genome.fa.s7.2.7.7.80.10.50.1000.31.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  31  of  290  ( 34714 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)
10575079--10575182	54	1.9	54	96	0	190	36	10	21	31	1.87
10581219--10581280	19	3.4	19	70	17	67	41	9	22	25	1.84
10581217--10581289	36	2.0	36	97	0	137	39	8	20	31	1.82
10581876--10581919	15	2.9	15	82	0	61	18	13	11	56	1.66
10584089--10584429	170	2.0	170	100	0	682	36	12	22	28	1.90
10587414--10587453	21	2.0	21	90	5	64	12	40	27	20	1.88
10589862--10590128	46	5.7	46	77	9	218	29	19	29	21	1.97
10589859--10590130	94	2.9	93	80	13	292	29	19	29	22	1.98
10591958--10592125	40	4.2	40	82	8	148	27	27	20	24	1.99
10591993--10592178	80	2.3	80	83	9	229	27	27	20	23	1.99
10591995--10592178	40	4.6	40	83	7	205	27	27	21	23	1.99
10597872--10598036	42	3.9	42	84	3	224	32	17	23	26	1.97
10597872--10598036	85	2.0	84	86	3	233	32	17	23	26	1.97
10610785--10610962	27	6.6	27	84	3	205	29	28	15	26	1.96
10610806--10610961	82	1.9	81	88	3	233	29	28	15	26	1.96
10614962--10614996	15	2.3	15	100	0	70	20	20	5	54	1.64
10616966--10617104	43	3.2	42	76	12	113	28	27	15	28	1.96
10624692--10624716	9	2.8	9	100	0	50	24	24	0	52	1.48
10627123--10627155	17	1.9	17	88	11	50	30	24	12	33	1.91
10628081--10628105	9	2.8	9	100	0	50	48	0	0	52	1.00
10629327--10629370	22	2.0	22	86	0	61	52	0	0	47	1.00
10629390--10629431	13	2.9	14	80	13	50	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10629394--10629430	16	2.3	16	86	13	58	59	0	0	40	0.97
10629463--10629519	15	3.5	15	71	17	51	49	1	1	47	1.22
10630029--10630053	9	2.8	9	100	0	50	48	0	0	52	1.00
10631275--10631318	22	2.0	22	86	0	61	52	0	0	47	1.00
10631338--10631379	13	2.9	14	80	13	50	54	0	0	45	0.99
10631342--10631378	16	2.3	16	86	13	58	59	0	0	40	0.97
10631411--10631467	15	3.5	15	71	17	51	49	1	1	47	1.22
10631925--10631963	14	2.8	14	84	0	51	30	17	10	41	1.83
10636515--10636562	24	2.1	23	88	7	71	37	18	4	39	1.70
10636802--10636839	13	3.0	13	88	3	51	52	0	0	47	1.00
10638774--10638815	21	2.0	21	81	9	50	54	0	7	38	1.28
10640999--10641080	36	2.3	36	89	0	128	35	18	14	31	1.91
10643685--10643733	24	2.0	24	100	0	98	26	16	20	36	1.93
10643924--10643969	21	2.2	21	88	7	67	63	0	6	30	1.20
10643924--10643965	19	2.0	22	86	13	63	66	0	7	26	1.17
10646702--10646746	19	2.3	20	96	3	83	24	11	15	48	1.77
10649404--10649743	170	2.0	171	85	7	458	48	10	28	13	1.74
10653034--10653075	16	2.6	16	85	11	50	59	2	4	33	1.31
10653365--10653394	11	2.7	11	94	0	51	30	0	13	56	1.37
10653469--10653511	16	2.6	16	82	13	52	34	4	2	58	1.32
10654295--10654341	23	2.0	23	100	0	94	42	4	4	48	1.42
10655605--10655680	3	24.7	3	74	15	66	5	31	1	61	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10658470--10658546	14	5.0	15	71	20	52	42	15	9	32	1.78
10658486--10658525	20	2.0	20	90	0	62	50	12	10	27	1.72
10658474--10658540	34	1.9	35	90	3	109	46	13	8	31	1.74
10658509--10658548	14	2.9	14	84	0	53	42	17	7	32	1.77
10668639--10668684	23	2.0	23	84	12	60	45	10	6	36	1.65
10668646--10668690	23	2.0	23	82	8	56	40	13	8	37	1.76
10679558--10679606	25	1.9	26	95	4	91	42	10	14	32	1.79
10684790--10684935	42	3.5	42	80	9	156	31	23	15	29	1.95
10688595--10688645	25	2.0	26	92	3	86	47	17	5	29	1.71
10690033--10690085	24	2.2	24	96	0	97	28	3	47	20	1.68
10691486--10691596	27	4.2	26	86	7	143	17	24	21	36	1.94
10700544--10700661	46	2.5	48	84	5	152	25	27	16	29	1.97
10710726--10710789	24	2.6	25	85	5	85	28	23	25	23	2.00
10710998--10711113	27	4.3	27	86	1	117	25	21	17	35	1.95
10711093--10711219	27	4.7	28	78	7	120	29	8	20	41	1.82
10711152--10711251	27	3.7	27	77	5	94	28	6	22	44	1.76
10711152--10711260	54	2.0	54	82	3	130	27	6	23	42	1.79
10711201--10711287	27	3.2	27	80	3	86	33	6	24	35	1.82
10711239--10711395	27	5.8	27	88	0	215	40	8	22	28	1.84
10711373--10711617	128	1.9	130	88	4	379	33	12	22	31	1.91
10711590--10711645	28	2.0	28	100	0	112	39	21	25	14	1.91
10713307--10713355	6	8.0	6	78	13	55	48	16	16	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10713288--10713355	31	2.2	31	89	0	100	48	14	19	17	1.81
10713901--10714107	27	7.6	28	88	5	291	27	22	16	33	1.96
10713901--10714107	83	2.5	81	88	6	292	27	22	16	33	1.96
10714808--10714888	27	3.0	27	83	0	99	30	7	19	41	1.79
10714817--10714956	27	5.2	26	81	4	100	32	7	23	36	1.82
10714853--10715011	81	2.0	81	84	2	212	38	6	22	32	1.81
10714881--10715025	27	5.4	27	85	0	182	38	7	22	31	1.82
10714853--10715065	81	2.6	81	78	8	202	37	7	22	33	1.82
10715035--10715146	27	4.1	27	83	5	145	33	7	20	39	1.80
10717336--10717423	46	1.9	46	95	0	158	32	18	20	28	1.96
10719128--10719202	27	2.8	27	89	0	123	41	8	20	30	1.81
10723572--10723642	37	1.9	37	97	0	133	30	22	19	26	1.98
10728901--10729918	509	2.0	509	99	0	2027	41	22	7	28	1.81
10746166--10746328	42	3.9	42	82	4	193	30	14	23	32	1.94
10753210--10753371	42	3.8	42	87	1	234	29	13	25	31	1.94
10753210--10753367	85	1.9	84	87	1	235	29	13	25	31	1.93
10755000--10755150	43	3.5	43	72	10	139	35	25	14	24	1.93
10754976--10755148	43	4.0	42	73	7	123	36	24	14	24	1.93
10754976--10755148	86	2.0	85	84	7	226	36	24	14	24	1.93
10759321--10759416	50	1.9	50	80	4	113	22	27	17	32	1.97
10759322--10759692	48	7.7	48	76	1	312	26	27	16	29	1.97
10759322--10759694	96	3.9	96	89	0	503	26	27	17	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10780274--10780313	16	2.5	16	91	0	62	37	2	2	57	1.26
10780274--10780313	8	5.0	8	84	0	53	37	2	2	57	1.26
10782205--10782265	28	2.2	28	81	0	77	32	3	11	52	1.54
10783209--10783250	21	2.0	21	85	0	57	28	2	2	66	1.16
10786681--10786733	26	2.0	26	92	0	88	39	9	28	22	1.85
10791759--10791796	18	2.1	18	90	0	58	34	0	15	50	1.45
10792943--10793020	41	1.9	41	84	5	104	20	19	29	30	1.97
10795321--10795753	48	9.0	48	81	4	354	27	19	28	24	1.99
10795331--10795748	144	2.9	144	80	1	444	27	19	28	24	1.99
10804953--10804992	16	2.4	16	87	8	53	42	27	15	15	1.86
10809615--10810142	264	2.0	264	98	0	1029	33	14	26	25	1.94
10812086--10812347	39	6.7	40	87	7	337	25	22	27	24	2.00
10824221--10824443	122	1.8	121	88	1	340	39	10	21	29	1.86
10824493--10824606	56	2.1	55	95	3	210	51	4	26	16	1.63
10831576--10831710	51	2.9	44	75	14	128	23	16	28	31	1.96
10831620--10831719	51	2.0	51	84	4	130	25	16	27	32	1.96
10838579--10838686	43	2.5	44	83	5	141	20	18	30	30	1.96
10841341--10841424	34	2.5	34	84	0	105	27	23	17	30	1.97
10847059--10847385	48	6.8	47	78	10	231	25	21	29	23	1.99
10847107--10847378	96	2.8	96	84	0	337	24	21	30	23	1.99
10847114--10847384	144	1.9	144	83	0	353	23	21	30	23	1.99
10850721--10850805	44	1.9	44	88	9	129	22	21	27	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10855459--10855525	34	2.0	33	100	0	125	20	14	32	29	1.93
10858699--10858791	44	2.1	45	88	6	136	22	17	26	33	1.96
10863571--10863619	25	2.0	25	88	8	73	48	0	10	40	1.37
10864577--10864648	35	2.1	35	89	0	108	29	16	25	29	1.97
10866384--10866503	29	4.2	29	84	3	154	28	30	13	28	1.94
10869438--10869588	27	5.7	26	72	9	108	40	24	7	27	1.83
10869438--10869605	81	2.1	80	82	3	194	41	23	7	27	1.81
10869459--10869605	27	5.5	26	79	6	150	40	23	6	29	1.80
10869430--10869606	54	3.3	54	81	5	207	40	23	7	29	1.81
10869584--10869777	27	7.2	27	86	0	235	30	21	6	41	1.77

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