genome.fa.s2.2.7.7.80.10.50.1000.15.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  15  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)
4113033--4113092	23	2.6	23	84	7	68	20	3	1	75	1.04
4120143--4120222	37	2.1	38	95	4	153	45	15	2	37	1.59
4121609--4121654	16	2.8	17	80	3	58	69	8	4	17	1.31
4127208--4127262	27	2.0	27	89	0	83	30	21	18	29	1.97
4143543--4143616	18	4.1	18	82	0	85	37	16	16	29	1.90
4147707--4148008	153	2.0	153	84	3	394	25	21	17	35	1.95
4149847--4149891	22	2.0	22	100	0	90	35	4	17	42	1.70
4164038--4164074	15	2.3	17	86	9	51	51	0	27	21	1.48
4177234--4177334	9	10.7	9	72	17	53	25	2	3	67	1.22
4177253--4177514	3	87.0	3	69	16	98	28	6	4	61	1.40
4177253--4177333	23	3.6	21	80	12	72	27	2	3	66	1.21
4177262--4177333	20	3.7	20	83	1	74	27	2	4	65	1.25
4177284--4177331	17	2.8	17	81	6	53	31	2	6	60	1.33
4179853--4179883	2	15.5	2	100	0	62	0	48	0	51	1.00
4184283--4184308	12	2.2	12	100	0	52	19	15	26	38	1.91
4187586--4187620	14	2.4	15	85	9	54	62	0	0	37	0.95
4196174--4196203	12	2.5	12	94	0	51	16	13	16	53	1.73
4198553--4198591	18	2.2	17	86	13	53	33	0	20	46	1.51
4198596--4198743	75	2.0	75	100	0	296	37	8	21	33	1.83
4198892--4198989	23	4.3	23	90	2	162	20	21	26	31	1.98
4198894--4198982	45	2.0	45	95	0	160	19	22	26	31	1.97
4214330--4214360	12	2.6	12	94	0	53	16	22	35	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4214373--4214441	29	2.4	29	97	0	129	13	28	39	18	1.88
4219183--4219234	16	3.2	16	83	5	68	9	25	0	65	1.23
4222491--4222548	29	2.0	30	89	3	91	27	22	12	37	1.89
4236993--4237305	155	2.0	155	89	1	484	30	21	29	19	1.97
4240898--4240934	11	3.3	11	85	7	56	37	13	24	24	1.91
4242337--4242394	29	2.0	29	93	0	98	25	15	20	37	1.92
4243626--4244174	276	2.0	276	96	0	1019	37	10	21	30	1.87
4244605--4244652	25	2.0	24	91	4	78	35	0	14	50	1.44
4246105--4246473	153	2.4	153	91	2	582	25	20	15	38	1.92
4250403--4250601	41	4.9	41	88	3	287	16	17	29	37	1.91
4250407--4250601	81	2.4	82	87	4	279	16	16	28	38	1.91
4250407--4250678	122	2.2	122	80	6	284	17	19	26	36	1.94
4251039--4251119	23	3.5	23	71	22	71	23	2	24	49	1.62
4251130--4251170	22	1.9	21	85	14	57	19	0	24	56	1.42
4253820--4253856	12	3.1	12	100	0	74	18	16	16	48	1.81
4255021--4255078	29	2.0	29	100	0	116	31	24	3	41	1.71
4255208--4255264	9	6.7	9	76	9	57	42	12	1	43	1.52
4255231--4255262	16	2.0	16	93	0	55	46	12	0	40	1.42
4255357--4255426	12	6.0	12	78	6	72	47	18	2	31	1.63
4255480--4256025	9	60.0	9	77	6	528	47	18	3	31	1.65
4255492--4256025	100	5.3	99	84	5	635	47	18	3	31	1.65
4255894--4256014	64	1.9	65	84	1	163	46	17	4	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4259685--4259816	66	2.0	66	91	2	212	41	18	25	14	1.88
4260174--4260361	43	4.4	43	84	7	215	27	18	25	28	1.98
4260170--4260361	83	2.3	85	87	6	266	27	18	26	27	1.98
4266385--4266678	147	2.0	147	99	0	579	29	16	21	31	1.95
4270749--4270789	21	2.0	21	81	18	50	31	19	26	21	1.97
4273921--4274101	43	4.2	43	87	2	263	20	24	19	34	1.96
4273921--4274101	88	2.1	86	88	2	263	20	24	19	34	1.96
4274396--4274454	21	2.8	21	89	0	91	0	50	23	25	1.49
4274844--4274872	13	2.1	14	93	6	51	55	10	0	34	1.34
4274869--4274907	17	2.2	19	86	9	55	58	0	2	38	1.12
4277674--4277746	9	8.6	9	83	11	100	31	0	20	47	1.50
4277662--4277746	16	5.0	17	80	15	79	32	0	18	48	1.49
4277667--4277746	25	3.2	25	94	0	142	31	0	20	48	1.49
4278362--4278451	30	2.8	31	72	14	85	56	13	16	13	1.67
4287190--4287558	153	2.4	153	90	2	564	26	20	15	38	1.92
4287190--4287607	153	2.7	152	85	3	545	25	20	15	38	1.92
4290825--4291805	153	6.4	153	96	1	1731	26	20	15	37	1.93
4303874--4303984	41	2.7	41	98	0	213	30	22	18	27	1.98
4305902--4305941	3	13.3	3	83	0	53	32	5	0	62	1.17
4309885--4309932	25	1.9	25	91	8	80	33	0	14	52	1.42
4311372--4311743	153	2.4	155	90	3	572	25	20	15	38	1.92
4317758--4317793	12	3.0	12	95	0	63	30	8	0	61	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4319252--4319306	14	4.0	14	76	9	51	14	5	1	78	1.02
4322721--4324617	841	2.3	841	97	0	3532	34	17	11	35	1.87
4325044--4325153	54	2.1	54	94	1	195	26	11	13	48	1.77
4325055--4325167	53	2.1	54	86	3	156	30	13	10	46	1.77
4330708--4330754	3	15.7	3	100	0	94	34	0	0	65	0.93
4331190--4331218	6	4.8	6	100	0	58	34	13	0	51	1.42
4331270--4331307	19	2.0	20	89	5	60	42	7	0	50	1.31
4338280--4338366	44	2.0	42	91	4	138	32	14	13	36	1.86
4339938--4339984	18	2.6	17	83	12	51	21	4	0	74	0.99
4339938--4339985	23	2.1	23	81	14	55	20	4	0	75	0.97
4339954--4339986	6	5.7	6	89	3	50	15	3	0	81	0.80
4340425--4340463	3	13.0	3	100	0	78	66	0	0	33	0.92
4343278--4343387	49	2.2	49	88	3	159	50	16	21	10	1.75
4343385--4343414	16	1.9	15	93	6	51	83	3	13	0	0.77
4343373--4343416	19	2.4	19	80	3	54	84	2	13	0	0.73
4343489--4343568	41	1.9	42	89	2	126	30	16	30	23	1.96
4344726--4344906	89	2.0	89	84	4	231	28	23	24	23	1.99
4345356--4345940	44	13.7	43	65	15	158	32	19	20	26	1.97
4345093--4346288	128	9.3	128	90	0	1802	33	20	19	26	1.97
4346921--4346985	27	2.4	26	80	7	76	13	12	0	73	1.09
4347776--4347801	3	8.7	3	100	0	52	34	0	0	65	0.93
4348237--4348265	6	4.8	6	100	0	58	34	13	0	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4348317--4348354	19	2.0	20	89	5	60	42	7	0	50	1.31
4352754--4352814	30	2.0	30	90	0	95	19	34	32	13	1.90
4353471--4353495	12	2.1	12	100	0	50	40	0	0	60	0.97
4367341--4367370	9	3.3	9	90	0	51	26	20	23	30	1.98
4370173--4370197	13	1.9	13	100	0	50	40	44	0	16	1.47
4370296--4370362	9	7.4	9	86	6	91	26	8	20	43	1.82
4372973--4373006	16	2.1	16	88	0	50	20	2	2	73	1.09
4376453--4376536	42	2.0	42	97	0	159	29	23	8	38	1.84
4377214--4377256	18	2.4	18	88	7	61	53	0	0	46	1.00
4378014--4378080	33	2.0	32	83	13	82	64	1	0	34	1.03
4378046--4378152	11	10.4	11	71	23	81	57	0	2	39	1.13
4378045--4378162	39	2.9	40	92	5	193	59	0	2	38	1.11
4380385--4380418	13	2.5	13	90	4	50	17	5	2	73	1.16
4383602--4383890	111	2.6	110	86	2	384	34	20	14	30	1.93
4385586--4385686	44	2.3	44	85	0	130	21	30	19	27	1.98
4385610--4385786	44	4.0	43	79	4	203	23	25	21	29	1.99
4385627--4385819	44	4.4	43	76	4	181	22	24	22	30	1.99
4385452--4385773	175	1.8	175	83	4	425	23	26	20	29	1.99
4385412--4385819	87	4.7	87	76	5	335	23	25	21	29	1.99
4385892--4387261	86	15.9	86	94	0	2319	23	24	22	29	1.99
4388473--4388512	7	6.0	7	82	11	57	15	17	0	67	1.23
4388473--4388512	13	3.0	14	89	7	57	15	17	0	67	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4388473--4388512	20	2.0	20	95	0	71	15	17	0	67	1.23
4392684--4393332	112	5.9	112	92	2	965	35	19	14	30	1.91
4396280--4396331	24	2.2	24	85	0	68	53	9	3	32	1.51
4398015--4398072	24	2.5	24	85	2	73	60	1	1	36	1.17
4398447--4398529	42	2.0	42	85	4	114	40	9	16	32	1.81
4406465--4406522	24	2.4	23	80	8	71	32	1	12	53	1.48
4422328--4422396	18	3.8	18	82	3	77	33	10	23	33	1.88
4426274--4426324	3	17.7	3	86	8	70	62	0	37	0	0.95
4426274--4426324	20	2.5	20	93	0	84	62	0	37	0	0.95
4426266--4426323	17	3.6	17	77	17	70	62	0	37	0	0.96

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