genome.fa.s1.2.7.7.80.10.50.1000.171.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: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Length:  115637255

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   323   324   325   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   

This is table  171  of  349  ( 41854 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)
55327818--55327857	21	1.9	21	89	0	62	22	27	35	15	1.94
55329005--55329268	47	5.6	48	75	8	161	22	28	18	29	1.98
55329187--55329314	47	2.7	47	93	2	213	24	27	19	28	1.98
55332715--55332940	40	5.7	40	90	4	298	25	21	26	26	2.00
55332715--55332973	120	2.2	120	81	7	287	26	20	26	25	1.99
55339904--55340025	47	2.6	48	85	6	153	27	28	14	29	1.95
55344708--55344880	46	3.7	46	76	10	181	23	20	26	30	1.98
55344705--55344875	93	1.8	93	89	0	270	22	20	27	29	1.99
55346645--55346679	17	2.0	18	88	5	54	17	17	11	54	1.71
55350936--55350962	13	2.1	13	100	0	54	44	22	18	14	1.86
55351774--55351815	19	2.2	19	86	0	57	57	26	2	14	1.50
55354416--55354462	24	1.9	25	82	4	60	51	4	6	38	1.47
55354460--55354858	90	4.4	90	89	4	618	49	10	10	30	1.69
55354480--55354845	187	2.0	186	94	0	642	48	10	10	30	1.70
55359984--55360029	18	2.6	18	86	3	58	15	30	39	15	1.88
55367082--55367128	18	2.7	18	90	3	69	14	29	42	12	1.83
55368212--55368256	20	2.2	20	88	0	63	48	2	13	35	1.54
55369236--55369354	43	2.8	42	77	7	141	31	15	24	27	1.96
55384618--55384678	24	2.5	24	86	5	79	34	29	16	19	1.94
55393595--55393694	34	2.8	34	83	7	110	25	23	25	27	2.00
55394294--55394334	19	2.0	21	86	9	59	34	0	36	29	1.58
55395624--55395656	17	2.1	16	88	11	50	81	6	9	3	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55397400--55397571	46	3.7	45	77	9	166	21	30	20	26	1.98
55404971--55405150	49	3.8	47	73	21	153	23	28	19	28	1.98
55417840--55417918	25	3.3	25	67	22	78	34	10	26	29	1.89
55417793--55418025	47	5.0	47	94	0	385	33	11	28	26	1.91
55417793--55418080	94	3.1	92	85	6	260	32	11	28	26	1.92
55418188--55418332	37	3.9	37	94	0	245	24	19	30	25	1.98
55421602--55421709	43	2.5	43	87	3	146	25	17	24	32	1.97
55423233--55423277	6	7.2	6	81	18	56	80	4	0	15	0.87
55423233--55423293	20	3.4	16	82	13	50	78	4	1	14	0.99
55423233--55423293	26	2.3	26	86	11	79	78	4	1	14	0.99
55424928--55424976	22	2.2	22	85	7	64	73	0	6	20	1.04
55424937--55424961	13	1.9	13	100	0	50	76	0	8	16	1.02
55426284--55426315	15	2.0	17	88	11	50	43	31	0	25	1.55
55427360--55427411	24	2.0	27	85	14	74	46	11	5	36	1.64
55432605--55433366	385	2.0	385	86	2	1073	24	18	16	40	1.90
55439824--55439954	29	4.6	28	87	8	151	26	29	17	26	1.98
55439849--55439954	29	3.7	29	96	2	187	27	28	17	26	1.98
55440186--55440240	8	6.9	8	78	0	65	12	23	21	41	1.88
55440178--55440240	16	3.9	16	87	0	81	12	23	20	42	1.86
55444475--55444618	73	2.1	67	81	7	162	18	27	21	31	1.97
55452661--55452921	39	6.6	39	88	7	320	24	27	22	25	2.00
55460666--55460874	39	5.3	39	94	2	323	24	27	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55460666--55460925	78	3.3	80	86	6	340	24	27	22	25	2.00
55460666--55460925	117	2.2	119	84	10	331	24	27	22	25	2.00
55462000--55462024	13	1.9	13	100	0	50	0	8	4	88	0.64
55470180--55470219	21	2.0	20	90	5	62	20	35	27	17	1.95
55481604--55481929	50	6.7	50	78	6	314	27	18	30	24	1.98
55481656--55481828	95	1.8	95	91	0	283	27	19	28	23	1.98
55481598--55481932	145	2.3	144	85	7	446	27	18	29	24	1.98
55505733--55505843	27	4.2	26	83	5	132	17	25	21	36	1.95
55505733--55505852	54	2.2	53	83	1	150	17	25	21	35	1.95
55512122--55512178	25	2.3	25	90	3	89	33	3	40	22	1.71
55513594--55513688	27	3.5	26	80	8	109	17	22	21	38	1.93
55513577--55513697	54	2.2	54	85	2	163	17	23	23	36	1.95
55529276--55529361	43	2.0	43	86	0	118	22	18	29	30	1.97
55529320--55529419	51	2.0	51	85	0	137	25	19	25	31	1.98
55542441--55542482	16	2.7	16	85	3	59	64	7	28	0	1.20
55548622--55548685	33	2.1	30	83	13	78	18	34	25	21	1.96
55549107--55549167	19	3.0	19	75	13	59	67	1	27	3	1.16
55558016--55558145	49	2.6	48	81	7	145	24	19	26	30	1.98
55557968--55558139	51	3.5	47	77	10	173	25	18	25	30	1.98
55558238--55558289	25	2.0	26	81	11	61	40	1	21	36	1.64
55562264--55562311	24	2.0	24	91	0	78	22	27	18	31	1.97
55562396--55562442	21	2.2	21	88	7	69	25	17	21	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55569728--55569769	20	2.2	20	86	4	59	64	4	16	14	1.45
55572455--55572516	30	2.1	30	93	0	106	37	9	24	29	1.87
55574997--55575041	19	2.2	21	84	7	58	15	4	6	73	1.21
55577224--55577281	30	1.9	30	92	0	98	29	17	13	39	1.88
55578502--55578552	18	2.8	18	75	0	57	13	21	3	60	1.49
55578502--55578549	6	8.0	6	85	0	51	12	18	4	64	1.43
55584103--55584157	19	2.8	20	75	25	55	45	0	3	50	1.19
55584103--55584157	18	2.8	19	78	10	58	45	0	3	50	1.19
55584481--55584534	2	27.0	2	100	0	108	50	0	50	0	1.00
55588511--55588606	26	3.6	27	78	9	74	59	4	4	32	1.36
55588680--55588736	27	2.1	28	90	3	89	63	1	0	35	1.05
55588654--55588736	29	3.0	28	80	8	98	61	1	3	33	1.21
55588754--55588819	27	2.5	25	77	15	71	51	0	13	34	1.41
55590000--55590061	25	2.5	25	76	7	65	29	4	3	62	1.31
55590192--55590250	27	2.2	27	81	6	66	35	11	0	52	1.38
55590267--55590350	29	3.0	28	81	8	100	34	3	1	60	1.21
55590423--55590486	28	2.4	25	82	10	74	31	3	4	60	1.32
55592326--55592350	11	2.3	11	100	0	50	36	16	36	12	1.85
55592564--55592611	19	2.6	18	87	9	69	22	22	10	43	1.84
55596406--55596533	64	2.0	64	89	3	195	32	19	13	35	1.90
55596601--55597651	132	8.0	132	88	1	1534	28	20	23	26	1.99
55596603--55597603	45	22.8	44	65	8	268	28	20	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55596601--55597651	263	4.0	264	88	1	1518	28	20	23	26	1.99
55596601--55597651	395	2.7	395	90	1	1638	28	20	23	26	1.99
55600739--55600776	19	2.0	20	85	10	53	57	2	0	39	1.12
55601410--55601483	37	2.0	37	84	5	96	50	2	0	47	1.15
55602483--55602517	17	2.1	17	100	0	70	45	11	11	31	1.76
55602847--55602925	40	2.0	40	82	5	97	31	18	18	30	1.96
55603940--55604008	21	3.2	21	72	24	63	50	1	2	44	1.25
55607009--55607079	35	2.0	35	100	0	142	26	11	11	50	1.72
55616849--55616883	17	2.1	17	89	10	54	71	2	5	20	1.19
55619807--55619844	20	1.9	20	88	0	58	26	7	21	44	1.79
55621467--55621602	52	2.5	54	78	5	143	20	22	17	38	1.93
55630966--55631025	23	2.6	23	86	0	93	15	30	31	23	1.95
55633942--55634000	30	2.0	30	82	0	73	32	13	25	28	1.94
55634338--55634513	46	3.8	44	76	16	162	26	21	29	22	1.99
55641146--55641322	40	4.5	40	87	4	236	24	22	27	24	2.00
55641146--55641322	79	2.2	79	86	5	234	24	22	27	24	2.00
55647404--55647548	40	3.6	40	85	4	193	25	24	26	23	2.00
55649957--55650109	28	5.5	28	92	2	238	26	12	27	33	1.92
55649957--55650109	55	2.8	55	90	3	236	26	12	27	33	1.92
55658845--55658989	40	3.6	40	85	4	193	25	24	26	23	2.00
55663610--55663852	40	6.2	40	92	2	320	24	21	27	25	1.99
55666418--55666467	26	2.0	24	88	7	73	64	6	0	30	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55666438--55666496	21	2.8	21	78	12	59	69	8	0	22	1.15
55668985--55669083	43	2.3	42	84	5	128	22	16	27	34	1.95
55669056--55669143	43	2.1	42	84	2	113	22	15	28	32	1.95
55672429--55672591	70	2.3	70	87	0	218	31	12	23	33	1.91
55672429--55672593	35	4.7	34	83	3	195	30	12	23	33	1.92
55674457--55674498	22	1.9	22	85	9	59	66	9	7	16	1.42
55674843--55674872	11	2.7	11	94	0	51	50	3	6	40	1.45
55680481--55680526	16	3.1	15	79	11	51	6	13	0	80	0.89
55680489--55680529	20	2.0	21	90	4	66	4	19	0	75	0.98
55683315--55683395	27	3.0	27	94	0	144	14	6	30	48	1.69

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   323   324   325   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349