genome.fa.s2.2.7.7.80.10.50.1000.283.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  283  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)
93953167--93953473	47	6.5	47	72	11	191	23	30	19	27	1.98
93953208--93953525	94	3.4	93	79	7	333	22	30	19	27	1.98
93968062--93968140	29	2.7	29	86	5	106	27	32	15	24	1.95
93980983--93981073	27	3.4	27	84	0	110	36	21	19	21	1.95
93983858--93984164	47	6.5	45	73	14	212	23	28	20	27	1.99
93983858--93984216	94	3.8	93	78	7	343	22	29	20	27	1.99
93983849--93984219	47	7.9	46	72	14	204	22	29	20	26	1.99
94002594--94002626	17	2.0	17	94	5	59	36	15	0	48	1.45
94002922--94003131	46	4.6	46	90	0	312	21	22	12	42	1.87
94004806--94004927	46	2.6	47	84	5	147	26	22	14	36	1.93
94009153--94009272	48	2.5	48	85	2	154	25	22	15	36	1.93
94013991--94014122	46	2.8	48	82	9	162	19	22	15	41	1.90
94020092--94020182	44	2.0	46	81	8	107	23	18	23	35	1.96
94020143--94020241	42	2.4	42	77	13	105	29	19	20	31	1.97
94022325--94022369	16	2.8	16	82	0	63	53	20	17	8	1.70
94022588--94022712	29	4.3	29	86	1	171	24	15	31	29	1.95
94026161--94026405	49	4.9	49	79	2	238	26	17	26	29	1.98
94031686--94031739	27	2.0	27	85	0	72	42	7	12	37	1.72
94035521--94035556	17	2.1	17	100	0	72	16	41	0	41	1.48
94035937--94035974	16	2.4	16	90	0	58	50	21	21	7	1.74
94043567--94043768	55	3.8	53	76	10	176	23	24	18	34	1.96
94043753--94044008	47	5.5	47	77	6	191	23	24	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94049097--94049281	55	3.4	53	78	10	171	22	24	17	34	1.96
94049083--94049290	54	3.9	54	78	6	197	23	24	17	34	1.96
94061493--94061651	27	5.9	27	85	0	165	32	22	6	38	1.79
94061480--94061661	54	3.4	54	79	0	175	35	22	6	36	1.79
94061601--94061933	27	12.3	27	77	6	192	39	20	9	30	1.83
94061455--94061661	81	2.6	81	75	3	193	34	22	6	36	1.79
94061615--94061782	80	2.1	81	84	3	223	40	20	9	29	1.84
94061777--94061906	56	2.4	55	83	7	149	43	16	6	32	1.75
94061927--94062038	27	4.1	27	69	17	72	36	20	19	23	1.95
94062754--94062877	31	4.0	31	94	0	221	26	16	25	31	1.96
94065288--94065621	50	6.8	50	80	6	351	28	20	28	23	1.99
94085815--94085858	6	7.5	6	82	5	54	79	0	6	13	0.92
94095834--94095917	30	2.8	30	98	1	161	40	27	5	26	1.79
94096358--94096390	5	6.6	5	100	0	66	42	18	0	39	1.50
94102359--94102391	14	2.4	14	94	0	57	18	0	0	81	0.68
94101665--94102462	422	1.9	422	99	0	1569	38	13	8	39	1.75
94104164--94104197	17	1.9	18	94	5	61	52	0	5	41	1.25
94104164--94104210	15	2.9	16	84	9	51	48	4	4	42	1.42
94108283--94108531	96	2.5	101	82	9	287	39	1	18	40	1.60
94108576--94109099	126	4.2	126	91	1	762	34	18	19	27	1.95
94112129--94112508	116	3.3	116	95	0	670	48	8	2	40	1.48
94112312--94112497	61	3.1	61	69	20	194	49	8	2	39	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94112896--94112938	18	2.4	18	92	0	68	44	11	27	16	1.82
94113555--94113581	7	3.9	7	100	0	54	59	14	0	25	1.36
94113547--94113580	14	2.4	14	90	0	50	64	8	0	26	1.22
94114678--94114708	15	2.1	15	93	0	53	70	0	6	22	1.09
94114739--94114777	11	3.5	11	92	0	60	48	0	28	23	1.51
94115593--94115687	35	2.7	34	76	12	93	42	1	5	51	1.31
94115615--94115687	35	2.1	35	84	7	94	39	0	6	53	1.28
94115884--94115932	21	2.3	21	89	0	71	32	32	8	26	1.86
94118855--94119038	91	2.0	91	96	0	341	40	17	7	34	1.79
94119553--94119598	20	2.3	20	92	0	74	47	23	21	6	1.74
94120390--94120474	44	2.0	42	93	6	145	35	11	14	38	1.82
94121911--94122043	48	2.8	48	82	0	149	26	18	25	29	1.98
94122019--94122128	43	2.6	41	72	18	100	25	22	26	25	2.00
94122092--94122183	48	1.9	48	86	4	87	25	20	25	29	1.99
94123218--94123354	41	3.4	41	90	1	213	36	25	22	15	1.93
94123523--94123603	21	3.7	21	78	12	90	30	1	22	45	1.60
94123526--94123619	46	2.0	46	89	0	143	31	2	22	43	1.65
94123663--94123737	7	10.7	7	75	11	55	20	0	42	37	1.52
94123669--94123736	21	3.2	22	76	15	72	20	0	42	36	1.52
94124194--94124256	23	2.7	23	75	18	76	36	0	6	57	1.24
94129450--94129559	44	2.5	43	85	4	166	19	20	30	30	1.97
94130089--94130165	31	2.5	31	95	0	136	20	33	29	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94133185--94133219	18	2.1	17	89	10	54	62	5	0	31	1.18
94152228--94152414	6	30.8	6	74	16	163	48	12	17	20	1.80
94152207--94152414	30	7.1	30	80	11	225	48	12	17	20	1.80
94152228--94152414	85	2.2	85	96	0	338	48	12	17	20	1.80
94152770--94152828	22	2.7	22	81	0	64	32	22	25	20	1.98
94152848--94152976	65	2.0	65	93	0	222	27	32	23	17	1.96
94152981--94153063	27	3.1	26	87	5	112	37	21	21	19	1.94
94153262--94153457	27	7.3	27	89	0	239	25	20	19	34	1.96
94153264--94153457	81	2.4	82	88	1	275	25	20	18	35	1.95
94153262--94153457	54	3.6	54	88	2	268	25	20	19	34	1.96
94153466--94153813	27	13.0	27	79	6	379	40	9	22	27	1.85
94153452--94153813	107	3.4	108	83	5	452	40	9	21	27	1.85
94153468--94153812	132	2.6	132	84	4	462	40	9	22	27	1.85
94155152--94155334	27	6.8	27	81	9	196	40	18	9	31	1.82
94155168--94155334	80	2.1	81	91	1	273	40	19	10	29	1.85
94155181--94155363	54	3.4	53	80	12	180	38	17	11	32	1.85
94155235--94155512	27	10.3	27	81	6	287	39	15	12	33	1.84
94155182--94155512	81	4.1	81	83	7	345	39	16	12	32	1.85
94155562--94155654	34	2.7	34	91	0	150	20	10	24	44	1.83
94158536--94158582	24	2.0	24	86	0	67	23	40	2	34	1.67
94160949--94160994	24	1.9	24	95	0	83	39	36	10	13	1.79
94164649--94164760	27	4.1	27	82	10	131	38	22	22	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94164653--94164759	54	2.0	54	88	3	162	39	21	21	17	1.93
94165532--94165936	46	8.8	46	97	0	713	20	19	28	31	1.97
94166533--94166637	27	3.9	28	81	9	128	37	20	24	17	1.94
94168055--94168104	24	2.1	24	92	0	82	24	38	2	36	1.67
94169559--94169600	21	2.0	21	85	4	57	11	38	21	28	1.89
94180929--94181190	39	6.7	40	88	7	337	24	27	22	25	2.00
94190729--94190884	52	3.0	52	77	8	163	27	15	26	30	1.96
94191675--94191727	20	2.7	20	90	0	88	20	35	32	11	1.88
94199482--94199713	40	5.8	40	91	2	365	23	28	21	26	1.99
94199482--94199709	82	2.8	80	93	1	375	23	28	21	26	1.99
94199482--94199713	122	1.9	120	91	1	383	23	28	21	26	1.99
94209373--94209500	64	2.0	64	95	0	229	40	21	21	15	1.91
94213657--94213826	40	4.3	40	85	1	207	23	21	30	24	1.99
94213679--94213861	79	2.3	80	80	1	208	25	21	29	24	1.99
94216078--94216152	27	2.8	28	76	10	75	42	13	20	24	1.87
94222181--94222286	27	3.9	27	79	9	117	36	21	23	17	1.95
94222180--94222283	54	1.9	54	86	3	147	37	20	24	18	1.94
94229022--94229052	16	1.9	16	93	0	53	25	9	12	51	1.70
94229529--94229635	27	3.9	27	79	9	119	34	21	24	19	1.96
94230849--94230881	17	1.9	17	93	0	57	78	0	21	0	0.75
94231586--94231680	50	1.9	50	88	0	145	30	27	17	24	1.97
94234097--94234338	50	4.9	50	85	1	308	24	28	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94236398--94236446	20	2.6	19	80	6	55	51	2	2	44	1.24
94236398--94236446	19	2.6	19	81	12	57	51	2	2	44	1.24
94239178--94239279	28	3.6	28	80	5	116	27	16	32	23	1.96
94239178--94239308	56	2.4	56	88	1	183	29	18	29	22	1.97
94239209--94239304	28	3.4	28	74	5	95	30	19	27	22	1.98
94239382--94239474	32	2.9	32	90	0	105	34	10	25	29	1.90
94241323--94241356	17	2.0	17	100	0	68	23	29	0	47	1.52
94242490--94242556	33	2.0	33	94	0	116	35	19	26	17	1.94
94253043--94253332	101	2.9	101	87	1	420	28	14	23	32	1.94
94253043--94253399	101	3.6	100	83	3	396	29	15	24	30	1.95

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