genome.fa.s4.2.7.7.80.10.50.1000.17.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: Chr04 98600468 
Parameters: 2 7 7 80 10 50 1000
Length:  98600468

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   

This is table  17  of  325  ( 38914 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)
3887723--3887776	28	1.9	27	82	14	65	24	0	25	50	1.50
3887719--3887791	35	2.1	35	85	10	96	26	0	24	49	1.51
3893155--3893194	20	2.0	20	85	9	55	50	0	30	20	1.49
3899006--3899039	15	2.2	16	89	5	52	70	0	0	29	0.87
3902098--3902245	73	2.0	73	92	0	242	28	22	25	22	1.99
3903769--3903822	9	5.8	9	76	8	54	35	0	5	59	1.21
3903765--3903822	18	3.1	19	80	12	66	36	0	5	58	1.20
3903768--3903822	19	2.9	19	79	12	69	36	0	5	58	1.21
3903768--3903823	20	3.0	20	82	10	73	35	0	5	58	1.21
3903716--3903808	45	2.0	49	81	8	113	37	3	4	54	1.36
3904365--3904391	2	13.5	2	100	0	54	48	0	0	51	1.00
3913275--3913310	18	2.0	18	100	0	72	38	5	33	22	1.77
3915437--3915463	2	13.5	2	100	0	54	51	0	0	48	1.00
3917666--3917700	16	2.2	17	90	10	56	20	5	14	60	1.54
3919682--3919710	10	3.0	10	95	5	51	68	0	0	31	0.89
3919681--3919725	19	2.4	18	82	10	54	64	0	0	35	0.94
3924900--3924962	10	5.8	11	73	14	51	30	3	6	60	1.37
3924890--3924964	32	2.3	32	95	4	132	32	4	6	57	1.43
3924910--3924964	16	3.3	18	70	19	64	30	3	5	60	1.37
3930332--3930580	131	1.9	131	90	0	399	31	19	20	28	1.97
3932873--3932902	13	2.3	13	94	0	51	0	6	13	80	0.91
3935379--3935404	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3947519--3947543	12	2.1	12	100	0	50	40	0	0	60	0.97
3954352--3954408	20	2.9	20	87	7	73	42	0	5	52	1.24
3955312--3955371	30	2.0	30	90	0	93	46	5	20	28	1.71
3961411--3961550	27	5.2	28	88	5	175	35	22	24	18	1.96
3963168--3963303	26	5.2	26	97	0	227	34	24	7	33	1.83
3965470--3965509	20	2.0	20	100	0	80	35	0	20	45	1.51
3971369--3971436	21	3.3	21	81	8	77	29	13	23	33	1.93
3971379--3971444	21	3.2	21	74	20	59	30	12	24	33	1.91
3979694--3979801	43	2.5	43	86	3	155	36	22	13	27	1.92
3982388--3982429	13	3.2	13	100	0	84	35	0	0	64	0.94
3982437--3982472	18	1.9	19	88	5	56	44	2	5	47	1.41
3982462--3982500	20	2.0	19	90	5	60	30	5	0	64	1.15
3984162--3984231	21	3.4	21	78	7	81	28	14	25	31	1.95
3986273--3986338	34	1.9	34	96	0	123	22	15	9	53	1.70
3995456--3995500	23	2.0	23	82	8	56	37	8	13	40	1.76
3997032--3997062	15	2.1	15	100	0	62	12	12	25	48	1.77
3999890--3999969	41	2.0	41	100	0	160	31	26	2	40	1.69
4000657--4000697	18	2.3	19	87	8	59	46	0	0	53	1.00
4004026--4004111	35	2.2	38	86	13	115	37	8	15	39	1.77
4004018--4004088	17	3.9	19	85	10	112	36	9	15	38	1.81
4004049--4004124	22	3.7	21	78	11	77	35	5	17	42	1.72
4004375--4004409	18	2.0	17	88	5	52	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4014416--4014781	78	4.5	78	85	7	448	32	18	24	24	1.97
4014650--4014876	45	5.1	46	73	11	186	31	14	27	25	1.95
4015225--4015302	35	2.2	37	84	11	110	38	10	16	34	1.83
4015225--4015295	18	3.9	19	85	12	105	38	11	15	35	1.83
4015275--4015318	23	2.0	23	86	8	65	38	4	18	38	1.71
4015588--4015621	17	1.9	18	88	5	52	29	0	0	70	0.87
4021482--4021632	52	2.9	52	80	8	139	27	17	23	31	1.97
4021966--4022137	80	2.1	81	86	4	240	31	19	18	30	1.96
4022135--4022300	74	2.2	74	91	4	264	38	18	13	29	1.89
4022693--4022751	21	2.8	22	85	7	70	23	0	6	69	1.12
4022722--4022780	26	2.4	24	83	10	75	28	0	3	67	1.06
4023055--4023326	75	3.7	75	88	3	401	30	20	17	30	1.96
4035141--4035203	22	2.9	23	81	9	78	12	9	49	28	1.72
4035469--4035509	22	1.9	22	85	5	57	68	14	14	2	1.32
4035466--4035513	25	2.0	24	83	4	60	68	12	14	4	1.34
4063828--4063863	18	2.0	18	88	0	54	22	2	2	72	1.11
4063869--4063912	18	2.5	17	82	10	52	40	0	4	54	1.21
4063881--4063922	18	2.3	18	88	8	59	38	0	0	61	0.96
4064487--4064514	2	14.0	2	100	0	56	50	0	0	50	1.00
4064916--4064977	31	2.0	31	84	6	81	58	1	3	37	1.24
4065040--4065096	30	1.9	30	82	13	73	47	3	0	49	1.18
4065270--4065318	13	3.8	13	75	0	53	32	14	10	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4065268--4065320	26	2.0	26	92	0	88	33	16	9	39	1.81
4066473--4066515	20	2.1	21	86	4	61	55	0	0	44	0.99
4071846--4071884	2	19.5	2	100	0	78	51	0	0	48	1.00
4073524--4073733	104	2.0	107	91	3	345	35	2	4	57	1.33
4073542--4073765	104	2.2	101	84	9	283	33	2	5	58	1.35
4074850--4074897	24	2.0	23	84	4	60	47	6	0	45	1.27
4077750--4077779	6	5.0	6	95	0	51	50	13	16	20	1.78
4078631--4078678	21	2.2	21	88	3	69	4	18	2	75	1.07
4078632--4078665	16	2.2	16	89	5	52	2	20	0	76	0.92
4078734--4078817	3	28.3	3	90	7	136	33	0	1	65	1.00
4078880--4078926	24	1.9	24	82	4	58	36	19	4	40	1.71
4081353--4081394	18	2.3	18	95	0	75	45	11	9	33	1.73
4084087--4084112	12	2.2	12	100	0	52	23	34	7	34	1.83
4088692--4088718	2	13.5	2	100	0	54	51	0	0	48	1.00
4090385--4090435	26	2.0	26	84	3	68	64	3	0	31	1.11
4090397--4090445	26	2.0	24	88	8	71	63	6	0	30	1.19
4091119--4091157	20	2.0	20	94	0	69	51	2	5	41	1.38
4092181--4092235	24	2.4	24	82	8	62	52	5	0	41	1.24
4092301--4092325	4	6.2	4	100	0	50	52	0	0	48	1.00
4093587--4093694	26	4.2	26	90	0	171	32	9	24	34	1.87
4101589--4101629	19	2.0	21	86	9	59	7	19	0	73	1.07
4102030--4102064	17	2.1	17	89	10	54	22	0	0	77	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4102314--4102510	105	1.9	106	87	7	294	34	2	4	58	1.32
4103202--4103231	2	15.0	2	92	0	51	50	3	0	46	1.18
4104146--4104189	24	1.9	22	81	9	52	52	4	0	43	1.22
4105026--4105051	13	2.0	13	100	0	52	23	23	15	38	1.92
4106599--4106632	6	5.3	6	86	13	50	35	0	14	50	1.44
4106602--4106632	14	2.2	14	100	0	62	35	0	12	51	1.40
4107359--4107388	12	2.6	12	94	5	53	93	0	6	0	0.35
4107360--4107391	15	2.1	15	94	0	55	90	0	9	0	0.45
4109788--4109817	8	3.8	8	95	0	51	33	0	16	50	1.46
4109786--4109828	16	2.7	15	82	13	50	37	0	13	48	1.43
4110487--4110555	31	2.1	33	84	12	90	59	2	5	31	1.36
4112392--4112417	10	2.6	10	100	0	52	26	0	0	73	0.84
4120089--4120117	2	14.5	2	100	0	58	51	0	0	48	1.00
4122097--4122157	30	2.0	30	83	0	77	31	22	8	37	1.84
4138971--4139034	13	4.9	13	70	14	51	37	20	6	35	1.78
4142304--4142362	15	3.9	15	90	0	73	23	16	35	23	1.95
4142300--4142365	30	2.2	30	88	0	96	24	15	39	21	1.91
4142308--4142373	30	2.2	30	83	0	78	25	18	30	25	1.98
4142326--4142384	30	2.0	30	82	0	73	25	15	35	23	1.94
4148780--4148820	20	2.1	20	90	4	66	65	7	4	21	1.37
4148800--4148858	22	2.6	23	78	10	59	66	1	3	28	1.18
4149062--4149103	22	1.9	22	85	0	57	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4160720--4160751	15	2.1	15	100	0	64	50	6	12	31	1.65
4167134--4167176	21	2.0	21	81	4	50	44	0	2	53	1.13
4168089--4168164	26	2.9	26	94	3	127	35	6	23	34	1.81
4170175--4170300	47	2.7	47	82	2	128	30	23	15	30	1.95
4170324--4170470	31	4.7	31	90	0	222	25	27	19	27	1.99
4170448--4170624	50	3.5	50	83	5	214	27	20	16	35	1.94
4176782--4176851	33	2.1	33	100	0	140	40	14	2	42	1.60
4180687--4180731	17	2.6	17	78	0	54	60	8	0	31	1.28
4196430--4196505	30	2.4	32	83	12	88	48	1	0	50	1.09
4196763--4196842	32	2.5	34	78	15	98	56	1	1	41	1.15

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