genome.fa.s4.2.7.7.80.10.50.1000.172.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  172  of  235  ( 28198 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)
58393783--58393815	9	3.7	9	91	0	57	39	24	12	24	1.89
58393783--58393817	18	1.9	18	100	0	70	37	22	11	28	1.89
58394130--58394180	20	2.5	20	90	0	75	17	33	27	21	1.96
58394244--58394268	13	1.9	13	100	0	50	0	48	28	24	1.52
58396938--58397302	49	7.6	49	94	2	616	32	7	29	29	1.86
58400722--58400760	21	1.9	21	94	5	71	20	30	38	10	1.86
58402046--58402221	46	3.8	46	76	7	185	25	27	19	26	1.99
58402046--58402216	93	1.8	93	88	0	261	25	27	19	26	1.99
58406024--58406049	12	2.2	12	100	0	52	23	0	30	46	1.53
58407308--58407471	40	4.1	40	93	1	258	22	23	28	25	1.99
58415008--58415136	49	2.7	49	78	7	124	26	31	10	32	1.89
58419128--58419152	8	3.1	8	100	0	50	24	0	40	36	1.55
58420123--58420180	25	2.4	26	83	13	79	81	1	6	10	0.95
58420123--58420166	18	2.4	18	85	7	54	79	2	6	11	1.01
58423746--58423803	25	2.4	26	83	13	79	81	1	8	8	0.96
58423746--58423789	18	2.4	18	85	7	54	79	2	6	11	1.01
58427758--58429344	793	2.0	793	99	0	3147	32	16	18	32	1.94
58429486--58429518	13	2.6	13	90	4	50	48	12	0	39	1.40
58433994--58434049	20	2.8	21	89	8	89	23	32	35	8	1.86
58435324--58435537	94	2.3	94	79	0	212	26	26	19	28	1.99
58439019--58439191	46	3.7	46	80	13	219	21	21	28	28	1.98
58439016--58439186	93	1.8	93	96	0	315	21	21	29	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58452074--58452155	25	3.3	25	78	10	87	23	21	21	32	1.98
58461874--58462033	44	3.7	43	72	14	132	24	14	26	35	1.94
58461874--58462043	42	4.0	43	72	15	145	24	14	26	35	1.93
58463328--58463405	39	2.0	39	100	0	156	25	25	15	33	1.95
58468436--58468460	13	1.9	13	100	0	50	32	0	20	48	1.50
58470748--58470786	19	2.0	20	90	5	62	41	15	7	35	1.76
58471358--58471397	19	2.0	20	85	4	55	57	17	2	22	1.52
58488041--58488077	18	2.1	18	94	0	65	35	27	18	18	1.95
58488089--58488206	47	2.5	47	95	0	209	35	14	23	26	1.93
58488185--58488381	54	3.6	54	83	6	238	36	18	23	21	1.95
58488193--58488411	108	2.0	109	84	4	282	36	18	23	21	1.94
58502364--58502399	18	2.1	18	94	5	65	16	19	8	55	1.66
58513160--58513217	28	2.1	28	96	0	107	31	15	25	27	1.96
58520283--58520319	15	2.5	15	90	0	65	35	40	16	8	1.78
58522667--58522839	48	3.6	48	84	2	188	29	27	17	25	1.98
58524259--58524521	40	6.6	39	86	4	278	25	27	21	25	1.99
58524259--58524521	120	2.2	119	82	4	307	25	27	21	25	1.99
58524453--58524530	40	1.9	41	82	10	97	26	28	20	24	1.99
58532207--58532378	40	4.3	40	88	2	222	25	27	21	25	1.99
58532209--58532431	40	5.6	39	83	5	216	25	27	21	25	1.99
58532207--58532431	80	2.8	79	80	7	240	25	27	21	25	1.99
58532363--58532440	40	1.9	41	82	10	97	26	28	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58538786--58539059	48	5.8	48	73	10	197	29	26	20	23	1.98
58554972--58555233	39	6.7	40	88	7	337	24	27	22	25	2.00
58561155--58561187	16	2.1	16	100	0	66	18	45	18	18	1.86
58566443--58566623	40	4.6	40	78	12	176	24	21	27	26	1.99
58574364--58574573	40	5.3	39	89	4	242	25	21	27	25	1.99
58574311--58574573	120	2.2	120	82	4	309	25	21	27	25	1.99
58574312--58574608	80	3.7	80	81	6	230	26	21	27	24	1.99
58579459--58579483	13	1.9	13	100	0	50	8	40	36	16	1.77
58579543--58579656	55	2.1	55	86	0	156	13	26	31	28	1.93
58589151--58589221	19	3.8	18	78	14	65	18	4	0	77	0.93
58589153--58589232	36	2.2	36	80	10	94	20	5	0	75	0.99
58591140--58591389	129	1.9	129	92	1	421	23	32	24	20	1.98
58594256--58594358	46	2.2	48	87	3	147	35	14	24	25	1.93
58594256--58594394	46	3.0	46	81	4	143	35	15	23	25	1.94
58601689--58601721	16	2.1	16	100	0	66	36	0	30	33	1.58
58602372--58602560	40	4.7	40	91	2	274	22	22	28	26	1.99
58602562--58602717	47	3.3	47	90	0	240	32	7	31	29	1.84
58610591--58610746	82	1.9	81	85	3	215	26	16	28	28	1.97
58610590--58610743	55	2.9	52	82	7	175	27	16	27	27	1.97
58610591--58610746	27	5.7	27	81	6	163	26	16	28	28	1.97
58610583--58610767	27	6.8	27	75	9	101	26	16	28	29	1.97
58610583--58610767	82	2.3	81	78	2	210	26	16	28	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58624796--58624873	39	2.0	39	89	0	120	34	21	12	30	1.91
58635608--58635685	38	2.1	38	87	0	111	32	11	17	38	1.86
58636595--58637562	47	20.5	47	97	1	1731	32	10	27	29	1.90
58637692--58637807	37	3.1	37	89	0	178	23	19	31	25	1.98
58646491--58646548	6	9.5	6	73	3	53	15	5	3	75	1.11
58654161--58654215	29	1.9	29	88	3	85	41	1	5	50	1.36
58654163--58654223	29	2.1	28	81	3	68	47	1	3	47	1.28
58655609--58655642	18	1.9	17	94	5	59	64	0	8	26	1.22
58658373--58658397	13	1.9	13	100	0	50	56	16	12	16	1.68
58658408--58658514	34	3.2	33	82	5	115	35	8	11	44	1.70
58658644--58658685	22	1.9	22	85	0	57	21	21	21	35	1.96
58658692--58658839	62	2.4	63	82	8	196	31	20	11	35	1.89
58662280--58662344	20	3.3	19	81	12	78	26	4	7	61	1.43
58662670--58662894	20	11.6	20	70	13	105	20	12	7	59	1.57
58662766--58662894	58	2.2	58	84	4	161	19	11	8	60	1.56
58668525--58668590	33	2.0	33	90	0	105	34	18	4	42	1.70
58671107--58671765	43	15.6	43	88	3	924	16	31	36	15	1.90
58671107--58671753	84	7.6	84	93	2	992	16	31	36	15	1.90
58671095--58671816	84	8.5	86	90	3	559	17	31	35	15	1.91
58672504--58672624	58	2.1	59	90	1	190	23	17	24	33	1.96
58672659--58672712	24	2.2	24	80	0	63	18	27	38	14	1.90
58680491--58681439	43	22.0	42	80	4	483	18	32	31	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58680522--58681397	86	10.2	86	87	5	979	18	32	31	17	1.94
58681664--58681735	35	2.1	35	89	5	110	37	12	25	25	1.91
58686891--58686960	35	2.0	35	91	5	115	38	11	22	27	1.89
58698951--58698987	19	1.9	19	89	10	58	72	2	18	5	1.15
58699660--58699731	34	2.1	34	82	5	83	38	4	19	37	1.71
58706316--58706415	23	4.3	23	72	6	76	34	20	22	24	1.97
58712758--58712852	47	2.0	47	85	4	129	47	14	17	20	1.83
58715593--58715764	40	4.3	39	84	2	191	27	27	20	23	1.99
58715593--58715764	80	2.2	80	85	4	222	27	27	20	23	1.99
58718548--58718707	85	1.9	85	81	5	198	27	24	20	27	1.99
58721972--58722029	26	2.2	26	87	6	82	24	25	15	34	1.95
58723292--58723365	37	2.0	37	100	0	148	43	2	13	40	1.58
58724527--58724554	7	4.0	7	100	0	56	14	0	42	42	1.45
58729060--58729217	43	3.7	42	76	12	153	25	19	23	31	1.98
58733994--58734574	40	14.6	40	96	0	1065	26	25	22	24	2.00
58742571--58742794	40	5.6	40	84	6	283	26	25	22	25	2.00
58742571--58742784	83	2.7	80	87	5	281	26	26	22	24	2.00
58745107--58745217	56	2.0	56	96	0	204	28	2	26	42	1.69
58745393--58745453	27	2.3	27	100	0	122	9	19	39	31	1.84
58751227--58751402	46	3.8	46	80	5	212	21	21	29	28	1.98
58751223--58751394	93	1.8	93	92	2	292	20	21	30	27	1.98
58752757--58752832	38	2.0	38	94	0	134	40	5	30	23	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58761356--58761395	18	2.2	19	86	4	55	42	22	7	27	1.80
58764260--58764292	15	2.2	15	100	0	66	30	15	18	36	1.91
58771089--58772091	511	2.0	510	81	3	1169	31	22	17	27	1.97
58773688--58773725	20	1.9	20	84	10	51	34	2	5	57	1.35
58776410--58776449	21	1.9	21	84	0	53	52	10	5	32	1.56
58777833--58777921	29	3.0	29	80	8	92	59	3	14	22	1.50
58777843--58777940	29	3.4	30	80	5	112	59	3	13	24	1.49
58777924--58778014	15	6.1	15	71	19	64	63	3	8	24	1.38
58778027--58778098	13	6.1	12	73	23	64	59	0	13	26	1.35
58778031--58778105	37	2.1	35	80	9	80	61	0	16	22	1.34

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