genome.fa.s5.2.7.7.80.10.50.1000.165.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  165  of  318  ( 38109 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)
52199153--52199219	20	3.3	20	93	4	109	38	10	19	31	1.85
52199269--52199429	26	6.3	26	89	4	233	27	22	22	26	1.99
52199562--52199653	42	2.2	42	90	0	139	30	14	20	34	1.92
52201988--52202079	27	3.4	27	86	0	112	29	26	7	36	1.84
52202111--52202224	27	4.2	27	77	0	102	42	21	7	28	1.79
52202078--52202208	54	2.4	54	77	12	126	39	21	11	27	1.88
52202295--52202354	27	2.3	26	82	2	75	36	18	25	20	1.94
52203054--52203110	20	2.9	21	87	10	77	38	8	19	33	1.82
52203160--52203320	26	6.3	26	88	4	233	28	21	22	27	1.99
52209377--52209574	39	5.1	39	89	0	234	24	27	18	29	1.98
52209387--52209574	78	2.4	78	88	0	259	25	26	18	30	1.98
52211973--52212366	27	14.6	27	80	4	222	37	21	8	32	1.83
52212120--52212394	81	3.4	79	82	6	284	40	22	7	29	1.81
52212134--52212373	27	8.9	26	80	5	228	41	21	7	30	1.80
52212120--52212477	54	6.6	51	73	12	218	39	20	8	30	1.82
52212509--52212595	27	3.3	27	85	4	106	36	19	25	18	1.94
52213397--52213545	52	2.9	51	89	2	228	26	21	24	28	1.99
52213397--52213545	26	5.8	26	89	0	203	26	21	24	28	1.99
52213764--52213842	31	2.5	31	89	0	122	31	17	22	27	1.97
52220719--52220885	39	4.3	39	90	0	262	24	25	19	29	1.98
52223676--52223702	14	1.9	14	100	0	54	29	0	22	48	1.51
52224859--52224965	56	1.9	55	83	3	135	29	10	23	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52224948--52225160	43	5.0	43	82	1	257	29	15	27	28	1.96
52224928--52225106	86	2.1	86	97	0	340	31	14	24	30	1.94
52224928--52225149	86	2.6	86	90	1	302	30	14	25	29	1.95
52225989--52226066	26	3.0	26	100	0	156	34	11	11	42	1.77
52239201--52239230	3	10.0	3	100	0	60	33	0	0	66	0.92
52240419--52240557	27	5.2	27	76	10	126	38	21	10	29	1.87
52240479--52240569	27	3.4	26	76	13	94	37	23	9	29	1.87
52240419--52240586	54	3.2	53	79	9	166	38	21	9	30	1.85
52240573--52240919	27	12.9	27	86	3	396	32	21	5	40	1.76
52241154--52241205	27	2.0	26	84	3	68	17	26	21	34	1.95
52241422--52241498	31	2.5	31	82	0	91	23	16	11	48	1.79
52241422--52241552	6	21.3	6	68	16	63	21	16	12	49	1.78
52241444--52241529	37	2.3	37	85	0	118	22	19	11	46	1.82
52241465--52241544	37	2.2	37	88	0	115	21	18	10	50	1.76
52243580--52243696	27	4.3	27	77	5	103	41	20	6	31	1.79
52243529--52243698	54	3.2	55	77	7	170	40	21	8	30	1.82
52243675--52243868	27	7.2	27	88	1	264	30	22	5	41	1.76
52243637--52243868	81	2.9	81	83	3	200	32	21	6	39	1.78
52244104--52244155	27	2.0	26	84	3	68	17	26	21	34	1.95
52244372--52244493	6	19.8	6	68	14	70	19	17	13	50	1.78
52244372--52244479	31	3.3	31	74	14	108	20	16	13	49	1.80
52244372--52244493	37	3.5	37	78	13	148	19	17	13	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52244428--52244502	12	6.2	12	77	11	55	17	14	14	53	1.73
52246079--52246139	31	2.0	31	87	6	88	16	8	3	72	1.23
52246074--52246138	6	10.7	6	85	3	76	16	6	3	73	1.16
52246835--52246877	15	2.9	15	83	10	52	41	20	0	37	1.53
52249014--52249065	22	2.4	22	93	0	86	23	11	30	34	1.90
52256551--52256601	25	2.0	25	85	7	68	29	21	19	29	1.98
52256645--52256679	10	3.4	10	92	7	61	34	17	17	31	1.93
52256640--52256679	21	1.9	21	94	0	71	37	17	15	30	1.90
52256639--52256691	21	2.5	20	84	3	70	37	16	13	32	1.88
52256725--52256791	25	2.7	25	95	0	116	28	28	22	20	1.99
52257015--52257098	31	2.7	31	87	1	125	32	16	26	25	1.96
52264589--52264623	10	3.4	10	92	7	61	34	17	17	31	1.93
52264584--52264623	21	1.9	21	94	0	71	37	17	15	30	1.90
52264583--52264635	21	2.5	20	84	3	70	37	16	13	32	1.88
52264669--52264735	25	2.7	25	95	0	116	28	28	22	20	1.99
52264959--52265042	31	2.7	31	90	1	134	30	17	26	25	1.97
52268221--52268306	34	2.5	34	79	3	93	22	27	24	25	1.99
52271463--52271536	30	2.5	30	86	8	98	20	20	18	40	1.92
52280872--52281049	27	6.6	27	83	3	205	26	15	28	29	1.96
52280873--52281028	82	1.9	81	88	3	233	26	15	28	29	1.96
52280869--52281049	82	2.2	81	83	2	229	27	15	27	29	1.96
52282775--52282802	14	2.0	14	100	0	56	21	0	21	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52289303--52289356	25	2.1	26	83	10	67	25	3	7	62	1.38
52297856--52298045	38	4.9	38	91	1	290	20	22	25	32	1.98
52303138--52303574	49	9.1	49	88	3	638	30	8	31	28	1.88
52303141--52303574	96	4.5	96	94	1	624	30	8	31	28	1.88
52303138--52303574	145	3.0	145	89	2	639	30	8	31	28	1.88
52306546--52306699	40	3.8	40	89	3	238	26	22	27	23	2.00
52306546--52306727	40	4.6	40	86	6	228	27	23	26	22	2.00
52313664--52313848	40	4.6	39	83	6	212	24	22	27	25	2.00
52313664--52313848	79	2.3	81	84	7	236	24	22	27	25	2.00
52313665--52313881	79	2.7	78	80	11	210	25	21	27	24	1.99
52321549--52321733	79	2.3	81	84	7	236	24	22	27	25	2.00
52321550--52321733	40	4.6	40	83	9	216	24	22	27	25	2.00
52321550--52321756	79	2.6	79	81	8	199	25	22	27	24	2.00
52324098--52324198	38	2.6	38	85	6	123	25	24	23	25	2.00
52324127--52324237	38	2.9	38	87	2	141	23	22	25	28	1.99
52331608--52331693	31	2.8	31	87	1	129	24	27	17	30	1.97
52331897--52331981	26	3.4	25	85	9	93	27	21	22	29	1.99
52331913--52331981	26	2.7	26	93	2	113	26	21	26	26	2.00
52334620--52334670	27	1.9	26	84	4	66	17	27	17	37	1.93
52338197--52338491	47	6.2	47	87	2	392	31	8	30	29	1.86
52338200--52338476	96	2.9	96	92	1	432	31	8	31	29	1.87
52338609--52338687	37	2.1	37	90	0	122	24	18	31	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52340439--52340477	18	2.2	18	100	0	78	20	7	25	46	1.77
52343024--52343143	42	2.8	42	85	8	138	26	18	26	28	1.98
52343064--52343171	42	2.5	41	78	10	110	31	18	22	27	1.97
52345193--52345363	93	1.8	93	96	0	315	28	29	21	21	1.98
52345188--52345360	46	3.7	46	80	13	219	28	28	21	21	1.98
52345781--52345840	30	2.0	30	83	0	75	33	25	6	35	1.82
52348147--52348326	40	4.6	40	83	7	201	26	21	27	25	1.99
52348195--52348349	79	2.0	79	82	10	192	26	20	27	25	1.99
52356081--52356303	39	5.7	40	84	10	259	25	21	27	25	2.00
52356081--52356303	79	2.8	81	83	11	275	25	21	27	25	2.00
52356133--52356326	79	2.5	78	81	10	193	26	21	27	25	1.99
52359411--52359581	27	6.3	27	81	5	141	40	23	8	27	1.84
52359411--52359562	81	1.9	81	84	5	200	40	24	8	26	1.83
52359601--52360766	27	43.2	27	87	1	1516	36	18	18	26	1.94
52361337--52361437	27	3.8	26	84	6	112	21	22	19	35	1.96
52361554--52361647	6	15.3	6	72	16	77	19	17	14	48	1.81
52361554--52361621	25	2.7	25	88	0	100	19	19	16	45	1.85
52364758--52364843	34	2.5	35	90	1	129	27	23	20	27	1.99
52365234--52365348	27	4.3	27	81	6	126	22	20	16	40	1.91
52365250--52365361	53	2.1	54	81	5	129	25	18	18	37	1.94
52365250--52365385	27	5.1	27	83	4	118	27	18	17	36	1.93
52365340--52365434	27	3.6	27	88	1	138	35	17	13	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52367045--52367076	16	2.0	16	93	0	55	46	18	21	12	1.82
52367315--52367412	29	3.4	29	91	1	153	24	15	31	28	1.95
52372013--52372195	46	4.0	46	94	0	294	24	31	9	34	1.87
52372212--52372287	22	3.3	22	66	28	59	25	28	11	34	1.91
52372169--52372547	47	8.1	47	92	0	562	26	28	10	34	1.89
52378381--52378440	31	1.9	31	89	0	93	25	20	16	38	1.93
52378649--52378725	23	3.2	24	92	5	129	29	20	19	29	1.97
52378775--52378841	20	3.3	20	89	0	107	32	20	13	32	1.92
52383771--52384051	30	9.4	30	78	7	223	26	22	11	39	1.88
52383796--52383966	90	1.9	90	87	0	252	29	20	11	38	1.87

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