genome.fa.s3.2.7.7.80.10.50.1000.165.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   

This is table  165  of  333  ( 39894 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)
54222595--54222665	37	1.9	37	91	0	115	25	22	25	26	2.00
54221814--54224181	826	2.9	826	92	1	3726	25	18	26	30	1.98
54222980--54223237	133	1.9	133	81	3	313	28	18	24	28	1.98
54223321--54223377	29	2.0	29	82	0	69	24	7	33	35	1.82
54223421--54223491	37	1.9	37	91	0	115	25	22	25	26	2.00
54224435--54224491	29	2.0	29	82	0	69	24	7	33	35	1.82
54224500--54224605	37	2.9	37	84	2	124	26	21	25	26	2.00
54225355--54225508	77	2.0	77	84	0	200	26	15	26	31	1.96
54225264--54225578	173	1.8	173	86	0	459	26	17	24	31	1.97
54225613--54226699	402	2.7	401	82	2	1333	26	17	25	30	1.98
54226739--54226807	24	2.8	25	64	24	65	26	14	24	34	1.94
54227309--54227430	48	2.5	47	88	5	181	24	19	27	28	1.99
54227726--54227902	56	3.1	57	98	1	340	45	9	23	22	1.80
54228236--54228367	40	3.3	40	88	3	196	23	21	28	26	1.99
54228236--54228400	79	2.1	79	83	6	201	25	20	27	26	1.99
54229756--54229998	48	5.2	48	83	7	329	26	19	25	27	1.99
54229778--54229956	90	2.0	90	90	2	279	26	21	25	27	1.99
54229756--54230005	90	2.7	89	75	18	242	26	19	26	28	1.99
54229756--54230006	138	1.8	138	89	1	389	26	19	25	27	1.99
54233617--54233696	42	1.9	42	82	5	99	27	12	27	32	1.93
54243404--54243628	40	5.7	40	83	7	253	26	27	21	24	1.99
54243406--54243628	119	1.9	120	82	8	285	26	27	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54250087--54250304	40	5.5	40	82	4	219	27	26	20	26	1.99
54250087--54250304	80	2.7	80	81	6	255	27	26	20	26	1.99
54250089--54250304	119	1.8	120	81	7	269	26	26	20	26	1.99
54253259--54253397	50	2.8	49	79	6	147	29	18	20	30	1.97
54254996--54255041	20	2.3	20	96	0	83	21	43	23	10	1.84
54261634--54261658	12	2.1	12	100	0	50	28	8	24	40	1.83
54270225--54270267	18	2.4	18	77	14	52	46	6	9	37	1.63
54270712--54270894	56	3.3	55	85	6	235	25	13	28	32	1.94
54270737--54270917	28	6.5	28	94	1	276	26	13	28	31	1.94
54278355--54278397	18	2.4	18	77	14	52	46	6	9	37	1.63
54278841--54279023	56	3.3	55	85	6	235	25	13	28	32	1.94
54278866--54279046	28	6.5	28	94	1	276	26	13	28	31	1.94
54281535--54281625	44	2.1	44	100	0	182	38	12	8	40	1.73
54285567--54285682	39	3.0	39	92	0	178	23	19	28	28	1.98
54288400--54288440	17	2.4	17	100	0	82	17	31	31	19	1.95
54288697--54288744	25	1.9	25	86	0	69	33	25	16	25	1.96
54288792--54288848	11	5.5	11	68	16	50	35	12	19	33	1.89
54288781--54288848	20	3.4	20	91	0	109	33	11	20	33	1.89
54288897--54289063	23	7.1	23	89	2	244	28	22	20	28	1.98
54288896--54289065	47	3.6	46	85	4	241	29	21	20	28	1.98
54296268--54296315	25	1.9	25	87	8	71	35	25	16	22	1.95
54296352--54296418	20	3.3	20	91	0	107	34	11	19	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54296469--54296634	23	7.1	23	90	2	242	28	21	21	28	1.98
54296468--54296631	24	7.0	23	90	2	238	28	21	21	28	1.99
54296467--54296634	47	3.6	47	88	3	257	29	21	20	28	1.98
54296848--54296911	31	2.1	31	90	0	101	35	15	23	25	1.94
54302757--54302881	39	3.2	39	91	0	187	22	19	29	28	1.98
54302757--54302900	78	1.8	78	82	5	184	22	20	29	27	1.99
54303865--54303904	18	2.2	18	90	0	62	45	0	2	52	1.14
54304958--54305033	37	2.1	37	100	0	152	40	11	5	42	1.64
54306772--54306830	25	2.4	25	80	8	75	59	1	1	37	1.18
54313896--54313974	27	2.9	27	79	5	86	22	24	18	34	1.97
54327022--54327091	28	2.5	28	88	4	97	25	14	25	34	1.94
54328788--54328847	30	2.0	29	87	3	84	38	8	25	28	1.84
54329311--54329563	68	3.9	63	77	11	217	30	16	28	24	1.97
54337512--54337769	40	6.5	40	91	2	369	25	27	23	23	2.00
54345002--54345193	40	4.8	40	89	1	269	26	27	22	23	2.00
54345198--54345249	18	2.7	19	73	5	52	38	26	3	30	1.74
54350908--54351022	29	4.0	29	78	10	103	30	27	12	29	1.93
54352516--54352540	7	3.6	7	100	0	50	44	44	12	0	1.41
54362746--54362784	20	1.9	20	84	5	51	10	25	12	51	1.71
54363847--54363872	7	3.7	7	100	0	52	42	46	11	0	1.40
54363894--54363923	15	2.0	15	93	0	51	30	20	23	26	1.98
54372530--54372674	40	3.6	40	88	5	213	23	22	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54372933--54372976	22	2.0	21	83	16	54	31	18	13	36	1.90
54378171--54378356	40	4.7	40	88	4	243	26	20	26	25	1.99
54378178--54378389	40	5.3	39	86	6	207	28	19	25	25	1.99
54393354--54393467	47	2.4	47	92	0	192	21	15	29	32	1.95
54409752--54409876	52	2.5	51	84	2	153	24	15	27	33	1.95
54409859--54409893	17	2.1	17	94	0	61	28	11	28	31	1.92
54409876--54410058	50	3.7	49	85	2	213	24	16	27	31	1.96
54416673--54416714	14	2.9	14	85	3	57	73	2	21	2	1.06
54422696--54423534	27	31.2	27	80	8	906	27	20	10	41	1.84
54423539--54423715	27	6.6	27	84	0	228	37	20	17	24	1.93
54423539--54423715	81	2.2	81	89	0	264	37	20	17	24	1.93
54423539--54423735	54	3.6	53	84	4	198	37	19	18	25	1.94
54423933--54424015	27	3.1	26	86	5	103	19	20	21	38	1.93
54424328--54424399	27	2.7	27	82	6	76	18	26	19	36	1.94
54424517--54424618	6	16.8	6	76	13	102	20	17	13	48	1.81
54424517--54424618	30	3.4	30	90	1	159	20	17	13	48	1.81
54428437--54428554	43	2.8	42	77	7	139	22	16	28	33	1.95
54434533--54434585	26	2.0	26	96	0	97	30	15	20	33	1.93
54436300--54436471	43	4.0	44	75	14	162	29	25	18	26	1.98
54447964--54448187	40	5.6	40	81	7	258	24	26	24	25	2.00
54452107--54452197	29	3.2	29	87	3	123	25	15	31	27	1.95
54452520--54452586	27	2.5	27	92	0	116	38	26	10	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54453703--54453741	19	2.1	18	85	4	51	17	23	25	33	1.96
54459113--54459151	21	1.9	20	89	5	60	46	23	0	30	1.53
54459673--54459697	11	2.3	11	100	0	50	72	0	0	28	0.86
54461928--54461971	22	2.0	22	81	0	52	38	0	4	56	1.20
54463793--54463826	2	17.0	2	93	0	59	52	0	47	0	1.00
54465446--54465637	24	8.0	24	91	1	278	28	19	22	30	1.98
54465687--54465753	20	3.3	20	93	0	116	32	20	11	34	1.90
54465687--54465742	11	5.5	11	71	16	57	32	19	12	35	1.89
54469157--54469188	14	2.3	14	94	0	55	28	6	21	43	1.77
54470281--54470368	43	2.0	43	100	0	176	32	30	9	27	1.88
54477188--54477362	46	3.8	46	75	15	189	30	29	19	20	1.97
54477195--54477366	93	1.8	93	92	2	292	29	29	19	20	1.97
54484768--54484939	93	1.8	93	92	2	292	27	30	20	21	1.98
54484761--54484936	46	3.8	46	77	14	191	28	30	19	21	1.98
54484804--54484955	46	3.3	46	75	14	152	29	28	19	23	1.98
54493882--54493960	37	2.1	37	88	4	115	25	30	18	25	1.98
54494079--54494616	47	11.4	47	94	0	887	29	28	8	33	1.87
54500848--54500913	25	2.6	25	85	0	96	27	22	16	33	1.96
54505612--54505763	27	5.6	27	92	3	232	27	13	28	30	1.94
54505612--54505763	55	2.8	55	92	0	241	27	13	28	30	1.94
54516883--54517034	27	5.6	27	91	3	223	27	12	28	30	1.93
54516883--54517034	55	2.8	55	90	0	232	27	12	28	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54544434--54544537	41	2.5	41	93	0	172	33	24	17	25	1.96
54545096--54545126	15	2.1	15	93	0	53	54	22	0	22	1.44
54546077--54546148	34	2.1	34	100	0	144	25	31	11	31	1.90
54548657--54549131	48	9.9	48	77	8	439	24	30	18	26	1.98
54548657--54549131	144	3.3	144	87	2	616	24	30	18	26	1.98
54556372--54556797	48	8.9	47	71	11	220	25	28	17	28	1.98
54556372--54556798	96	4.5	95	75	7	292	25	28	17	28	1.98
54556421--54556798	144	2.6	144	86	2	501	25	28	16	28	1.97
54564120--54564455	40	8.7	39	85	10	356	25	27	21	25	1.99
54564197--54564303	33	3.0	33	82	17	151	27	27	21	24	1.99

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