genome.fa.s11.2.7.7.80.10.50.1000.14.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: Chr11 124536837 
Parameters: 2 7 7 80 10 50 1000
Length:  124536837

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   350   351   352   
          353   354   355   356   357   358   359   360   361   362   363   364   365   366   367   368   
          369   370   371   372   373   374   375   376   377   378   379   380   381   382   383   384   
          385   386   387   388   389   390   391   392   393   394   395   396   397   398   399   400   
          401   402   403   404   405   406   407   408   409   410   411   412   413   414   415   416   
          417   418   419   420   421   422   423   424   425   426   427   

This is table  14  of  427  ( 51162 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)
3843465--3843489	8	3.1	8	100	0	50	52	12	12	24	1.72
3849701--3849873	51	3.2	51	67	13	148	27	16	19	36	1.93
3851007--3851066	14	4.2	14	87	4	84	38	15	5	41	1.68
3851007--3851066	29	2.1	28	90	3	93	38	15	5	41	1.68
3851213--3851257	3	15.0	3	100	0	90	66	0	0	33	0.92
3851956--3851986	3	10.3	3	100	0	62	32	0	0	67	0.91
3863491--3863517	9	3.0	9	100	0	54	55	0	11	33	1.35
3863744--3863792	19	2.4	21	76	13	57	55	6	2	36	1.37
3863868--3863901	17	1.9	18	88	5	52	55	8	2	32	1.45
3863866--3863908	17	2.4	17	80	7	50	55	11	2	30	1.48
3863856--3863912	29	1.9	29	85	3	78	52	14	1	31	1.51
3864140--3864194	26	2.2	25	83	9	67	58	10	0	30	1.33
3864440--3864492	25	2.1	25	85	0	70	71	3	3	20	1.17
3869388--3869431	22	2.0	22	100	0	88	18	13	9	59	1.60
3872930--3872967	16	2.4	16	95	0	67	18	0	18	63	1.32
3880587--3880622	18	2.0	18	100	0	72	22	27	38	11	1.88
3886873--3887438	217	2.6	215	84	5	703	36	17	15	30	1.91
3890175--3890213	11	3.6	11	89	6	62	25	0	2	71	0.98
3892348--3892485	74	1.9	74	89	0	213	31	16	10	40	1.83
3894487--3894532	19	2.4	19	96	0	83	39	23	23	13	1.90
3903916--3903958	21	2.0	21	95	0	77	6	13	13	65	1.46
3909234--3909745	230	2.2	234	81	7	616	46	16	8	29	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3909334--3910148	443	1.8	439	80	6	984	42	17	9	31	1.80
3909770--3910279	234	2.2	234	89	2	780	41	16	10	31	1.82
3910663--3910695	11	3.1	11	86	4	50	81	0	12	6	0.85
3912985--3913021	11	3.2	12	85	14	51	48	0	5	45	1.25
3936703--3936738	3	12.3	3	94	5	65	66	0	0	33	0.92
3937119--3937167	21	2.3	20	77	16	55	48	4	10	36	1.56
3939991--3940026	15	2.2	17	90	9	58	55	2	0	41	1.14
3943331--3943374	21	2.2	20	83	4	52	63	4	4	27	1.33
3949927--3950025	50	1.9	52	87	4	148	22	13	24	40	1.89
3954631--3954666	5	6.8	5	93	3	54	80	2	16	0	0.83
3962856--3962901	20	2.3	20	92	0	74	13	19	17	50	1.78
3968124--3968566	224	2.0	218	88	5	649	35	15	17	32	1.91
3973673--3973701	2	15.0	2	92	7	51	48	0	0	51	1.00
3974092--3974176	31	2.8	30	74	15	84	44	9	7	38	1.64
3977899--3978002	49	2.1	49	98	0	199	21	18	6	53	1.67
3978007--3978065	29	2.1	28	93	3	100	22	15	8	54	1.68
3978618--3978661	22	2.0	23	81	4	54	31	0	2	65	1.05
3979573--3979624	26	2.0	26	100	0	104	26	30	19	23	1.98
3981423--3981448	11	2.4	11	100	0	52	0	11	7	80	0.89
3984154--3984191	19	2.0	20	90	10	62	36	18	10	34	1.85
3984208--3984241	17	2.0	17	94	0	59	50	0	0	50	1.00
3984381--3984414	17	2.0	17	88	0	50	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3991043--3991110	34	2.0	34	100	0	136	50	5	14	29	1.67
3996089--3996115	2	13.5	2	100	0	54	51	0	0	48	1.00
3996099--3996156	25	2.3	26	87	6	91	43	0	12	44	1.41
4006068--4006148	32	2.6	32	80	5	94	62	4	4	27	1.36
4007435--4007467	11	3.1	11	95	4	59	54	0	0	45	0.99
4008512--4008549	18	2.1	19	85	5	51	42	0	2	55	1.14
4013391--4013422	2	16.0	2	100	0	64	50	0	0	50	1.00
4022639--4022680	17	2.6	16	85	7	50	45	0	2	52	1.13
4023406--4023449	23	1.9	23	85	0	61	54	15	0	29	1.42
4023871--4023969	49	2.0	49	100	0	198	44	8	12	35	1.71
4025980--4026024	18	2.4	19	85	7	56	37	0	0	62	0.96
4030898--4030927	11	2.7	11	89	0	51	60	0	0	40	0.97
4031742--4031777	16	2.3	16	90	4	56	8	0	30	61	1.26
4031773--4031807	15	2.3	15	90	9	54	0	8	2	88	0.61
4032451--4033028	88	7.0	83	71	15	290	36	18	16	28	1.93
4032619--4032680	30	2.1	30	90	6	99	41	29	9	19	1.83
4032830--4033169	72	4.5	75	82	7	370	32	18	17	31	1.94
4033195--4033356	74	2.1	75	85	7	222	32	20	18	28	1.97
4033025--4033683	165	4.0	165	89	3	924	33	20	18	28	1.96
4033350--4033523	74	2.3	77	84	6	228	32	19	19	28	1.96
4033503--4033537	14	2.5	14	90	0	52	57	5	20	17	1.60
4033517--4033756	74	3.3	72	76	12	247	35	20	17	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4033513--4033965	74	6.3	71	70	15	236	37	20	16	25	1.93
4033842--4034086	122	2.0	122	87	4	352	40	22	13	24	1.89
4033965--4034366	71	5.5	70	74	11	331	36	23	15	25	1.94
4034068--4034371	158	1.9	155	93	2	518	37	22	15	24	1.93
4034221--4034386	72	2.3	71	88	4	244	41	21	15	22	1.89
4034386--4034651	73	3.7	71	83	6	342	38	22	13	24	1.91
4042953--4042988	16	2.3	16	90	4	56	8	0	30	61	1.26
4042984--4043016	6	5.8	6	89	10	52	0	9	0	90	0.44
4042984--4043016	11	2.9	11	95	4	57	0	9	0	90	0.44
4042984--4043019	17	2.2	16	95	5	63	0	8	0	91	0.41
4044629--4044662	17	2.0	17	88	11	52	58	0	2	38	1.13
4048838--4048881	22	2.0	23	95	4	81	54	0	18	27	1.44
4049339--4049385	24	2.0	23	84	12	60	59	14	6	19	1.56
4049366--4049414	22	2.2	23	85	3	64	46	20	12	20	1.82
4051095--4051119	5	5.0	5	100	0	50	20	0	0	80	0.72
4054535--4055285	238	3.1	239	80	7	885	26	12	23	37	1.90
4060514--4060543	16	1.9	16	93	6	53	33	16	0	50	1.46
4062748--4062796	21	2.4	20	77	12	55	40	0	4	55	1.19
4063103--4063149	23	2.0	23	100	0	94	61	12	4	21	1.48
4071588--4071614	2	13.5	2	100	0	54	51	0	0	48	1.00
4076750--4077069	159	2.0	157	85	2	435	34	24	10	30	1.89
4078477--4078501	10	2.5	10	100	0	50	0	12	0	88	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4079345--4079509	81	2.0	81	100	0	330	32	12	18	36	1.88
4081577--4081619	18	2.3	19	80	4	52	55	0	18	25	1.42
4087200--4087258	30	2.0	30	100	0	118	30	10	8	50	1.66
4104862--4104910	13	3.8	13	91	0	80	36	24	8	30	1.85
4124277--4124467	97	2.0	97	83	4	242	24	7	23	45	1.78
4124535--4124719	99	1.9	100	88	4	284	23	10	24	42	1.85
4124560--4124764	101	2.1	99	83	5	254	23	9	23	43	1.82
4124719--4124822	54	1.9	54	84	3	138	26	11	20	41	1.86
4127889--4127923	15	2.3	15	90	0	52	8	5	31	54	1.54
4136633--4136666	2	17.5	2	93	6	61	50	0	0	50	1.00
4138022--4138060	2	19.5	2	100	0	78	48	0	0	51	1.00
4138970--4139031	31	2.0	31	81	12	74	38	0	1	59	1.07
4138947--4139018	28	2.6	27	80	10	83	36	1	1	61	1.14
4142089--4142421	176	1.9	174	86	4	478	44	16	15	23	1.85
4143112--4143160	4	12.0	4	86	4	53	26	6	46	20	1.73
4144008--4144039	2	16.0	2	100	0	64	50	0	0	50	1.00
4144245--4144287	20	2.0	20	82	13	50	55	2	0	41	1.12
4146461--4146518	29	2.0	29	86	0	80	37	0	1	60	1.07
4146486--4146522	19	1.9	19	94	0	65	43	0	0	56	0.99
4146535--4146597	18	3.4	18	86	4	54	25	0	3	71	1.01
4146549--4146598	18	2.7	18	93	3	82	18	0	6	76	0.99
4146728--4146753	12	2.2	12	100	0	52	15	7	15	61	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4153513--4153575	30	2.1	30	82	11	76	49	3	1	46	1.27
4155654--4155721	31	2.2	32	81	7	86	32	19	8	39	1.82
4165719--4165757	3	13.0	3	100	0	78	33	0	0	66	0.92
4170789--4171003	85	2.5	84	80	7	238	34	15	9	40	1.79
4171309--4171333	2	12.5	2	100	0	50	0	48	0	52	1.00
4172151--4172181	4	7.8	4	92	0	53	22	0	22	54	1.44
4178894--4179010	60	2.0	60	86	10	168	20	8	17	52	1.70
4181727--4181773	25	1.9	25	86	4	69	53	8	14	23	1.69
4184277--4184502	123	1.8	122	88	2	346	29	13	18	38	1.89
4189251--4189287	19	1.9	19	94	0	65	35	5	16	43	1.71

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   350   351   352   
          353   354   355   356   357   358   359   360   361   362   363   364   365   366   367   368   
          369   370   371   372   373   374   375   376   377   378   379   380   381   382   383   384   
          385   386   387   388   389   390   391   392   393   394   395   396   397   398   399   400   
          401   402   403   404   405   406   407   408   409   410   411   412   413   414   415   416   
          417   418   419   420   421   422   423   424   425   426   427