genome.fa.s5.2.7.7.80.10.50.1000.11.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: Chr05 97880472 
Parameters: 2 7 7 80 10 50 1000
Length:  97880472

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   

This is table  11  of  335  ( 40112 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)
3805252--3805325	38	1.9	38	97	0	139	52	12	9	25	1.68
3809606--3809650	5	9.0	5	90	9	74	40	0	0	60	0.97
3809569--3809652	10	8.0	10	74	18	57	41	1	1	55	1.15
3810133--3810193	21	2.8	21	80	5	77	13	21	27	37	1.90
3810123--3810205	21	3.9	21	77	3	67	14	19	26	39	1.90
3817708--3817747	19	2.1	19	100	0	80	15	0	15	70	1.18
3835517--3835546	2	15.0	2	100	0	60	0	50	0	50	1.00
3838434--3838459	12	2.2	12	100	0	52	23	7	26	42	1.81
3846655--3846679	4	6.2	4	100	0	50	24	0	0	76	0.80
3851656--3851713	29	2.0	29	100	0	116	27	13	17	41	1.87
3853312--3853351	21	1.9	21	84	0	53	17	70	7	5	1.30
3857191--3857301	18	6.2	18	86	0	150	29	20	14	35	1.92
3864280--3864350	18	3.9	18	79	0	79	28	21	15	35	1.94
3868393--3868448	11	5.2	11	82	4	69	19	44	7	28	1.77
3870535--3870658	39	3.2	39	96	0	230	37	21	25	15	1.92
3870535--3870640	21	5.3	21	71	13	98	38	20	24	16	1.92
3870558--3870658	18	5.3	18	70	13	85	37	21	25	14	1.92
3870517--3870681	78	2.1	78	87	2	242	37	23	23	15	1.93
3872785--3872820	13	2.8	14	84	16	51	27	25	0	47	1.52
3872772--3872812	18	2.2	19	87	12	59	29	24	0	46	1.53
3872976--3873060	21	4.0	21	80	4	80	38	25	21	14	1.91
3872974--3873048	21	3.5	22	83	7	91	38	26	21	13	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3873347--3873404	15	3.8	15	83	2	80	51	10	0	37	1.36
3873350--3873408	30	2.0	28	93	6	100	55	10	0	33	1.33
3873560--3873611	2	26.0	2	92	0	86	50	46	0	3	1.20
3873611--3873656	2	23.5	2	91	4	76	50	0	0	50	1.00
3874821--3874868	24	2.0	24	83	4	60	33	6	0	60	1.22
3880026--3880063	2	19.0	2	100	0	76	50	0	50	0	1.00
3881723--3881747	6	4.2	6	100	0	50	84	0	0	16	0.63
3884285--3884309	11	2.3	11	100	0	50	0	8	0	92	0.40
3885563--3885604	18	2.2	20	83	8	52	52	7	9	30	1.61
3889533--3889683	53	2.8	53	89	4	214	25	16	27	29	1.97
3897050--3897200	53	2.8	53	89	4	214	25	16	27	29	1.97
3899284--3899459	46	3.8	46	75	10	178	20	19	28	31	1.97
3899281--3899451	93	1.8	93	89	0	270	20	20	28	30	1.98
3902269--3902313	17	2.6	17	86	13	65	60	0	0	40	0.97
3902347--3902386	21	1.9	21	100	0	80	35	20	17	27	1.95
3915597--3915681	42	2.0	42	93	0	143	31	8	20	40	1.82
3917944--3918012	33	2.2	31	84	10	86	56	10	4	28	1.51
3918077--3918121	23	2.0	23	86	0	63	35	2	15	46	1.58
3924665--3924692	14	2.0	14	100	0	56	28	0	21	50	1.49
3931646--3931697	19	2.7	19	82	14	54	55	3	1	38	1.29
3931836--3931874	12	3.2	12	82	13	53	41	0	2	56	1.13
3932337--3932380	20	2.2	20	80	11	56	43	0	6	50	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3932819--3932860	21	2.0	22	85	4	59	57	0	7	35	1.26
3952151--3952176	6	4.3	6	100	0	52	19	30	19	30	1.96
3965998--3966074	30	2.6	28	80	15	84	58	0	2	38	1.12
3966009--3966065	30	1.9	30	89	7	89	57	0	0	42	0.98
3966150--3966208	19	2.7	23	75	17	63	69	0	6	23	1.12
3971740--3971768	2	14.5	2	100	0	58	48	0	0	51	1.00
3973067--3973104	18	2.1	19	85	5	51	34	13	23	28	1.92
3990208--3990457	25	10.4	25	83	8	256	19	24	20	36	1.95
3990232--3990415	72	2.5	72	85	6	219	19	23	20	35	1.95
3990208--3990465	122	2.1	119	84	10	346	19	24	19	36	1.95
3997921--3997974	27	2.0	27	85	7	74	59	0	1	38	1.08
4000158--4000193	2	18.0	2	100	0	72	50	0	0	50	1.00
4009367--4009436	22	3.2	22	93	2	124	32	5	14	47	1.68
4025681--4025711	12	2.6	12	94	0	53	0	25	0	74	0.82
4025791--4025821	16	1.9	16	93	0	53	54	3	0	41	1.16
4027716--4027753	18	2.1	19	90	5	60	34	23	0	42	1.55
4028622--4028708	24	3.6	24	78	7	86	18	25	21	34	1.96
4031176--4031452	50	5.5	50	92	0	446	35	15	22	26	1.94
4031432--4031490	31	1.9	31	100	0	118	28	20	25	25	1.99
4031445--4031536	46	2.0	46	89	0	139	26	22	23	27	2.00
4031492--4031560	31	2.2	31	84	0	84	26	20	26	27	1.99
4036501--4036569	33	2.2	32	84	10	88	56	8	0	34	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4041996--4042064	33	2.2	32	82	10	79	55	8	0	36	1.31
4043181--4043205	11	2.3	11	100	0	50	36	0	0	64	0.94
4047400--4047654	55	4.8	53	80	7	227	21	24	16	36	1.94
4047447--4047647	108	1.8	110	89	4	318	23	24	16	34	1.95
4050537--4050605	29	2.3	31	82	7	88	47	4	17	30	1.67
4050537--4050604	30	2.3	30	84	5	84	48	4	17	29	1.67
4052751--4052982	46	5.0	46	89	1	295	40	13	24	21	1.90
4053263--4053295	17	2.0	17	94	5	59	48	0	15	36	1.45
4054358--4054405	25	1.9	25	95	0	87	22	22	14	39	1.91
4055723--4055789	29	2.2	31	81	7	84	46	5	19	28	1.73
4060188--4060465	46	6.0	46	90	2	389	41	14	23	21	1.89
4060188--4060460	92	3.0	91	91	2	438	41	13	23	21	1.89
4062510--4062588	4	19.2	4	69	10	52	5	25	5	64	1.35
4062606--4062636	14	2.2	14	94	0	53	22	16	0	61	1.34
4063249--4063281	17	2.0	17	94	5	59	48	0	15	36	1.45
4070650--4070679	2	15.0	2	100	0	60	50	0	0	50	1.00
4070724--4070783	30	2.0	30	100	0	120	26	23	23	26	2.00
4077559--4077596	17	2.1	19	85	9	53	52	7	0	39	1.31
4077619--4077697	40	2.0	41	85	7	108	60	3	3	31	1.32
4081563--4081607	2	22.5	2	86	8	65	44	2	2	51	1.26
4081629--4081660	3	10.7	3	100	0	64	34	0	0	65	0.93
4088174--4088305	64	2.0	66	92	5	225	40	16	15	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4089875--4089989	46	2.5	46	87	2	169	37	11	6	44	1.67
4091567--4091602	16	2.2	16	90	0	54	22	8	0	69	1.15
4092922--4092957	18	2.0	18	88	0	54	22	5	25	47	1.73
4094709--4094740	10	3.0	11	90	9	57	18	0	0	81	0.70
4096695--4096763	28	2.5	28	88	6	97	27	14	27	30	1.95
4096695--4096773	28	2.9	27	85	9	81	27	15	25	31	1.95
4104429--4104497	28	2.5	28	88	6	97	27	14	27	30	1.95
4104429--4104507	28	2.9	27	85	9	81	27	15	25	31	1.95
4108457--4108494	20	1.9	20	88	0	58	42	7	5	44	1.56
4114504--4114538	12	2.9	12	86	0	52	48	8	2	40	1.49
4116964--4116994	2	15.5	2	100	0	62	51	0	0	48	1.00
4117859--4118074	107	2.0	108	96	0	398	43	5	9	42	1.60
4128680--4128727	15	3.1	16	83	16	57	70	2	0	27	0.98
4128671--4128741	11	6.5	11	76	12	58	66	2	0	30	1.06
4132352--4132429	19	3.7	21	76	10	61	38	24	20	16	1.93
4132361--4132411	21	2.5	20	78	6	59	33	23	25	17	1.96
4132373--4132419	21	2.1	21	92	7	76	36	27	23	12	1.91
4132347--4132429	23	3.9	22	73	13	66	38	24	19	18	1.93
4132604--4132648	13	3.7	13	72	27	53	40	15	0	44	1.47
4132602--4132645	23	2.0	23	95	4	81	40	15	0	43	1.47
4132836--4132867	15	2.1	16	94	5	57	56	6	0	37	1.25
4143898--4143945	15	3.1	16	83	16	57	70	2	0	27	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4143889--4143959	11	6.5	11	76	12	58	66	2	0	30	1.06
4146586--4146621	2	18.0	2	100	0	72	50	0	0	50	1.00
4159317--4159500	82	2.2	82	81	7	230	49	10	2	37	1.51
4159317--4159538	83	2.7	84	79	9	235	48	9	3	38	1.53
4178707--4178872	35	4.6	35	86	8	192	33	24	10	31	1.90
4178702--4178874	75	2.4	72	83	11	221	33	23	10	31	1.90
4186193--4186360	35	4.6	35	85	7	185	33	23	10	32	1.89
4186188--4186360	75	2.4	73	83	9	210	33	23	10	32	1.89
4194731--4194770	20	2.0	21	90	5	64	42	2	0	55	1.13
4196935--4197018	44	1.9	44	97	0	159	21	17	17	42	1.89

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