1.99
34136132--34136265	42	3.2	42	95	2	243	31	14	20	34	1.92
34136273--34136367	48	2.0	47	93	2	163	29	20	21	29	1.98
34136337--34136419	31	2.7	31	94	3	143	27	16	27	27	1.97
34139500--34139532	15	2.1	16	88	5	50	60	0	18	21	1.36
34142174--34142204	12	2.6	12	100	0	62	41	9	16	32	1.80
34146060--34146090	12	2.6	12	100	0	62	41	9	16	32	1.80
34147776--34147818	13	3.4	13	87	12	63	2	23	0	74	0.93
34150964--34151334	182	2.0	181	93	0	625	54	5	19	19	1.64
34151675--34151727	24	2.2	24	89	0	79	18	24	9	47	1.78
34159144--34159172	14	2.1	14	100	0	58	41	6	24	27	1.80
34168067--34168146	25	3.2	25	75	7	81	32	18	23	25	1.97
34168112--34168216	25	4.2	25	71	9	70	34	19	24	21	1.96
34168067--34168216	50	3.0	50	80	5	153	33	19	24	23	1.97
34210015--34210129	55	2.1	56	83	8	146	34	21	24	19	1.96
34210040--34210129	27	3.2	27	85	7	119	32	23	24	20	1.98
34210235--34210299	28	2.3	28	94	0	112	30	7	27	33	1.85
34211351--34211403	27	2.0	27	82	14	65	73	0	24	1	0.93
34214514--34215204	346	2.0	346	99	0	1364	34	22	13	29	1.92
34215754--34215919	23	7.2	23	68	6	95	34	21	20	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34215757--34215887	46	2.8	46	85	0	172	35	22	19	22	1.96
34215741--34215903	46	3.5	46	82	1	139	35	20	20	23	1.96
34217632--34217674	21	2.0	21	86	0	59	32	0	34	32	1.58
34220028--34220060	17	1.9	17	93	0	57	12	9	42	36	1.74
34224252--34224330	31	2.5	31	87	0	122	26	24	17	31	1.97
34224429--34224478	26	1.9	26	91	0	82	32	22	18	28	1.97
34225330--34225521	27	7.1	27	91	0	278	40	9	25	25	1.85
34225521--34225619	27	3.7	27	85	5	121	31	10	18	40	1.83
34228098--34228190	41	2.2	43	80	3	109	31	26	18	23	1.97
34238674--34238799	46	2.7	46	95	0	216	20	21	27	30	1.98
34243822--34243884	11	6.0	10	72	17	56	74	1	20	3	1.04
34243822--34243884	5	12.0	5	76	15	56	74	1	20	3	1.04
34243822--34243884	16	3.9	16	72	13	58	74	1	20	3	1.04
34243822--34243882	21	2.9	21	78	7	70	75	1	19	3	1.03
34243812--34243883	37	1.9	37	86	10	103	73	2	20	2	1.08
34243932--34243962	12	2.6	12	100	0	62	45	12	16	25	1.83
34246123--34246219	30	3.2	30	73	2	97	27	26	15	29	1.96
34251294--34251458	44	3.7	45	86	3	210	33	27	15	23	1.95
34251323--34251458	45	3.0	45	88	2	193	35	25	15	23	1.94
34256039--34256141	37	2.8	37	95	0	179	23	32	21	23	1.98
34256293--34256436	76	1.9	76	91	0	234	31	25	9	33	1.87
34256369--34256673	48	6.4	48	98	0	583	31	27	6	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34261586--34261642	22	2.6	22	75	10	62	68	10	0	21	1.19
34265195--34265553	46	7.8	45	69	15	214	23	17	29	28	1.97
34265202--34265544	93	3.7	93	93	0	542	23	17	30	29	1.97
34265248--34265499	47	5.4	47	66	16	173	22	16	31	29	1.96
34275604--34275667	32	2.0	32	100	0	128	40	15	31	12	1.85
34277520--34277933	78	5.3	78	91	0	616	33	16	25	24	1.96
34277755--34277882	37	3.4	37	64	26	95	36	15	22	25	1.93
34278041--34278454	78	5.3	78	89	1	623	32	17	24	24	1.97
34277598--34278919	443	3.0	442	83	6	1600	32	17	24	25	1.97
34277353--34278830	521	2.8	519	92	1	2347	32	17	23	25	1.97
34278171--34278946	365	2.1	369	85	3	1057	32	17	24	25	1.97
34278536--34278830	78	3.8	78	86	3	414	33	19	22	24	1.97
34278844--34279043	45	4.5	45	84	1	249	30	14	30	25	1.94
34278860--34279043	89	2.1	90	87	1	262	29	13	30	26	1.94
34288128--34288337	40	5.3	39	89	4	242	25	21	27	25	1.99
34288075--34288337	120	2.2	120	82	4	309	25	21	27	25	1.99
34288076--34288372	80	3.7	80	81	6	230	26	21	27	24	1.99
34289345--34289400	18	3.5	15	81	18	60	37	10	16	35	1.83
34289336--34289402	17	3.8	17	88	7	98	37	10	14	37	1.81
34289324--34289414	19	4.9	19	89	8	143	37	10	15	36	1.83
34289324--34289437	19	5.8	22	84	10	78	36	9	15	37	1.81
34297513--34297556	15	2.9	15	77	12	54	11	15	15	56	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34299797--34300075	46	5.8	46	73	14	231	21	20	29	29	1.98
34299855--34300067	104	2.1	103	93	0	363	21	20	30	27	1.98
34309553--34309584	15	2.1	16	88	11	50	53	21	3	21	1.60
34311743--34311967	79	2.8	78	81	10	267	24	26	22	26	2.00
34311743--34311967	119	1.9	120	82	9	291	24	26	22	26	2.00
34311743--34311967	40	5.7	39	84	8	244	24	26	22	26	2.00
34318637--34318675	17	2.2	17	86	4	51	82	5	7	5	0.96
34318649--34318674	11	2.4	11	100	0	52	84	0	7	7	0.77
34323417--34323593	5	35.4	5	100	0	354	40	0	0	59	0.97
34324660--34324756	45	2.2	45	88	3	142	20	17	20	41	1.91
34325498--34325530	9	3.5	10	92	8	52	81	0	0	18	0.68
34325498--34325530	5	7.0	5	86	13	52	81	0	0	18	0.68
34331401--34331474	22	3.4	22	73	14	80	33	1	17	47	1.56
34331389--34331475	44	2.0	44	97	0	165	33	2	17	47	1.60
34331856--34331962	45	2.4	45	87	3	144	20	17	18	42	1.89
34335474--34335583	31	3.5	31	92	0	184	28	24	17	30	1.97
34335607--34335698	42	2.2	42	90	0	139	34	20	14	30	1.92
34335831--34335940	26	4.3	26	89	4	156	26	23	20	29	1.99
34335831--34335940	51	2.2	49	87	8	150	26	23	20	29	1.99
34335990--34336076	20	4.3	20	92	2	140	31	18	10	40	1.84
34336783--34336847	27	2.4	27	89	0	103	18	26	20	35	1.95
34336877--34337209	27	12.3	27	77	6	228	30	9	20	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34336877--34337209	54	6.2	53	78	7	285	30	9	20	39	1.83
34336906--34337195	80	3.6	80	78	6	291	30	8	19	41	1.81
34337187--34337316	27	4.9	27	85	1	172	40	7	22	29	1.81
34336879--34337209	107	3.1	106	81	4	315	30	8	20	39	1.83
34337161--34337316	53	2.9	53	83	1	168	39	7	21	31	1.82
34342953--34343111	27	5.9	27	80	11	166	35	22	23	18	1.95
34342971--34343115	54	2.7	54	90	2	229	36	23	22	17	1.94
34344708--34344815	26	4.2	26	92	0	171	36	25	5	32	1.79
34345413--34345447	18	1.9	18	88	0	52	40	11	25	22	1.88
34345431--34345537	45	2.4	45	85	0	142	40	17	17	24	1.91
34345515--34345539	12	2.1	12	100	0	50	40	20	24	16	1.91
34346617--34346647	5	6.2	5	100	0	62	61	0	0	38	0.96
34350689--34350726	19	2.0	20	89	5	60	63	2	13	21	1.42
34352803--34352837	13	2.7	13	95	0	61	8	11	37	42	1.72
34353728--34353877	43	3.5	42	90	5	223	32	16	18	32	1.93
34357540--34357622	41	2.0	41	100	0	166	39	9	9	40	1.71
34359754--34359903	43	3.5	43	87	1	212	35	14	17	33	1.89
34360508--34360678	86	2.0	86	98	0	333	35	7	20	36	1.80
34363524--34363554	16	1.9	16	100	0	62	51	25	9	12	1.70
34369410--34369482	26	2.8	26	85	4	85	38	13	15	32	1.86
34375024--34375102	35	2.3	35	93	0	131	51	8	2	36	1.47
34381185--34381226	7	6.0	7	100	0	84	0	42	28	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34381379--34381438	10	6.0	10	75	14	61	35	1	0	63	1.05
34381382--34381439	11	5.6	11	74	15	61	32	1	0	65	1.03
34381402--34381452	18	2.8	17	80	16	57	33	0	0	66	0.92
34381379--34381451	29	2.4	30	82	15	89	34	1	0	64	1.02
34382766--34382800	16	2.2	16	89	0	52	31	0	2	65	1.07
34383084--34383137	26	2.1	25	86	3	72	72	12	0	14	1.13
34389267--34389351	42	2.0	42	100	0	170	40	22	11	25	1.88
34391004--34391094	44	2.1	44	91	0	146	46	13	13	27	1.80
34392924--34392964	21	2.0	21	90	0	64	53	9	4	31	1.55
34395372--34395466	20	4.8	20	69	16	56	20	6	3	70	1.23

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   
          321   322