genome.fa.s2.2.7.7.80.10.50.1000.140.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  140  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)
45866557--45866648	27	3.4	27	89	3	123	36	19	22	20	1.95
45867449--45867584	26	5.3	26	83	5	172	28	18	22	30	1.97
45867449--45867584	52	2.7	52	88	6	208	28	18	22	30	1.97
45867680--45867771	42	2.2	42	90	0	139	30	14	20	34	1.92
45867795--45867873	31	2.5	31	95	0	140	29	17	26	26	1.98
45870097--45870215	27	4.4	28	79	9	104	39	19	10	31	1.85
45870092--45870215	54	2.3	54	81	4	151	38	19	9	32	1.84
45870192--45870535	27	12.8	27	85	3	417	28	22	9	40	1.84
45870192--45870536	107	3.2	106	82	8	403	28	22	8	40	1.84
45870494--45870600	27	4.0	27	79	6	101	40	21	6	31	1.79
45870611--45870662	27	1.9	27	92	0	86	40	11	11	36	1.78
45870716--45870807	27	3.4	27	87	3	123	32	20	27	19	1.97
45871609--45871744	52	2.7	51	90	5	215	27	20	23	27	1.99
45871609--45871744	26	5.3	26	86	3	181	27	20	23	27	1.99
45871882--45871970	42	2.1	42	85	0	115	29	13	20	37	1.91
45871992--45872066	31	2.4	31	90	0	123	30	17	25	26	1.97
45873330--45873436	54	2.0	54	96	0	196	21	7	34	36	1.82
45873561--45874127	284	2.0	284	98	0	1098	26	13	28	31	1.94
45874629--45874682	27	2.0	27	85	3	72	42	18	9	29	1.81
45874637--45874726	27	3.3	27	81	6	94	43	17	7	31	1.78
45874732--45874941	27	7.8	27	88	3	255	28	22	9	40	1.85
45874901--45874979	27	2.9	27	78	0	68	39	18	7	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45874921--45875171	54	4.6	54	79	4	195	39	21	8	30	1.83
45874928--45875144	81	2.7	81	92	0	290	39	21	9	29	1.84
45874935--45875144	27	7.8	27	81	8	248	40	21	9	29	1.84
45875180--45875231	27	1.9	27	88	0	77	40	13	11	34	1.81
45875285--45875376	27	3.4	27	87	3	123	34	20	25	19	1.96
45876178--45876313	52	2.7	51	90	5	215	27	20	23	27	1.99
45876178--45876313	26	5.3	26	87	3	181	27	20	23	27	1.99
45876454--45876537	42	2.0	42	85	0	114	29	13	19	38	1.89
45878031--45878113	30	2.7	31	87	3	125	25	26	18	30	1.98
45878327--45878404	25	3.2	25	85	5	106	25	21	23	29	1.99
45878452--45878500	11	4.7	11	80	12	59	34	20	10	34	1.86
45878536--45878584	25	2.0	25	87	0	71	26	14	22	36	1.92
45880275--45880403	47	2.7	48	83	8	156	24	19	28	27	1.99
45885045--45885084	19	2.2	18	86	4	53	25	7	2	65	1.32
45885156--45885220	6	10.3	6	71	15	51	15	3	6	75	1.12
45885156--45885243	18	4.6	19	73	20	60	17	4	4	73	1.16
45885156--45885201	24	1.9	24	86	0	65	17	0	4	78	0.91
45886471--45886496	13	2.0	13	100	0	52	38	23	15	23	1.92
45886729--45886757	11	2.6	11	100	0	58	27	0	13	58	1.36
45889758--45889928	31	5.5	31	91	0	261	29	24	15	29	1.96
45890135--45890217	24	3.4	24	81	6	87	25	20	22	31	1.98
45890148--45890216	25	2.8	24	88	2	93	24	20	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45891025--45891089	27	2.4	27	82	5	78	21	24	18	35	1.96
45891119--45891451	27	12.3	27	77	5	215	30	9	20	39	1.84
45891094--45891437	81	4.2	81	74	8	261	30	9	19	40	1.84
45891127--45891442	54	5.8	54	75	5	253	31	9	18	40	1.82
45891428--45891558	27	4.9	27	84	1	165	40	6	22	31	1.78
45891401--45891558	54	2.9	54	80	0	165	38	6	22	32	1.79
45896439--45896472	18	1.9	18	88	5	52	29	17	11	41	1.85
45897477--45897568	28	3.2	28	83	7	105	27	31	13	28	1.93
45899994--45900019	6	4.3	6	100	0	52	0	15	15	69	1.20
45905162--45905189	13	2.2	13	100	0	56	28	7	25	39	1.82
45910576--45910609	6	5.7	6	96	0	59	0	20	11	67	1.21
45911742--45911806	34	1.9	33	87	3	94	29	23	26	21	1.99
45913122--45913185	31	2.1	31	93	0	110	23	23	15	37	1.93
45913376--45913514	23	6.0	23	89	4	208	30	23	20	25	1.99
45921201--45921264	31	2.1	31	87	0	92	23	20	18	37	1.94
45921456--45921594	23	6.0	23	88	4	199	30	21	20	26	1.98
45921645--45921711	20	3.3	20	93	0	116	32	20	11	34	1.90
45921645--45921700	11	5.5	11	71	16	57	32	19	12	35	1.89
45921748--45921795	25	1.9	25	86	0	69	25	12	25	37	1.91
45930885--45930921	18	2.1	19	85	10	51	27	13	13	45	1.81
45932661--45932847	101	1.9	99	85	4	259	28	28	17	26	1.97
45934501--45934569	30	2.3	31	80	14	83	60	18	13	7	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45938007--45938095	28	3.1	28	82	6	99	29	28	12	30	1.93
45939490--45939520	16	1.9	16	100	0	62	29	25	12	32	1.93
45939553--45939635	25	3.4	24	85	8	96	27	21	24	26	1.99
45939770--45939861	42	2.2	42	92	0	148	28	14	22	34	1.93
45942893--45942973	31	2.6	31	92	0	135	29	16	24	29	1.96
45944508--45944725	42	5.2	42	96	0	373	30	15	19	35	1.92
45944749--45944823	31	2.4	31	93	0	132	29	16	26	28	1.96
45946091--45946179	45	2.0	45	97	0	169	23	19	29	28	1.98
45948242--45948812	283	2.0	283	98	0	1115	31	12	26	29	1.93
45949017--45949048	16	2.0	16	93	0	55	34	25	9	31	1.87
45949296--45949387	42	2.2	42	92	3	150	28	14	22	34	1.93
45949411--45949489	31	2.5	31	95	0	149	29	18	25	26	1.98
45950456--45950498	16	2.7	16	85	0	50	11	13	16	58	1.64
45951169--45951210	21	2.0	21	90	0	66	50	4	33	11	1.60
45954928--45955049	48	2.7	43	78	13	115	25	24	22	27	2.00
45954972--45955196	48	4.8	47	74	9	185	26	27	20	25	1.99
45957259--45957428	90	1.9	90	86	2	241	30	18	27	24	1.98
45957262--45957471	48	4.5	45	78	8	208	29	19	27	24	1.98
45966737--45966844	47	2.3	47	93	0	180	26	30	7	35	1.84
45966768--45966916	80	1.9	78	92	2	253	26	28	12	32	1.92
45966846--45967077	49	4.8	49	88	5	355	28	29	11	31	1.91
45971731--45971941	46	4.5	45	75	10	192	30	20	27	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45976823--45977232	204	2.0	204	98	0	784	28	31	15	25	1.96
45977319--45977376	27	2.1	27	83	3	71	22	18	17	41	1.90
45978227--45978265	20	1.9	21	84	5	53	35	23	10	30	1.88
45979388--45979423	15	2.4	15	100	0	72	63	0	11	25	1.27
45980574--45980841	49	5.6	49	91	2	413	34	8	29	28	1.86
45983777--45983978	43	4.7	44	83	6	243	28	14	23	33	1.94
45988883--45988962	15	5.4	15	77	7	83	10	18	13	57	1.64
45988874--45988961	30	3.0	30	80	11	92	10	18	15	55	1.68
45995534--45995705	94	1.8	94	93	2	301	29	30	19	20	1.97
45995525--45995701	46	3.8	46	77	10	180	30	30	19	19	1.96
45998406--45998448	12	3.6	12	96	0	77	25	44	18	11	1.84
46006396--46006443	25	1.9	25	86	0	69	37	16	10	35	1.83
46014278--46014465	40	4.7	40	80	3	218	27	27	22	23	1.99
46014265--46014465	80	2.5	80	94	0	348	28	26	21	23	1.99
46017778--46017825	24	2.0	24	95	0	87	22	25	16	35	1.95
46032760--46032931	40	4.3	40	83	5	206	27	26	22	23	1.99
46039110--46039156	19	2.4	20	92	3	78	25	10	14	48	1.76
46039239--46039275	18	2.1	18	100	0	74	48	0	0	51	1.00
46050312--46050379	33	2.1	33	97	0	127	41	5	26	26	1.78
46054297--46054517	40	5.6	40	79	7	229	24	23	27	24	2.00
46054297--46054517	80	2.8	79	84	4	259	24	23	27	24	2.00
46064537--46064572	16	2.3	15	86	9	54	52	22	19	5	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46064783--46064840	29	2.0	28	83	9	73	32	15	25	25	1.95
46064827--46064906	29	2.8	29	84	0	106	31	15	28	25	1.95
46070746--46070845	47	2.1	48	86	1	139	29	25	20	26	1.99
46073638--46073828	53	3.5	53	76	3	148	36	18	23	21	1.95
46086758--46086783	11	2.4	11	100	0	52	46	15	0	38	1.46
46091075--46091250	46	3.8	46	75	12	171	30	30	19	19	1.97
46093632--46093720	30	3.0	29	76	15	85	59	15	15	8	1.60
46093632--46093711	15	5.4	15	77	12	76	61	13	16	8	1.56
46093643--46093720	15	5.2	15	76	11	63	58	15	15	10	1.62
46096310--46096358	23	2.1	23	100	0	98	44	16	16	22	1.86

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