genome.fa.s2.2.7.7.80.10.50.1000.143.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  143  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)
46840981--46841093	29	3.9	29	80	1	129	30	29	15	24	1.95
46845061--46845189	47	2.7	47	83	2	161	31	9	31	27	1.88
46845308--46845387	37	2.2	37	86	4	108	25	17	30	27	1.97
46847771--46847920	48	3.1	48	80	0	156	27	24	20	27	1.99
46852449--46852480	16	2.1	16	94	5	57	37	12	37	12	1.81
46864548--46864699	40	3.8	40	87	2	180	25	27	21	25	1.99
46864548--46864699	80	1.9	80	84	2	207	25	27	21	25	1.99
46870621--46870706	28	3.2	28	69	21	83	29	10	15	45	1.79
46870648--46870724	25	3.0	24	70	17	73	28	10	15	45	1.79
46870616--46870724	53	2.1	53	94	0	191	27	10	15	46	1.78
46870634--46870717	28	3.1	28	72	16	95	25	11	20	42	1.86
46870716--46870753	19	2.1	19	85	5	51	21	2	18	57	1.52
46877376--46877407	5	6.2	5	92	7	55	78	0	21	0	0.76
46877352--46877407	15	3.6	16	80	7	62	69	0	26	3	1.04
46880489--46880688	54	3.7	54	84	4	260	35	17	25	22	1.95
46882280--46882331	26	2.0	26	92	3	88	34	7	17	40	1.78
46884419--46884581	43	3.8	43	78	11	163	25	15	25	33	1.95
46888699--46888852	42	3.7	41	80	5	173	29	14	24	31	1.94
46906744--46906962	46	4.8	45	76	14	182	24	28	19	27	1.99
46906750--46906961	94	2.3	94	84	4	272	25	27	19	27	1.99
46913228--46913284	30	1.9	30	92	0	96	7	33	14	45	1.71
46929113--46929316	28	7.3	28	90	0	309	23	15	33	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46929633--46929997	27	13.6	27	81	7	404	39	18	8	32	1.81
46929633--46930039	27	15.1	27	79	9	137	39	18	9	32	1.84
46929952--46930039	26	3.3	26	82	9	106	36	15	17	30	1.91
46939828--46940003	27	6.5	27	83	3	201	27	14	27	30	1.95
46939829--46939984	82	1.9	81	88	3	233	26	15	28	29	1.96
46939825--46940003	82	2.2	81	82	3	225	27	15	27	30	1.96
46942365--46942992	311	2.0	312	98	0	1213	22	18	30	27	1.98
46943167--46943258	27	3.4	27	83	0	121	30	22	7	39	1.82
46943262--46943439	80	2.2	80	80	10	202	41	21	9	27	1.84
46943257--46943453	27	7.3	27	76	8	170	40	20	10	29	1.85
46943451--46943502	27	1.9	27	88	7	79	40	13	11	34	1.81
46944429--46944524	25	3.9	24	86	8	129	28	25	23	22	2.00
46944429--46944550	25	5.0	23	82	10	109	28	23	23	23	1.99
46944429--46944524	51	1.9	50	87	6	142	28	25	23	22	2.00
46944744--46944821	31	2.5	31	95	2	140	28	19	25	26	1.99
46947106--46947193	27	3.3	27	80	4	106	29	25	6	38	1.81
46947081--46947211	54	2.4	53	73	10	131	32	22	9	35	1.86
46947229--46947328	27	3.7	27	73	5	94	38	23	11	28	1.88
46947330--46947415	27	3.1	27	68	17	68	39	16	9	34	1.80
46947470--46947529	27	2.2	26	77	13	68	38	20	21	20	1.94
46948343--46948437	25	3.8	25	87	4	138	26	24	23	26	2.00
46948343--46948464	25	5.0	23	80	10	109	27	22	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46948343--46948437	51	1.9	50	89	4	147	26	24	23	26	2.00
46948657--46948726	31	2.3	31	89	0	113	30	14	24	31	1.94
46950364--46950435	27	2.6	27	80	12	76	44	22	20	12	1.85
46953065--46953209	27	5.4	27	88	0	182	35	17	21	25	1.95
46953065--46953209	54	2.7	54	90	0	218	35	17	21	25	1.95
46953534--46953627	28	3.4	28	89	0	134	22	22	25	29	1.99
46958021--46958103	41	2.0	41	97	0	157	31	6	22	39	1.78
46958153--46958297	72	2.0	72	93	0	245	22	25	28	24	1.99
46968779--46969070	145	2.0	145	92	1	487	47	13	11	28	1.77
46969966--46970014	24	2.0	24	92	0	80	22	16	22	38	1.92
46969970--46970025	24	2.3	24	84	6	69	23	23	19	33	1.97
46970129--46970166	20	1.9	20	88	0	58	36	2	10	50	1.51
46984765--46984855	40	2.3	40	92	3	148	27	28	19	24	1.99
46986794--46986838	23	1.9	24	90	4	74	22	24	11	42	1.86
46986969--46987103	53	2.5	53	80	4	155	24	22	18	34	1.96
46986969--46987117	55	2.8	51	76	8	145	23	22	17	36	1.95
46986969--46987165	108	1.8	108	82	10	260	23	22	18	35	1.96
46995304--46995468	23	7.3	23	73	12	144	30	20	22	26	1.98
46995291--46995468	46	3.9	46	88	3	245	29	20	21	28	1.98
46998490--46998590	50	2.0	50	100	0	202	23	27	15	32	1.95
46998748--46998835	46	1.9	46	92	0	149	26	21	13	38	1.91
46999456--46999656	101	2.0	101	97	0	375	36	19	19	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46999735--46999915	40	4.6	40	87	2	249	26	25	22	25	2.00
47002271--47002401	40	3.3	40	91	0	190	25	28	22	24	1.99
47010139--47010401	40	6.6	40	87	3	309	26	28	20	23	1.99
47017100--47017280	40	4.6	40	85	4	242	25	25	23	24	2.00
47024602--47024676	37	2.0	37	84	0	96	44	30	8	17	1.77
47026187--47026232	21	2.3	20	78	14	51	45	17	6	30	1.73
47026806--47026858	10	5.1	10	80	8	52	58	1	1	37	1.20
47026816--47026859	22	2.0	22	95	0	79	54	2	0	43	1.12
47035699--47035723	5	5.0	5	100	0	50	0	40	0	60	0.97
47037346--47037570	49	4.5	48	84	7	272	31	23	18	26	1.97
47040719--47040770	26	2.0	26	96	0	95	17	28	23	30	1.97
47044843--47045029	50	3.8	48	81	7	196	30	25	18	25	1.98
47044846--47045028	101	1.8	101	89	2	287	30	25	18	25	1.98
47047899--47047933	17	2.1	17	94	0	61	40	14	17	28	1.88
47051942--47052114	46	3.7	46	77	13	201	22	20	27	28	1.99
47051939--47052109	93	1.8	93	94	0	306	22	21	28	28	1.99
47052339--47052376	19	2.0	20	85	15	53	36	0	23	39	1.55
47055163--47055229	26	2.6	26	92	0	107	40	13	20	25	1.89
47060693--47060809	56	2.1	56	98	0	225	45	9	23	22	1.81
47061989--47062588	40	15.0	40	96	1	1080	23	22	27	27	1.99
47063628--47063871	40	6.2	40	82	4	262	23	20	27	28	1.99
47063670--47063871	80	2.5	80	93	0	334	24	20	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47063989--47064100	56	2.0	56	96	0	206	26	13	19	40	1.89
47064676--47064858	89	2.1	88	95	1	330	38	10	23	27	1.87
47069089--47069228	23	6.0	23	90	4	201	29	22	20	27	1.98
47069089--47069229	47	3.0	47	90	5	205	29	22	19	28	1.98
47069279--47069345	20	3.3	20	89	0	107	32	20	13	32	1.92
47074513--47074572	8	7.5	8	77	7	50	51	16	21	10	1.73
47074505--47074566	16	3.9	16	80	0	70	53	14	20	11	1.72
47074520--47074572	24	2.2	25	80	16	67	52	16	20	9	1.71
47074795--47074901	29	3.7	29	75	6	110	28	14	32	24	1.95
47074787--47074897	58	1.9	57	81	5	134	29	14	31	24	1.94
47082462--47082611	47	3.2	47	82	7	144	30	25	16	28	1.96
47088663--47088721	30	1.9	31	89	3	93	25	32	20	22	1.98
47095406--47095933	291	1.8	291	94	0	932	22	26	23	27	1.99
47104951--47104985	3	11.7	3	100	0	70	65	0	0	34	0.93
47113809--47113974	86	1.9	87	79	7	185	37	16	12	33	1.85
47114410--47114456	20	2.4	19	82	10	58	36	0	0	63	0.94
47117567--47117780	62	3.5	62	81	3	261	22	26	25	25	2.00
47121035--47121152	46	2.6	45	84	9	141	27	16	29	26	1.97
47128612--47128782	46	3.7	46	77	8	159	28	19	28	23	1.98
47128612--47128782	93	1.8	94	81	10	217	28	19	28	23	1.98
47128614--47128827	47	4.6	46	75	8	164	28	18	28	24	1.98
47129902--47129964	22	2.9	22	88	2	83	9	34	28	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47145841--47146065	62	3.6	62	76	0	216	24	26	22	26	2.00
47150213--47150310	35	2.7	37	87	12	150	37	10	16	35	1.82
47150213--47150303	19	4.9	19	92	8	161	37	10	15	36	1.83
47150213--47150326	19	5.8	22	87	10	96	36	9	15	37	1.81
47150595--47150628	18	1.9	17	88	5	50	29	0	0	70	0.87
47181877--47182281	45	8.9	45	73	8	338	32	16	25	25	1.96
47181877--47182184	137	2.2	137	95	0	544	31	17	25	25	1.97
47182104--47182273	89	1.9	89	92	0	286	32	14	27	26	1.94
47181949--47182293	89	3.8	89	75	7	239	33	16	25	24	1.96
47182638--47182729	18	4.9	19	94	2	161	35	10	17	35	1.85

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