genome.fa.s2.2.7.7.80.10.50.1000.35.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  35  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)
10548504--10548542	20	1.9	21	89	5	62	71	0	7	20	1.10
10549594--10549705	49	2.3	48	84	7	138	26	16	30	25	1.97
10549617--10549705	24	3.7	24	85	7	110	28	16	30	24	1.97
10549617--10549729	49	2.3	48	83	11	133	29	15	30	24	1.96
10556348--10556397	24	2.1	24	96	0	91	30	4	24	42	1.73
10557604--10557783	91	2.0	91	97	0	342	37	13	15	33	1.86
10558672--10558858	40	4.7	40	89	0	275	17	20	28	33	1.95
10558962--10559064	52	2.0	52	98	0	197	35	5	30	28	1.81
10558964--10559046	27	3.1	27	67	19	84	33	6	30	30	1.82
10562533--10562580	25	1.9	25	86	0	69	33	25	16	25	1.96
10562628--10562683	11	5.5	11	71	16	57	35	12	19	32	1.89
10562617--10562683	20	3.3	20	93	0	116	34	11	20	32	1.90
10562732--10562900	24	7.0	24	95	2	295	28	20	21	28	1.98
10563094--10563157	31	2.1	31	93	0	110	37	15	23	23	1.93
10570680--10570727	25	1.9	25	86	0	69	33	25	16	25	1.96
10570766--10570822	9	5.9	9	73	15	51	35	8	21	35	1.84
10570764--10570830	20	3.3	20	95	0	125	35	11	19	32	1.88
10570775--10570830	11	5.5	11	71	16	57	35	12	19	32	1.89
10570879--10570997	23	5.0	24	89	7	181	29	21	21	28	1.98
10570879--10570997	47	2.5	47	90	6	179	29	21	21	28	1.98
10571191--10571254	31	2.1	31	90	0	101	35	15	25	23	1.94
10574123--10574228	32	3.2	32	76	9	115	33	11	20	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10574123--10574228	33	3.2	33	78	6	126	33	11	20	34	1.88
10601710--10601824	29	4.0	29	72	1	88	31	12	28	27	1.92
10607551--10607583	16	2.1	16	94	0	57	48	30	6	15	1.69
10609048--10609148	29	3.5	29	76	6	98	26	15	31	25	1.96
10609410--10609463	27	2.1	25	86	6	72	46	24	16	12	1.82
10614046--10614162	31	3.8	31	88	0	180	28	21	16	34	1.95
10614186--10614277	42	2.2	42	96	0	166	32	20	16	30	1.95
10614422--10614501	25	3.2	25	89	1	124	27	22	23	26	2.00
10614437--10614556	64	1.9	63	96	1	222	25	21	21	30	1.98
10614606--10614700	20	4.8	20	93	5	142	33	18	9	37	1.84
10614606--10614681	11	7.5	11	69	16	65	31	19	10	38	1.86
10614623--10614699	9	7.8	10	72	16	63	33	19	9	37	1.83
10615391--10615455	27	2.4	27	82	5	78	21	24	18	35	1.96
10615487--10615722	27	8.7	27	77	5	190	33	8	19	39	1.81
10615486--10615722	54	4.4	54	79	4	251	32	8	18	39	1.82
10615486--10615727	81	3.0	82	76	7	242	33	9	18	38	1.83
10615726--10615857	27	4.9	27	88	0	201	38	9	24	28	1.85
10616845--10616895	22	2.3	22	75	0	57	56	11	15	15	1.66
10617698--10617794	49	2.0	49	89	4	151	24	25	6	43	1.77
10619146--10619189	15	2.8	17	74	19	51	22	22	0	54	1.45
10619131--10619216	43	2.0	43	88	0	127	20	23	0	55	1.43
10622982--10623011	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10631085--10631130	23	2.2	20	84	11	56	30	0	0	69	0.89
10632186--10632229	22	1.9	22	86	9	61	63	0	0	36	0.95
10634357--10634404	19	2.6	19	80	9	55	35	2	14	47	1.56
10634418--10634510	43	2.2	43	92	3	152	27	5	13	52	1.62
10650592--10650688	43	2.3	43	89	5	144	30	6	13	49	1.66
10651415--10651439	10	2.5	10	100	0	50	16	8	0	76	1.02
10651523--10651607	21	3.7	22	73	13	73	49	0	3	47	1.18
10651639--10651712	23	3.2	23	83	9	80	55	4	0	40	1.19
10651691--10651732	18	2.2	19	87	8	59	54	2	0	42	1.13
10651691--10651837	20	7.3	18	68	24	64	53	3	0	42	1.22
10651767--10651801	18	1.9	18	88	0	52	45	5	0	48	1.26
10651798--10651837	21	2.0	21	90	5	64	57	0	0	42	0.98
10651798--10651867	24	3.1	22	80	15	72	58	1	0	40	1.07
10651797--10651858	23	2.8	22	81	16	67	59	0	0	40	0.97
10651932--10651959	12	2.3	12	100	0	56	78	0	7	14	0.95
10657847--10658031	79	2.3	81	84	7	236	24	22	27	25	2.00
10657848--10658031	40	4.6	40	83	9	216	24	22	27	25	2.00
10657900--10658064	79	2.1	79	84	6	210	26	21	27	25	1.99
10661609--10661680	38	1.9	38	97	2	137	44	9	15	30	1.78
10663223--10663639	35	12.0	35	86	1	408	30	14	24	30	1.95
10663198--10663641	173	2.5	173	82	3	494	30	14	24	31	1.94
10665847--10666247	200	2.0	200	98	0	766	44	24	7	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10667230--10667269	21	2.0	20	90	5	62	42	22	0	35	1.54
10669424--10669465	20	2.1	20	100	0	84	28	4	33	33	1.78
10671645--10671687	20	2.2	20	95	0	77	32	30	0	37	1.58
10688482--10688554	29	2.4	30	75	8	69	20	12	6	60	1.55
10689986--10690030	22	2.0	22	83	8	56	51	4	11	33	1.58
10690390--10690434	7	6.4	7	87	10	65	73	0	0	26	0.84
10692787--10692886	51	2.0	51	81	0	119	26	19	24	31	1.98
10695560--10695608	22	2.2	22	96	0	89	30	12	26	30	1.92
10697273--10697383	45	2.5	45	89	2	161	42	18	18	20	1.90
10697361--10697390	12	2.5	12	94	0	51	43	16	23	16	1.87
10698442--10698480	13	2.9	13	80	3	51	15	7	0	76	0.99
10698769--10698818	23	2.3	22	90	10	77	54	2	0	44	1.11
10700247--10700438	54	3.6	54	95	2	325	29	20	19	30	1.97
10706053--10706151	52	1.9	52	95	0	180	47	8	8	36	1.63
10720750--10720789	21	1.9	21	84	0	53	20	22	25	32	1.98
10726019--10726062	21	2.1	21	91	0	70	18	15	11	54	1.70
10728894--10729000	34	3.1	34	84	0	142	28	20	18	32	1.96
10729216--10729250	18	1.9	18	100	0	70	22	17	14	45	1.84
10729355--10729414	29	2.1	29	96	0	111	48	20	1	30	1.59
10732264--10732417	43	3.6	41	73	11	139	33	24	14	27	1.95
10743676--10743706	11	2.8	11	95	0	53	45	9	0	45	1.36
10746218--10746424	27	7.6	27	91	3	315	26	14	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10746218--10746424	55	3.8	55	96	0	360	26	14	28	30	1.95
10752230--10752340	27	4.2	26	87	5	141	39	21	23	15	1.91
10753786--10753845	24	2.5	24	88	0	93	21	38	1	38	1.64
10760572--10760609	20	1.9	20	88	0	58	47	0	2	50	1.15
10762731--10762803	37	2.0	37	89	5	112	17	10	31	39	1.85
10764683--10764721	19	2.1	19	95	0	69	51	28	5	15	1.64
10783812--10783922	34	3.3	34	97	0	204	27	26	19	27	1.99
10789007--10789228	48	4.6	48	79	2	239	25	20	29	24	1.99
10788994--10789228	96	2.4	96	85	0	299	24	19	29	25	1.98
10795079--10795141	31	2.0	31	96	0	117	31	15	14	38	1.88
10800130--10800155	6	4.3	6	100	0	52	69	0	15	15	1.20
10802028--10802625	155	3.9	155	81	1	624	27	18	23	29	1.98
10803068--10803099	2	16.0	2	100	0	64	0	0	50	50	1.00
10804545--10804762	46	4.7	46	78	10	189	26	18	29	24	1.98
10806053--10806092	21	2.0	21	90	5	64	10	37	30	22	1.87
10812444--10812672	50	4.8	49	83	7	242	27	18	32	21	1.97
10822062--10822108	22	2.2	22	84	3	60	51	6	2	40	1.39
10831830--10831874	15	2.9	16	87	12	76	57	13	15	13	1.65
10841481--10841709	111	2.1	111	98	0	440	27	19	16	36	1.93
10856358--10856405	23	2.1	23	84	7	62	10	6	22	60	1.52
10870514--10870558	22	2.0	23	86	4	65	44	6	2	46	1.42
10871506--10871567	31	2.0	31	100	0	124	25	9	6	58	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10875159--10875228	35	2.0	35	94	5	124	34	14	20	31	1.92
10876404--10876428	2	12.5	2	100	0	50	48	0	52	0	1.00
10882304--10882359	29	2.0	28	89	3	85	41	0	1	57	1.09
10882309--10882360	15	3.5	15	77	15	63	42	0	1	55	1.10
10895674--10895731	5	10.8	5	80	12	62	43	0	1	55	1.10
10895675--10895732	8	6.7	9	74	21	61	43	0	1	55	1.10
10895677--10895732	12	4.5	12	81	16	69	42	0	1	55	1.10
10897047--10897085	18	2.1	19	90	4	62	41	0	10	48	1.37
10897325--10897459	39	3.4	40	73	11	109	24	20	27	28	1.99
10903242--10903547	152	2.0	152	100	0	612	28	24	16	30	1.96

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