genome.fa.s2.2.7.7.80.10.50.1000.139.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  139  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)
45526790--45526846	30	1.9	30	88	0	87	29	31	21	17	1.96
45529429--45529486	30	1.9	30	85	0	80	22	31	29	17	1.96
45563773--45563994	39	5.6	39	88	6	292	23	27	22	25	2.00
45571767--45571858	39	2.3	39	88	5	132	25	28	22	23	2.00
45571748--45571911	40	4.1	40	80	10	176	24	27	23	25	2.00
45592464--45592496	16	2.1	16	94	0	57	45	27	18	9	1.79
45592713--45592806	28	3.3	28	83	2	116	26	13	29	29	1.94
45592879--45592903	4	6.2	4	100	0	50	48	0	0	52	1.00
45597045--45597075	16	1.9	16	93	0	53	48	19	22	9	1.78
45597299--45597388	28	3.2	28	82	3	108	28	11	32	27	1.91
45597304--45597383	29	2.8	28	84	3	97	28	11	33	26	1.91
45609778--45609860	44	1.9	43	85	2	112	21	18	25	34	1.96
45613687--45613739	23	2.4	21	84	12	70	58	3	3	33	1.34
45614228--45614388	18	9.1	17	87	5	223	36	11	16	36	1.84
45614231--45614401	35	4.8	35	89	6	229	36	11	15	36	1.84
45614230--45614388	53	3.0	53	93	2	257	35	11	16	36	1.84
45614694--45614742	26	1.9	26	83	4	64	26	4	0	69	1.06
45623657--45623726	27	2.6	27	95	2	113	31	28	12	27	1.93
45623657--45623754	28	3.5	28	90	2	135	31	28	13	26	1.94
45624927--45625040	57	2.0	57	98	0	219	18	23	12	45	1.83
45646452--45646629	40	4.5	40	92	2	288	24	28	23	24	2.00
45647900--45648081	37	4.9	37	95	0	319	25	31	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45648241--45648443	46	4.6	43	72	15	157	24	29	11	34	1.90
45648290--45648763	47	10.1	47	78	12	447	26	30	12	31	1.92
45648243--45648487	130	1.9	130	96	0	454	24	29	11	33	1.91
45648420--45648763	100	3.5	100	88	4	547	26	30	12	29	1.93
45648420--45648779	147	2.5	138	82	9	348	28	30	11	29	1.92
45655605--45655776	40	4.3	40	86	2	204	26	28	20	24	1.99
45655605--45655829	80	2.8	80	77	8	199	26	28	20	24	1.99
45655761--45655838	40	1.9	41	82	10	97	26	28	20	24	1.99
45661880--45662239	180	2.0	180	93	0	621	28	19	16	36	1.93
45663050--45663221	40	4.3	40	88	2	222	25	27	21	25	1.99
45663052--45663274	40	5.6	39	83	5	216	25	27	21	25	1.99
45663050--45663274	80	2.8	79	80	7	240	25	27	21	25	1.99
45663206--45663283	40	1.9	41	82	10	97	26	28	20	24	1.99
45669071--45669167	40	2.4	40	87	3	133	24	29	16	28	1.97
45679995--45680196	27	7.4	27	76	7	142	30	9	18	40	1.83
45680007--45680160	54	2.8	54	81	3	166	32	9	18	38	1.84
45680189--45680291	27	3.9	27	83	3	113	41	7	20	30	1.80
45680200--45680291	27	3.4	27	89	0	130	42	7	21	28	1.80
45681598--45681763	46	3.6	46	71	15	144	30	28	19	21	1.98
45696764--45696989	107	2.1	107	86	2	319	28	22	9	39	1.85
45696764--45697001	27	8.9	27	84	4	284	29	21	8	39	1.83
45696979--45697224	27	9.2	27	76	5	180	39	21	9	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45696745--45697026	81	3.5	81	83	3	336	32	19	8	38	1.83
45696981--45697169	81	2.3	80	81	3	218	40	21	8	29	1.83
45697020--45697169	53	2.8	53	82	7	178	42	22	8	27	1.82
45697020--45697185	80	2.1	81	83	7	205	40	21	9	28	1.83
45697188--45697431	27	9.0	27	85	0	317	35	20	20	23	1.96
45697188--45697431	81	3.0	81	89	1	355	35	20	20	23	1.96
45697634--45697715	25	3.4	25	88	3	105	31	21	21	24	1.98
45697634--45697727	25	3.8	25	84	5	102	29	23	22	24	1.99
45700017--45700253	27	8.8	27	87	2	316	30	22	7	39	1.82
45700017--45700253	107	2.2	108	89	0	359	30	22	7	39	1.82
45700205--45700295	27	3.4	27	80	3	94	35	23	8	32	1.85
45700232--45700398	54	3.1	54	82	3	149	39	23	8	28	1.84
45700273--45700434	27	6.0	26	78	5	153	40	21	8	29	1.83
45700273--45700423	54	2.8	54	84	2	187	42	21	7	27	1.81
45700246--45700423	81	2.2	81	82	6	200	41	21	8	28	1.82
45700441--45700683	27	9.0	27	86	0	315	35	18	20	24	1.95
45700886--45700955	25	2.8	25	93	0	113	27	25	22	24	2.00
45700885--45700968	25	3.4	24	83	8	98	29	22	22	25	1.99
45701896--45701933	14	2.9	13	88	11	60	60	10	13	15	1.59
45706912--45707089	27	6.6	27	85	3	214	26	14	28	30	1.95
45706913--45707068	82	1.9	81	89	3	242	26	14	28	30	1.95
45706909--45707089	82	2.2	81	84	2	238	27	14	27	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45713653--45713784	40	3.3	40	83	2	167	27	28	20	23	1.99
45721300--45721350	17	3.2	17	68	21	56	43	3	17	35	1.68
45721291--45721350	30	2.0	30	100	0	120	43	3	20	33	1.68
45723798--45723831	17	2.0	17	100	0	68	23	11	11	52	1.70
45726055--45726184	65	2.0	65	95	0	233	39	16	7	36	1.78
45726785--45726908	28	4.4	28	72	18	96	27	30	14	27	1.95
45726785--45726908	56	2.2	56	88	2	178	27	30	14	27	1.95
45732242--45732346	53	2.0	52	100	0	201	20	26	24	26	1.99
45734441--45734900	56	8.2	56	98	0	868	28	31	15	24	1.96
45737800--45737977	27	6.6	27	84	3	205	29	28	15	26	1.96
45737821--45737976	82	1.9	81	88	3	233	29	28	15	26	1.96
45745863--45746040	27	6.6	27	84	3	205	29	28	15	26	1.96
45745884--45746039	82	1.9	81	88	3	233	29	28	15	26	1.96
45754824--45754996	56	3.1	56	90	0	265	36	21	14	27	1.92
45759907--45759963	30	1.9	30	85	7	80	42	8	21	28	1.82
45766892--45766956	34	1.9	34	87	6	96	27	20	21	30	1.98
45770468--45770602	44	3.1	42	79	9	130	32	22	17	27	1.96
45771476--45771705	115	2.0	115	100	0	460	36	14	21	26	1.93
45772003--45772094	47	2.0	46	91	2	148	21	14	23	40	1.90
45775646--45775707	31	2.0	31	96	0	115	22	37	6	33	1.80
45784721--45784985	40	6.7	40	85	5	286	26	27	21	24	1.99
45784688--45784985	80	3.7	80	79	9	263	25	27	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45784917--45784994	40	1.9	41	82	10	97	26	28	20	24	1.99
45792669--45792930	39	6.7	40	88	7	337	24	27	22	25	2.00
45810793--45810872	38	2.1	38	97	0	151	31	25	21	22	1.98
45814099--45814271	27	6.5	27	81	4	208	36	20	10	31	1.87
45814118--45814325	27	7.8	26	76	12	113	36	21	11	31	1.88
45814308--45814382	27	2.8	27	78	8	89	37	26	8	28	1.84
45814364--45814506	27	5.3	27	92	0	232	32	20	22	23	1.98
45814348--45814506	54	2.9	53	83	5	162	32	22	20	24	1.98
45814811--45814862	26	2.0	26	85	3	70	17	21	21	40	1.91
45814817--45814890	27	2.8	26	83	4	94	17	22	20	39	1.92
45815022--45815162	31	4.5	31	88	1	185	19	17	15	48	1.82
45815022--45815189	6	27.3	6	68	15	94	19	16	15	48	1.82
45819194--45819285	42	2.2	42	88	0	130	34	20	15	29	1.93
45819552--45819618	20	3.3	20	89	4	100	31	17	11	38	1.87
45820444--45820495	27	1.9	27	88	7	79	28	5	21	44	1.75
45820429--45820677	27	9.4	27	68	15	76	33	7	18	40	1.79
45820527--45820677	27	5.5	28	77	8	141	33	6	19	40	1.78
45820535--45820677	54	2.6	54	86	1	205	33	6	20	39	1.78
45826552--45826708	86	1.8	85	81	6	192	28	22	21	27	1.99
45829052--45829196	43	3.4	42	83	7	168	37	24	13	24	1.91
45836460--45836544	32	2.6	32	94	1	143	10	24	41	23	1.86
45858345--45858706	46	7.7	47	76	10	208	29	19	28	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45858345--45858705	47	7.7	47	75	13	212	29	19	28	23	1.98
45864774--45864988	46	4.6	46	77	13	176	29	19	27	23	1.98
45864822--45864998	46	3.9	44	82	11	189	27	19	29	23	1.98
45865977--45866035	27	2.2	26	79	8	64	44	15	8	32	1.76
45865992--45866081	27	3.3	27	87	3	110	40	17	10	32	1.83
45865992--45866098	54	2.0	54	81	7	128	38	20	10	30	1.86
45866087--45866296	27	7.8	27	88	2	235	28	24	9	37	1.86
45866087--45866296	54	3.9	54	84	0	260	28	24	9	37	1.86
45866087--45866296	81	2.6	81	83	0	269	28	24	9	37	1.86
45866289--45866525	27	8.7	27	74	6	174	40	17	9	32	1.81

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