genome.fa.s12.2.7.7.80.10.50.1000.275.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   

This is table  275  of  320  ( 38372 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)
88725808--88725837	15	2.0	15	93	0	51	50	0	10	40	1.36
88731959--88732025	33	2.0	33	97	0	125	22	20	22	34	1.97
88732225--88732279	5	11.4	5	76	21	55	20	1	0	78	0.85
88732223--88732286	20	3.2	19	81	18	76	21	1	0	76	0.87
88733821--88733850	15	2.0	15	93	0	51	50	0	10	40	1.36
88733875--88733906	10	3.3	10	95	4	57	31	6	0	62	1.20
88738055--88738122	34	2.0	34	100	0	136	41	23	20	14	1.89
88739424--88739487	2	32.0	2	100	0	128	0	50	0	50	1.00
88743633--88743664	2	16.5	2	93	6	57	46	0	0	53	1.00
88766485--88766557	35	2.1	34	92	2	119	26	19	15	39	1.90
88767218--88767263	23	2.0	23	84	12	60	45	10	6	36	1.65
88767225--88767269	23	2.0	23	82	8	56	40	13	8	37	1.76
88771523--88771579	30	1.9	29	86	10	80	59	10	5	24	1.51
88771776--88771810	12	2.9	12	86	0	52	45	2	8	42	1.49
88771824--88771985	3	55.0	3	67	9	66	59	1	9	29	1.38
88772183--88772229	3	16.0	3	78	12	53	61	4	2	31	1.27
88772183--88772223	23	1.9	21	85	14	57	60	4	2	31	1.30
88772265--88772537	143	1.9	146	87	3	401	58	6	4	30	1.42
88774579--88774606	10	2.8	10	100	0	56	71	7	10	10	1.31
88775253--88775304	25	2.1	25	85	0	68	38	15	9	36	1.80
88780587--88780633	21	2.2	21	78	17	53	48	4	4	42	1.42
88783188--88783242	21	2.6	21	88	0	83	36	14	29	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88786426--88786489	30	2.1	30	83	11	78	56	1	0	42	1.09
88793205--88793245	7	5.9	7	83	16	50	43	0	0	56	0.99
88794430--88794463	10	3.3	11	88	12	54	38	0	17	44	1.49
88799311--88799422	40	2.8	40	91	2	172	35	16	10	37	1.83
88805089--88805205	40	2.9	41	91	3	175	38	10	15	35	1.81
88805089--88805229	40	3.5	38	83	8	165	37	9	17	35	1.82
88810046--88810079	10	3.3	11	88	12	54	44	17	0	38	1.49
88811261--88811301	7	5.9	7	83	16	50	56	0	0	43	0.99
88817693--88817757	25	2.6	24	85	9	85	32	0	1	66	1.01
88817693--88817772	30	2.6	30	75	11	83	31	0	2	66	1.05
88830045--88830078	10	3.3	11	88	12	54	38	0	17	44	1.49
88834926--88835037	40	2.8	40	91	2	172	35	16	10	37	1.83
88838385--88839006	44	14.1	43	81	5	586	29	25	16	28	1.97
88838392--88838981	177	3.3	177	92	0	916	29	25	16	28	1.97
88855100--88855250	51	3.1	51	84	13	226	28	23	16	31	1.96
88855097--88855255	44	3.5	44	85	10	219	28	23	16	31	1.96
88857800--88857857	29	2.0	29	96	0	107	32	13	36	17	1.89
88874669--88874826	44	3.7	43	76	10	153	33	26	17	22	1.96
88874664--88874833	86	2.0	85	81	5	200	35	25	15	22	1.94
88886628--88886656	5	5.8	5	100	0	58	82	0	0	17	0.66
88894482--88894541	20	2.8	22	76	23	65	51	0	1	46	1.10
88895248--88895291	21	2.2	20	84	12	54	63	13	13	9	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88896132--88896215	42	2.0	42	95	0	150	27	32	15	25	1.95
88899061--88899122	28	2.1	29	88	5	90	48	0	32	19	1.49
88900236--88900421	26	7.4	26	75	7	150	59	3	5	30	1.39
88900236--88900423	50	3.7	52	76	9	165	59	4	5	30	1.40
88900276--88900423	48	2.9	51	78	7	167	60	4	4	30	1.38
88900670--88900720	25	2.1	24	82	10	59	56	1	5	35	1.35
88902482--88902510	13	2.1	14	93	6	51	51	0	3	44	1.18
88903024--88903087	31	2.0	32	85	8	87	45	0	7	46	1.32
88903568--88903615	15	3.3	15	82	2	62	37	2	12	47	1.53
88905332--88905420	38	2.4	37	83	5	124	30	14	22	32	1.94
88908897--88909062	53	3.1	53	87	6	212	25	15	28	30	1.95
88916400--88916548	53	2.8	53	88	5	205	26	16	27	28	1.97
88919121--88919200	41	2.0	41	100	0	160	26	10	16	47	1.77
88922674--88922721	19	2.5	19	86	3	60	22	2	4	70	1.15
88923008--88923053	22	2.1	22	100	0	92	41	10	21	26	1.86
88945239--88945315	33	2.3	33	82	4	93	38	15	18	27	1.91
88947016--88947157	52	2.7	54	80	4	157	26	16	27	30	1.96
88947649--88947710	31	2.0	31	100	0	124	29	3	25	41	1.71
88949637--88949694	28	2.1	28	93	0	98	44	6	13	34	1.71
88949922--88949955	17	2.1	16	94	5	59	50	0	0	50	1.00
88950892--88950947	6	9.2	6	84	2	67	19	17	16	46	1.84
88952727--88952751	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88954009--88954601	47	12.3	47	85	7	776	33	8	28	29	1.87
88954009--88954601	96	6.1	96	86	8	783	33	8	28	29	1.87
88954003--88954601	237	2.5	240	89	5	899	33	8	28	29	1.87
88954477--88954502	13	2.0	13	100	0	52	23	0	30	46	1.53
88954430--88954549	60	2.0	60	98	0	231	30	6	29	33	1.83
88954383--88954588	107	1.9	107	90	0	331	31	8	30	29	1.87
88954438--88954534	31	3.2	31	67	26	89	30	8	29	30	1.86
88956065--88956364	40	7.5	40	89	0	429	24	21	28	26	1.99
88958542--88958566	13	1.9	13	100	0	50	32	16	16	36	1.90
88959826--88960371	47	11.3	47	86	8	745	32	8	29	29	1.87
88959826--88960371	96	5.6	94	87	7	763	32	8	29	29	1.87
88959821--88960371	237	2.3	240	91	4	874	32	8	29	29	1.87
88960200--88960319	60	2.0	60	96	0	222	30	7	29	32	1.85
88960156--88960366	107	2.0	107	90	0	332	31	9	30	29	1.88
88960208--88960304	31	3.2	31	67	26	89	30	9	29	29	1.88
88963932--88963995	28	2.3	28	78	5	67	51	6	1	40	1.36
88970874--88970934	31	2.0	31	86	0	86	39	13	14	32	1.85
88974996--88975063	31	2.2	31	84	10	86	55	0	0	44	0.99
88975448--88975473	12	2.2	12	100	0	52	23	0	0	76	0.78
88976703--88976818	61	1.9	60	84	5	153	26	9	10	53	1.65
88977252--88977327	31	2.5	31	82	4	91	47	10	15	26	1.78
88992059--88992083	8	3.1	8	100	0	50	76	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88995291--88995373	25	3.3	25	83	5	96	24	19	24	32	1.97
88999977--89000011	15	2.4	14	86	9	52	25	14	5	54	1.62
88999979--89000009	15	2.1	15	93	0	53	22	12	6	58	1.58
89000198--89000355	43	3.7	41	78	9	138	31	24	17	26	1.97
89005862--89005916	18	3.0	18	81	2	56	20	5	25	49	1.70
89014911--89014962	26	2.2	22	86	13	68	40	3	0	55	1.18
89018496--89018534	14	2.8	14	84	0	51	69	2	5	23	1.21
89024146--89024354	21	10.0	21	78	2	186	45	15	21	17	1.85
89024146--89024351	84	2.5	84	87	0	295	45	15	21	17	1.86
89024146--89024354	42	5.0	42	83	0	265	45	15	21	17	1.85
89026114--89026412	146	2.0	148	94	1	530	33	13	14	38	1.85
89027593--89027648	29	1.9	29	85	7	78	50	5	19	25	1.69
89027898--89027931	13	2.6	13	100	0	68	44	0	5	50	1.26
89027888--89027935	13	3.8	13	89	5	64	41	0	4	54	1.20
89029523--89029635	33	3.4	33	80	7	113	35	18	22	23	1.96
89029711--89029882	46	3.7	46	89	0	254	43	13	23	19	1.86
89029997--89030345	174	2.0	174	100	0	698	46	6	14	32	1.70
89032081--89032152	25	2.9	25	75	6	74	23	26	19	30	1.98
89032514--89032543	14	2.1	14	93	0	51	46	36	0	16	1.47
89035746--89035853	26	4.2	26	91	2	173	36	23	7	33	1.83
89053427--89053487	29	2.1	30	87	9	90	55	3	0	40	1.16
89053946--89053987	18	2.3	18	88	8	59	35	0	2	61	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89055910--89055961	16	3.5	15	78	17	56	55	7	1	34	1.39
89055944--89056004	12	5.0	13	80	4	58	60	3	1	34	1.23
89055970--89056004	3	11.7	3	100	0	70	65	0	0	34	0.93
89055844--89056305	151	3.1	149	82	12	561	60	5	3	30	1.36
89056242--89056322	7	10.5	8	68	22	50	61	2	2	33	1.22
89056236--89056295	22	2.8	23	81	18	69	63	5	1	30	1.25
89056290--89056334	24	2.0	23	83	12	58	60	0	4	35	1.17
89059218--89059337	41	2.9	41	78	12	127	17	25	18	38	1.92
89059218--89059338	42	2.9	41	81	9	138	17	26	18	38	1.92
89059256--89059322	21	3.2	21	74	4	64	16	25	19	38	1.92

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