genome.fa.s2.2.7.7.80.10.50.1000.173.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  173  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)
56535829--56535873	24	1.9	23	81	4	54	53	4	0	42	1.21
56541613--56541744	53	2.5	53	88	0	192	32	10	27	29	1.90
56541891--56542001	32	3.5	32	76	6	109	27	13	30	28	1.94
56541964--56542130	61	2.8	61	77	4	185	30	15	25	28	1.96
56542093--56542374	146	1.9	146	82	4	354	31	14	23	31	1.94
56560223--56560256	14	2.5	14	95	4	61	76	0	8	14	1.01
56561196--56561267	35	2.1	34	84	2	90	26	23	23	26	2.00
56561610--56561652	20	2.2	20	100	0	86	39	23	16	20	1.92
56564237--56564267	15	2.1	15	93	0	53	83	0	0	16	0.64
56569776--56569823	23	2.1	23	88	0	69	22	10	47	18	1.79
56569788--56569835	23	2.1	23	88	0	69	20	10	50	18	1.76
56572071--56572116	23	2.0	23	100	0	92	21	17	39	21	1.93
56590572--56590623	16	3.2	16	86	0	68	32	0	32	34	1.58
56591194--56591234	19	2.1	20	86	4	57	48	0	4	46	1.23
56594661--56594778	56	2.1	56	81	12	136	42	0	4	52	1.26
56594963--56595013	16	3.2	16	88	0	84	19	37	3	39	1.70
56599813--56599848	17	2.1	17	100	0	72	30	5	11	52	1.59
56599817--56599856	17	2.4	17	91	0	62	27	12	10	50	1.72
56603513--56603574	25	2.5	25	78	0	79	22	19	19	38	1.93
56604890--56604929	21	1.9	21	85	10	55	42	7	15	35	1.75
56618466--56618546	28	2.9	27	88	5	90	32	7	16	44	1.75
56618481--56618546	28	2.4	28	97	0	123	34	9	15	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56623548--56623593	23	2.0	23	87	8	67	63	0	0	36	0.95
56629312--56629372	29	2.1	29	84	3	79	49	8	8	34	1.62
56630810--56630887	15	5.2	15	67	11	61	44	8	21	24	1.81
56630811--56630887	30	2.6	30	93	0	127	44	9	22	24	1.81
56635468--56635551	30	2.8	30	90	0	132	45	7	23	23	1.78
56638565--56638593	15	2.0	15	93	6	51	68	0	0	31	0.89
56639627--56639659	14	2.4	14	94	0	57	15	24	30	30	1.95
56648176--56648218	13	3.3	13	75	12	52	23	9	9	58	1.58
56657318--56657374	29	2.0	29	100	0	114	28	14	19	38	1.90
56659077--56659122	23	2.0	23	100	0	92	39	13	13	34	1.83
56663458--56663514	21	2.7	21	91	8	89	0	15	15	68	1.22
56663784--56663822	16	2.7	15	88	11	55	76	0	5	17	0.96
56664493--56664517	11	2.3	11	100	0	50	28	0	8	64	1.22
56665102--56665141	21	1.9	21	89	0	62	57	0	12	30	1.36
56665266--56665294	14	2.1	14	100	0	58	51	13	0	34	1.42
56666983--56667022	19	2.1	19	90	0	62	52	2	15	30	1.55
56668516--56668548	16	2.1	16	94	0	57	39	12	9	39	1.74
56671811--56671868	29	2.0	29	86	0	80	32	17	6	43	1.75
56678393--56678481	21	4.1	21	84	5	90	12	23	10	53	1.68
56678413--56678481	21	3.3	21	87	2	95	11	24	8	55	1.64
56680840--56680915	18	4.4	18	86	4	95	28	7	26	36	1.84
56689153--56689180	14	2.0	14	100	0	56	14	14	0	71	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56689177--56689255	5	14.2	6	80	17	66	32	2	16	48	1.60
56689178--56689259	11	7.5	11	69	23	50	32	2	17	47	1.60
56689214--56689259	20	2.2	21	92	7	85	32	0	19	47	1.50
56693405--56693551	39	3.8	38	85	8	165	49	5	14	29	1.66
56693405--56693553	76	1.9	78	83	5	196	48	5	16	29	1.67
56694137--56694205	35	2.0	35	83	11	88	24	11	1	62	1.37
56695186--56695224	19	1.9	19	85	10	51	30	20	5	43	1.73
56697924--56697960	15	2.5	16	87	12	53	27	24	5	43	1.76
56697924--56697973	15	3.5	15	79	15	52	28	26	6	40	1.79
56698019--56698047	15	1.9	15	100	0	58	55	0	37	6	1.27
56706284--56706640	87	4.1	87	100	0	714	31	16	19	32	1.94
56706372--56706605	47	5.3	47	65	24	175	32	16	18	32	1.93
56706529--56706935	210	1.9	209	87	3	595	29	18	21	31	1.97
56707130--56707234	45	2.4	45	86	1	140	31	13	32	22	1.93
56707149--56707234	45	1.9	45	92	0	145	27	13	32	25	1.94
56708447--56708556	38	2.8	39	86	2	150	48	4	15	31	1.65
56710675--56710722	25	1.9	25	100	0	96	43	8	6	41	1.60
56715370--56715400	15	2.1	15	100	0	62	54	12	6	25	1.62
56719362--56719419	31	1.9	30	82	3	71	56	12	6	24	1.59
56720584--56720619	18	2.0	18	88	0	54	61	5	0	33	1.19
56727655--56727758	29	3.7	29	69	13	74	43	0	0	55	1.06
56727718--56727742	12	2.1	12	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56729178--56729216	21	1.9	19	85	10	51	17	10	10	61	1.55
56730844--56730881	19	2.0	19	94	0	67	36	18	18	26	1.94
56738706--56738746	11	3.8	11	81	15	50	26	26	0	46	1.53
56739854--56739900	7	6.7	7	90	0	76	27	2	12	57	1.47
56742864--56742893	16	1.9	15	93	6	51	56	10	0	33	1.32
56744181--56744489	126	2.5	126	88	3	453	27	18	15	39	1.90
56744617--56744653	15	2.5	15	90	0	56	51	32	0	16	1.45
56744813--56744865	28	1.9	27	85	11	72	45	15	13	26	1.82
56745250--56745274	12	2.1	12	100	0	50	28	8	24	40	1.83
56745266--56745314	20	2.5	20	89	0	71	34	14	12	38	1.83
56746746--56746847	53	1.9	53	88	4	152	45	14	10	29	1.79
56747938--56748102	54	3.1	52	74	22	153	61	4	1	31	1.27
56748034--56748074	18	2.3	18	87	8	57	68	0	0	31	0.90
56748028--56748107	29	2.7	30	71	11	74	61	1	1	36	1.12
56748985--56749020	19	1.9	18	88	5	54	38	0	2	58	1.13
56749504--56749583	6	13.2	6	73	11	56	73	2	22	1	1.02
56749504--56749605	35	2.9	34	80	11	100	70	1	26	0	1.04
56749504--56749568	26	2.5	26	90	7	96	72	3	24	0	0.99
56749522--56749583	18	3.5	18	77	4	63	74	1	22	1	1.00
56749506--56749565	3	20.7	3	76	6	61	71	3	25	0	1.01
56749523--56749591	29	2.5	27	83	4	75	71	1	26	1	1.03
56757568--56757734	40	4.2	40	87	5	225	23	22	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56757568--56757734	79	2.1	79	85	6	223	23	22	27	26	1.99
56783227--56783289	29	2.2	28	83	11	74	46	0	3	50	1.17
56783227--56783295	31	2.2	31	82	14	81	44	0	2	52	1.16
56783454--56783529	23	3.4	23	63	26	54	32	1	7	57	1.36
56783456--56783544	44	2.0	44	89	4	135	34	2	8	53	1.45
56784049--56784075	13	2.1	13	100	0	54	29	7	22	40	1.81
56789658--56789724	33	2.0	33	100	0	134	34	20	2	41	1.68
56794539--56794660	60	2.0	60	96	0	226	31	22	15	30	1.95
56799902--56799936	11	3.1	11	87	4	52	74	8	11	5	1.22
56805294--56805339	23	2.0	23	83	4	58	21	13	10	54	1.69
56811664--56811752	44	2.0	44	93	0	151	37	21	14	26	1.92
56813383--56813458	39	1.9	39	100	0	152	35	15	15	32	1.90
56821375--56821417	22	2.0	22	81	9	52	44	4	4	46	1.45
56823518--56823581	26	2.5	25	85	9	85	34	17	9	39	1.82
56825394--56825432	12	3.2	12	81	3	51	15	20	0	64	1.30
56829130--56829187	30	1.9	30	86	6	82	20	29	31	18	1.97
56829938--56829962	13	1.9	13	100	0	50	48	8	24	20	1.76
56843135--56843174	20	2.0	21	85	5	55	30	17	30	22	1.97
56845633--56845672	20	2.0	21	90	5	64	30	20	27	22	1.98
56850097--56850258	43	3.8	42	73	13	141	29	12	25	33	1.92
56854007--56854103	25	3.9	25	79	0	104	39	16	23	20	1.92
56853996--56854110	50	2.3	50	86	0	149	37	17	23	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56862866--56862946	40	2.0	40	87	0	117	17	28	18	35	1.93
56863630--56863689	10	6.0	10	83	11	70	21	8	3	66	1.33
56864401--56864434	18	1.9	18	94	5	61	26	11	5	55	1.58
56870544--56870587	22	2.0	22	86	0	61	56	0	0	43	0.99
56875032--56875113	7	11.7	7	72	5	58	40	35	0	24	1.56
56875029--56875113	21	4.0	21	76	10	84	41	35	0	23	1.55
56875168--56875214	7	6.7	7	80	0	58	46	25	0	27	1.53
56875168--56875219	14	3.7	14	84	0	68	48	23	0	28	1.51
56875386--56875588	41	5.0	41	86	1	255	19	20	25	34	1.96
56875386--56875588	82	2.5	82	86	1	282	19	20	25	34	1.96

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