genome.fa.s2.2.7.7.80.10.50.1000.315.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  315  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)
104432538--104432587	20	2.5	20	86	0	64	30	28	18	24	1.97
104432555--104432591	20	1.9	20	94	5	67	27	24	21	27	1.99
104435532--104436078	292	1.9	292	89	0	862	28	22	17	31	1.97
104441283--104441373	44	2.1	44	91	0	146	32	9	10	46	1.72
104443963--104444135	46	3.7	46	77	11	183	22	19	27	30	1.98
104443960--104444130	93	1.8	93	89	2	272	22	19	28	29	1.98
104444359--104444396	19	2.0	20	85	15	53	36	0	23	39	1.55
104451609--104451781	46	3.8	45	79	13	199	21	19	28	30	1.98
104451608--104451776	93	1.8	93	93	0	293	21	19	28	30	1.97
104452005--104452042	19	2.0	20	85	15	53	36	0	23	39	1.55
104463205--104463263	29	2.0	29	83	6	75	62	0	0	37	0.95
104465190--104465352	42	3.9	42	86	1	202	32	20	20	26	1.97
104471198--104471630	18	24.4	17	76	20	321	36	0	18	44	1.50
104471212--104471630	36	11.8	36	77	17	416	36	0	18	45	1.50
104471337--104471652	53	5.9	53	95	3	450	36	0	18	45	1.49
104471489--104471611	9	13.9	9	66	27	50	36	0	19	43	1.51
104472952--104472991	11	3.7	11	93	3	64	27	27	10	35	1.89
104474192--104474560	84	4.4	84	97	1	659	29	17	20	32	1.96
104474946--104474971	12	2.2	12	100	0	52	19	34	7	38	1.80
104475581--104476628	113	9.3	113	96	0	1796	26	30	19	24	1.98
104476576--104477412	40	20.9	40	99	0	1638	20	32	15	32	1.93
104482136--104483591	453	3.2	453	99	0	2876	31	18	14	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104484440--104484527	46	1.9	46	88	0	122	27	30	22	19	1.98
104486689--104486718	15	2.0	15	93	0	51	56	3	0	40	1.16
104487160--104487185	9	2.9	9	100	0	52	57	0	0	42	0.98
104487873--104487901	14	2.0	15	93	6	51	41	0	0	58	0.98
104488006--104488053	25	1.9	25	83	8	62	39	4	2	54	1.32
104490734--104491060	50	6.5	50	97	1	584	35	13	23	27	1.92
104491036--104491959	31	29.8	31	98	0	1733	26	19	25	28	1.99
104492078--104492192	42	2.7	43	85	6	155	31	15	25	27	1.96
104496245--104496371	68	1.9	68	83	6	168	24	28	14	32	1.95
104496836--104496893	30	1.9	30	89	0	89	29	22	6	41	1.80
104500409--104500435	11	2.5	11	100	0	54	81	0	0	18	0.69
104513621--104513657	6	6.5	6	81	12	51	83	0	16	0	0.64
104513621--104513657	17	2.2	17	90	0	56	83	0	16	0	0.64
104514917--104515133	40	5.5	39	82	4	238	23	23	28	25	2.00
104514916--104515116	80	2.5	79	88	3	278	22	23	27	25	2.00
104522497--104522714	40	5.5	40	86	2	271	23	23	27	25	2.00
104524701--104524748	21	2.3	21	88	0	69	27	29	29	14	1.95
104527021--104527347	39	8.4	39	92	0	510	21	20	28	30	1.98
104530118--104530148	16	1.9	16	93	0	53	48	16	0	35	1.46
104539640--104539691	28	2.0	25	85	11	68	55	0	3	40	1.18
104539640--104539702	28	2.3	26	78	10	63	58	0	3	38	1.14
104539685--104539728	21	2.2	20	83	4	52	59	4	2	34	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104540496--104540560	35	1.9	34	81	12	80	13	10	12	63	1.53
104544041--104544163	34	3.6	34	80	8	142	34	25	21	17	1.96
104544041--104544170	69	1.9	69	87	3	190	33	24	23	18	1.96
104545876--104545926	25	2.1	24	85	10	68	54	13	5	25	1.61
104546465--104546507	23	2.0	21	90	9	68	41	6	6	44	1.58
104546462--104546520	23	2.6	22	72	17	66	37	10	6	45	1.65
104550678--104551474	27	29.8	26	77	11	699	39	20	9	30	1.85
104550657--104551475	53	15.3	52	80	8	769	39	20	9	30	1.85
104550678--104551475	107	7.5	106	88	5	906	39	20	9	30	1.85
104551521--104552039	27	19.2	27	87	0	680	37	18	19	24	1.94
104552002--104552074	35	2.1	35	92	0	119	39	19	16	24	1.91
104551971--104552094	62	2.0	62	82	3	151	37	18	19	25	1.94
104552926--104553013	6	14.3	6	70	17	56	21	19	11	47	1.80
104552929--104552992	25	2.6	25	89	0	92	21	21	10	45	1.83
104557476--104557511	18	2.0	18	94	0	63	25	11	30	33	1.90
104566733--104567021	137	2.1	137	93	1	490	31	23	19	24	1.98
104568806--104568965	26	6.2	26	92	0	275	35	26	5	32	1.80
104573634--104574464	64	13.0	64	100	0	1662	21	12	18	46	1.82
104576716--104576824	26	4.2	26	92	0	191	34	25	6	33	1.82
104578245--104578314	31	2.3	31	84	0	95	27	25	21	25	1.99
104578269--104578360	46	2.0	46	86	0	130	26	21	23	28	1.99
104578315--104578373	31	1.9	31	100	0	118	25	23	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104579508--104579542	16	2.1	18	89	10	56	37	14	2	45	1.59
104583292--104583395	22	4.6	22	74	9	93	21	18	19	41	1.91
104583292--104583395	23	4.6	23	75	10	106	21	18	19	41	1.91
104583564--104583615	20	2.6	20	84	0	68	34	9	19	36	1.84
104589350--104589429	23	3.3	24	78	5	81	26	23	15	35	1.94
104597102--104597217	57	2.0	57	98	0	223	28	14	33	23	1.94
104602837--104602873	19	2.0	20	89	10	60	0	27	0	72	0.84
104603954--104604021	28	2.4	28	95	0	118	33	26	7	32	1.84
104604127--104604216	28	3.2	27	84	7	101	20	24	24	31	1.98
104604648--104604686	19	2.1	19	85	0	51	15	5	7	71	1.26
104605417--104605510	45	2.1	45	95	0	170	29	9	15	44	1.79
104609267--104609363	50	1.9	50	85	0	131	39	20	9	30	1.84
104609331--104609475	35	4.1	35	76	6	141	42	18	12	26	1.86
104611035--104611143	54	2.0	53	91	5	175	23	22	11	42	1.86
104611522--104612278	40	19.0	40	99	0	1462	24	27	22	25	2.00
104613319--104613423	52	2.0	52	94	0	183	31	16	20	32	1.94
104617102--104617220	35	3.4	35	77	4	141	28	10	18	42	1.82
104618880--104618923	22	2.0	22	100	0	88	27	9	4	59	1.48
104621653--104621712	30	2.0	30	84	9	79	30	25	6	38	1.81
104628802--104628839	13	3.0	13	92	3	60	39	21	0	39	1.53
104629421--104629469	23	2.1	23	100	0	98	30	8	16	44	1.76
104650598--104650710	57	2.0	57	98	0	217	53	10	14	22	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104658339--104658532	47	4.1	47	90	0	289	32	10	29	26	1.90
104658368--104658439	22	3.1	22	64	24	58	33	13	29	23	1.93
104658413--104658488	23	3.2	25	62	24	63	28	13	34	23	1.92
104658503--104658638	50	2.8	48	86	8	211	36	7	26	30	1.84
104658497--104658659	50	3.3	50	80	14	201	33	7	28	30	1.86
104661156--104661700	49	11.2	49	96	1	990	32	8	29	30	1.86
104662748--104662856	37	2.9	37	95	0	191	22	19	31	26	1.98
104666546--104666673	43	3.0	43	90	2	186	25	23	2	49	1.62
104668986--104669044	29	2.0	29	100	0	118	33	16	13	35	1.88
104694820--104694981	24	6.8	24	68	6	105	25	14	27	32	1.94
104700606--104700767	24	6.8	24	67	6	96	27	14	27	31	1.95
104705652--104705870	108	2.0	108	98	0	420	29	15	20	34	1.93
104712498--104712526	13	2.1	14	93	6	51	55	10	0	34	1.34
104716070--104716897	414	2.0	414	100	0	1656	35	21	15	28	1.94
104718015--104718127	46	2.4	47	88	2	174	40	2	13	43	1.58
104718035--104718107	18	4.0	18	75	19	62	43	0	12	43	1.42
104719199--104719246	25	1.9	25	82	0	60	47	4	12	35	1.60
104722756--104722780	5	5.0	5	100	0	50	20	0	0	80	0.72
104723153--104723232	38	2.0	40	90	4	128	45	23	2	28	1.66
104723387--104723453	21	3.2	21	73	0	62	22	0	25	52	1.47
104723756--104724088	41	8.2	41	82	1	355	24	15	24	35	1.94
104725131--104725177	25	1.9	24	86	4	67	74	2	17	6	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104726710--104727057	47	7.4	47	96	0	615	31	8	30	29	1.87
104727176--104727254	37	2.1	37	90	0	122	24	18	31	25	1.98
104730153--104730265	27	4.2	26	81	12	120	17	22	22	38	1.94
104730153--104730265	55	2.1	54	83	5	138	17	22	22	38	1.94
104740134--104740311	25	7.2	25	89	5	231	28	23	19	29	1.98
104740362--104740428	20	3.3	20	89	0	107	32	20	13	32	1.92
104744946--104744997	27	1.9	27	92	0	86	30	34	5	28	1.81
104747829--104747892	31	2.1	30	85	2	83	23	21	15	39	1.92
104747937--104748069	24	5.5	24	93	1	212	28	21	18	30	1.97
104748118--104748184	20	3.3	20	89	0	107	32	20	13	32	1.92

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