genome.fa.s2.2.7.7.80.10.50.1000.302.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  302  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)
100362320--100362349	5	5.8	5	92	7	51	76	3	0	20	0.92
100367114--100367148	18	1.9	18	94	0	61	28	8	22	40	1.84
100367198--100367234	9	4.1	9	89	0	56	45	10	10	32	1.74
100367560--100367617	17	3.2	17	79	16	55	24	29	0	46	1.53
100369507--100369559	24	2.2	24	81	15	65	47	15	28	9	1.76
100369934--100369995	27	2.3	28	80	8	74	45	17	12	24	1.84
100369998--100370312	27	11.7	27	81	4	307	26	12	18	42	1.86
100374125--100374389	54	4.9	54	80	3	259	30	13	16	40	1.86
100374126--100374420	27	11.0	27	79	1	225	29	12	17	40	1.86
100374125--100374421	81	3.7	81	78	6	296	29	12	17	40	1.86
100374631--100374733	52	2.0	52	90	0	161	25	19	22	33	1.97
100374834--100374876	18	2.4	18	80	7	52	23	16	13	46	1.83
100380951--100381229	48	5.8	48	74	7	174	26	26	19	26	1.99
100380948--100381224	96	2.9	95	79	5	272	26	26	20	26	1.99
100386544--100386631	43	2.1	42	82	6	106	25	17	25	32	1.96
100386823--100386863	21	2.0	21	85	9	57	43	2	24	29	1.67
100390610--100390735	36	3.6	34	82	7	130	35	36	12	15	1.85
100397925--100398157	49	4.7	50	84	2	299	25	17	27	29	1.97
100398029--100398113	28	3.2	28	66	24	85	23	16	29	30	1.96
100397928--100398170	100	2.4	98	83	2	306	25	18	26	29	1.98
100398803--100399239	50	8.7	50	79	3	432	30	26	17	26	1.97
100398814--100399190	100	3.8	100	82	3	490	29	25	17	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100398803--100399239	200	2.2	201	93	0	734	30	26	17	26	1.97
100402265--100402403	70	2.0	70	91	0	224	42	17	13	25	1.87
100402532--100402637	56	1.9	56	98	0	203	26	11	19	42	1.85
100403286--100403448	43	3.8	43	79	7	145	28	17	23	30	1.97
100419370--100419450	24	3.4	24	89	5	119	29	22	19	28	1.98
100419377--100419449	23	3.1	23	92	2	110	31	20	20	27	1.97
100419508--100419560	9	5.4	9	75	16	52	37	20	7	33	1.81
100419515--100419555	11	3.9	11	78	12	50	34	19	9	36	1.85
100419508--100419560	20	2.7	20	90	0	88	37	20	7	33	1.81
100422535--100422615	31	2.7	31	94	3	139	29	27	16	27	1.97
100422836--100422905	25	2.8	25	91	0	104	25	22	24	27	2.00
100423715--100423791	27	2.9	27	79	11	86	20	20	20	37	1.94
100423832--100424052	27	8.1	27	77	6	158	31	8	18	41	1.80
100423810--100424047	54	4.4	54	76	4	226	30	8	19	41	1.81
100423838--100424079	54	4.4	54	78	4	218	31	7	19	41	1.80
100423894--100424128	27	8.7	27	76	7	138	30	7	21	40	1.81
100426418--100426497	31	2.6	31	92	3	128	30	27	17	25	1.97
100426712--100426769	25	2.4	24	80	5	62	32	18	15	32	1.93
100426719--100426772	25	2.2	25	86	0	72	33	22	16	27	1.95
100426727--100426788	25	2.5	25	89	0	88	27	24	17	30	1.97
100427590--100427656	27	2.5	27	83	7	75	20	26	17	34	1.96
100427709--100427964	27	9.4	27	79	5	165	33	8	19	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100427693--100427923	54	4.2	54	79	4	239	31	8	18	41	1.81
100427915--100427989	27	2.7	27	85	2	87	41	10	20	28	1.85
100433280--100433447	43	4.0	42	77	9	137	27	16	23	32	1.96
100435600--100435767	43	3.9	44	81	4	182	26	14	25	33	1.94
100437186--100437301	29	4.0	29	81	8	130	25	30	15	28	1.96
100437177--100437288	58	1.9	58	85	3	154	25	31	15	27	1.95
100437512--100437558	16	2.9	16	80	0	58	10	21	19	48	1.78
100438791--100438823	16	2.1	16	94	0	57	27	6	15	51	1.66
100447925--100448040	43	2.7	42	77	9	110	31	26	17	24	1.97
100447925--100448050	42	3.0	43	76	6	130	32	26	16	23	1.96
100454163--100454277	20	5.8	20	70	0	77	20	21	19	38	1.94
100454177--100454330	40	3.8	40	75	1	121	20	21	20	37	1.94
100454182--100454330	80	1.9	80	85	0	208	20	22	19	37	1.94
100455911--100456125	42	5.1	42	80	7	256	27	13	26	31	1.94
100456689--100456745	29	2.0	29	96	0	105	49	10	7	33	1.64
100456709--100456751	23	1.9	23	85	4	61	46	9	9	34	1.68
100462291--100462409	50	2.3	52	86	2	170	33	15	13	37	1.86
100463936--100464004	36	1.9	36	87	0	102	34	26	13	26	1.92
100464061--100464107	8	5.9	8	92	0	67	38	19	0	42	1.51
100464061--100464107	16	2.9	16	87	0	76	38	19	0	42	1.51
100464061--100464107	24	2.0	24	95	0	85	38	19	0	42	1.51
100465678--100465858	40	4.5	40	86	4	249	22	28	25	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100471572--100471667	50	1.9	49	91	2	156	28	28	13	29	1.94
100476222--100476272	21	2.3	21	80	6	57	49	11	11	27	1.74
100476538--100476603	32	2.1	32	100	0	132	34	0	24	40	1.55
100477623--100477661	16	2.5	15	87	4	51	25	0	25	48	1.51
100477696--100477848	39	3.9	39	87	0	198	33	2	18	44	1.64
100486128--100486171	19	2.4	19	85	7	56	50	0	9	40	1.34
100488556--100488605	25	2.0	25	88	0	73	34	24	16	26	1.95
100488649--100488705	20	2.8	20	97	0	105	35	12	19	33	1.89
100488653--100488705	11	5.2	11	69	17	51	35	13	18	32	1.90
100488758--100488828	23	3.0	24	87	10	101	29	21	22	26	1.99
100489041--100489068	7	4.0	7	100	0	56	57	0	14	28	1.38
100491051--100491094	19	2.4	19	85	7	56	50	0	9	40	1.34
100491092--100491178	45	1.9	44	82	13	106	35	2	9	52	1.46
100493595--100493651	20	2.8	20	89	0	87	33	12	22	31	1.91
100493704--100493832	23	5.4	24	88	5	190	30	20	21	27	1.98
100493704--100493837	72	1.9	72	86	7	193	29	20	22	26	1.99
100496173--100496728	49	11.6	49	94	1	893	28	29	8	32	1.86
100496173--100496728	194	2.9	194	94	1	944	28	29	8	32	1.86
100507797--100507850	26	2.1	26	100	0	108	51	11	18	18	1.74
100514047--100514100	25	2.2	25	80	12	58	24	12	20	42	1.87
100515399--100515454	27	2.1	26	90	9	87	39	17	8	33	1.81
100517780--100517968	40	4.7	40	86	0	270	26	22	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100517780--100517991	40	5.3	39	84	2	246	26	22	25	25	2.00
100525651--100525839	40	4.7	40	89	0	297	25	22	26	25	2.00
100529714--100529752	20	2.0	20	85	10	53	2	12	2	82	0.89
100529711--100529757	14	3.3	14	81	3	58	2	17	2	78	0.94
100531792--100531830	20	2.0	21	90	10	64	15	0	7	76	0.99
100535477--100535532	24	2.4	24	90	3	87	14	28	26	30	1.95
100543973--100544025	25	2.1	25	100	0	106	41	26	15	16	1.88
100547841--100547900	30	2.0	29	83	3	75	40	3	25	31	1.72
100548365--100548491	68	1.9	68	85	6	177	32	15	27	24	1.96
100550112--100550296	40	4.6	39	83	5	203	25	22	25	25	2.00
100550112--100550296	79	2.3	81	83	7	227	25	22	25	25	2.00
100550165--100550329	79	2.1	79	82	6	192	26	21	27	24	1.99
100552232--100552258	12	2.2	12	100	0	54	33	7	14	44	1.73
100554393--100554417	8	3.1	8	100	0	50	76	0	0	24	0.80
100554979--100555024	19	2.4	19	96	0	83	30	10	17	41	1.84
100564029--100564066	19	2.0	20	85	15	53	39	23	0	36	1.55
100564454--100564481	14	2.0	14	100	0	56	28	28	7	35	1.84
100564564--100564738	46	3.8	45	78	13	212	30	27	19	22	1.98
100564572--100564742	93	1.8	93	94	2	308	29	27	19	22	1.98
100565162--100565221	30	2.0	30	90	0	93	30	25	8	36	1.85
100566576--100567196	309	2.0	309	100	0	1242	38	10	10	40	1.73
100567571--100567604	16	2.1	16	88	0	50	23	5	5	64	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100567842--100567940	51	1.9	51	81	4	119	38	5	31	25	1.77
100567968--100568020	27	2.0	27	92	0	88	28	15	49	7	1.71
100568175--100568209	18	2.0	18	88	5	54	37	2	2	57	1.29
100569421--100569453	12	2.8	12	95	0	57	42	9	24	24	1.83
100572753--100572782	14	2.1	14	93	0	51	16	0	36	46	1.47
100583491--100583551	24	2.5	24	89	0	86	29	26	16	27	1.97
100583510--100583573	24	2.7	24	82	0	74	29	29	17	23	1.97
100586708--100586745	16	2.4	16	100	0	76	39	10	10	39	1.74
100595329--100595386	24	2.4	23	83	8	71	27	3	17	51	1.61
100596129--100596172	16	2.5	18	85	10	56	45	2	0	52	1.13

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