genome.fa.s5.2.7.7.80.10.50.1000.160.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  160  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)
50495954--50496138	79	2.3	82	84	7	238	25	27	22	24	2.00
50495935--50496138	40	5.1	40	82	8	238	25	27	22	25	2.00
50500322--50500804	47	10.2	47	94	1	822	31	8	30	28	1.88
50500485--50500563	25	3.3	25	61	10	65	32	5	29	32	1.79
50500322--50500804	95	5.1	94	94	2	822	31	8	30	28	1.88
50500322--50500804	142	3.4	141	95	1	822	31	8	30	28	1.88
50500923--50501001	38	2.1	37	86	6	106	25	17	30	26	1.97
50503165--50503313	28	5.4	28	93	1	230	34	28	12	24	1.91
50511402--50511499	27	3.5	28	86	5	119	33	28	13	24	1.93
50511401--50511499	28	3.5	28	86	5	112	33	29	13	24	1.93
50519530--50519632	28	3.7	28	82	11	122	33	30	12	23	1.92
50519530--50519631	27	3.6	28	83	10	120	33	30	12	23	1.92
50532528--50532853	174	1.9	174	88	1	492	41	11	24	22	1.87
50534992--50535089	27	3.5	28	86	5	119	33	28	13	24	1.93
50534991--50535089	28	3.5	28	86	5	112	33	29	13	24	1.93
50543247--50543328	25	3.1	27	89	10	134	35	30	9	24	1.88
50543251--50543330	26	3.1	26	89	10	137	35	30	10	25	1.88
50551450--50551631	28	6.5	28	97	0	321	34	28	11	25	1.91
50552376--50552406	2	15.5	2	93	0	53	48	0	3	48	1.17
50560018--50560086	22	3.1	21	81	8	75	20	20	15	43	1.88
50565953--50566018	34	1.9	34	84	6	89	28	24	22	24	1.99
50567230--50567266	17	2.1	18	90	5	58	56	2	37	2	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50572804--50573148	40	8.6	40	92	1	557	23	28	20	27	1.99
50580293--50580717	40	10.6	40	93	0	697	23	27	20	28	1.99
50586185--50586221	17	2.1	18	90	5	58	56	2	37	2	1.28
50590269--50590361	45	2.0	46	83	10	118	26	12	23	36	1.91
50596705--50596832	47	2.7	47	89	3	177	24	15	26	33	1.95
50599074--50599124	25	2.0	26	85	7	70	31	17	19	31	1.95
50601546--50601609	32	2.0	32	84	0	83	32	21	17	28	1.96
50603473--50603595	55	2.2	56	88	2	176	26	12	28	33	1.92
50603473--50603595	28	4.4	28	90	2	176	26	12	28	33	1.92
50603498--50603608	28	4.0	27	90	3	116	28	11	26	33	1.91
50610167--50610297	47	2.8	48	80	3	149	34	25	15	25	1.95
50611978--50612035	30	1.9	30	92	0	98	32	13	25	27	1.94
50612378--50612738	47	7.7	46	73	13	222	28	20	27	22	1.99
50612375--50612738	94	3.9	95	77	9	345	28	20	27	23	1.99
50633839--50633883	23	2.0	23	95	0	81	20	26	26	26	1.99
50634844--50634941	27	3.7	27	84	2	126	33	16	23	26	1.95
50634844--50634946	53	1.9	54	86	2	145	35	15	22	26	1.94
50635729--50635853	6	20.3	6	72	16	96	19	20	13	47	1.82
50635732--50635796	25	2.6	25	92	0	103	18	21	15	44	1.86
50635729--50635832	31	3.4	31	75	15	115	19	21	13	46	1.84
50635751--50635844	37	2.5	37	89	0	143	19	21	12	46	1.82
50638932--50639153	40	5.6	40	85	4	218	24	21	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50638985--50639153	39	4.3	40	89	2	216	23	21	28	26	1.99
50639007--50639188	78	2.3	79	80	2	206	25	20	28	25	1.99
50646823--50647045	40	5.6	40	83	6	213	24	20	27	27	1.99
50646823--50647047	80	2.8	79	82	7	242	24	20	28	27	1.99
50646898--50647080	79	2.3	80	81	1	217	25	20	27	26	1.99
50646823--50647080	119	2.2	120	80	4	281	25	20	27	26	1.99
50662207--50662281	25	3.0	25	71	7	71	28	22	22	26	1.99
50670602--50670825	40	5.7	40	87	6	289	25	21	28	25	1.99
50670693--50670858	80	2.1	79	85	5	219	25	20	27	25	1.99
50673935--50674110	46	3.8	46	76	12	189	21	19	28	30	1.97
50673932--50674102	93	1.8	93	92	0	288	21	19	29	29	1.98
50679274--50679449	46	3.8	46	74	14	173	23	19	27	29	1.98
50679271--50679441	93	1.8	93	91	2	281	22	20	27	29	1.99
50682763--50682793	12	2.6	12	94	0	53	38	41	12	6	1.69
50686339--50686363	11	2.3	11	100	0	50	60	8	0	32	1.26
50712477--50712565	27	3.3	26	87	4	115	39	19	16	24	1.92
50714277--50714497	40	5.6	40	80	10	195	27	27	20	24	1.99
50714277--50714497	80	2.8	78	82	10	250	27	27	20	24	1.99
50724241--50724301	30	2.1	29	90	3	95	24	16	22	36	1.94
50737788--50737957	30	5.7	30	74	6	85	26	24	10	38	1.88
50737860--50738059	60	3.4	58	78	7	213	20	26	12	41	1.87
50737885--50738050	30	5.6	30	82	7	194	17	28	13	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50737830--50738020	89	2.1	90	90	0	294	20	26	10	41	1.85
50737890--50738089	60	3.4	59	79	5	224	19	26	14	40	1.90
50740130--50740219	45	2.0	45	100	0	180	31	15	15	37	1.89
50746023--50746111	28	3.1	29	83	3	110	28	28	13	30	1.94
50746325--50746367	8	5.4	8	80	0	50	6	20	18	53	1.67
50756275--50756354	27	3.0	27	90	0	115	16	30	20	33	1.94
50756279--50756371	27	3.4	27	84	1	105	16	25	22	35	1.94
50758544--50758691	77	1.9	78	87	1	217	21	20	28	29	1.98
50758544--50758695	39	3.9	39	88	1	216	22	20	28	28	1.98
50766346--50766494	39	3.8	39	89	0	208	24	20	26	27	1.99
50769270--50769320	26	2.0	26	88	0	75	43	19	17	19	1.89
50777269--50777650	48	8.0	48	78	10	345	25	17	30	26	1.97
50779190--50779374	79	2.3	82	83	7	229	25	27	23	24	2.00
50779171--50779374	40	5.1	40	82	8	229	25	26	23	25	2.00
50788242--50788461	48	4.6	48	76	2	228	28	17	29	24	1.97
50788242--50788504	96	2.8	96	82	2	289	28	16	29	26	1.97
50788435--50788537	48	2.2	47	85	1	134	25	14	29	31	1.95
50788329--50788504	95	1.8	96	87	1	264	27	15	30	26	1.96
50788226--50788554	143	2.3	144	80	1	365	25	16	30	27	1.97
50791180--50791213	17	1.9	18	88	5	52	52	8	5	32	1.56
50812426--50812453	14	2.0	14	100	0	56	21	35	0	42	1.53
50814396--50814449	20	2.7	20	97	0	99	12	31	37	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50816663--50816704	20	2.1	20	100	0	84	59	21	0	19	1.38
50818655--50818691	12	2.9	14	88	11	53	35	2	13	48	1.57
50829172--50829232	30	2.0	30	84	6	79	29	24	8	37	1.84
50837682--50837826	27	5.4	26	76	11	96	35	17	24	22	1.95
50837703--50837837	54	2.5	54	87	2	191	35	20	23	20	1.96
50837946--50838008	26	2.3	26	83	5	72	30	14	25	30	1.95
50839467--50839520	26	2.1	26	96	0	99	37	24	7	31	1.83
50840906--50841089	40	4.6	40	82	4	183	26	27	21	25	1.99
50841021--50841098	40	1.9	41	82	10	97	26	28	21	23	1.99
50842577--50842629	26	2.0	26	92	0	88	35	22	7	33	1.83
50848827--50848984	27	5.9	27	79	11	164	34	22	23	19	1.96
50848845--50848984	54	2.6	54	90	2	219	35	23	22	18	1.96
50850604--50850711	26	4.2	26	93	0	189	35	24	7	33	1.83
50856890--50857048	27	5.9	26	81	11	114	35	21	23	19	1.96
50856932--50857051	54	2.2	54	95	0	213	35	24	23	16	1.95
50858647--50858754	26	4.2	26	93	0	189	36	24	7	32	1.83
50860231--50860293	25	2.5	25	78	0	72	28	17	23	30	1.97
50860266--50860322	29	2.0	29	82	6	71	31	19	19	29	1.96
50860238--50860337	25	3.8	25	71	14	76	30	22	20	28	1.98
50860295--50860348	25	2.2	25	83	6	65	31	24	18	25	1.97
50860241--50860347	54	2.0	54	84	0	142	31	20	19	28	1.97
50861468--50861506	20	2.0	20	85	10	53	15	5	28	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50862654--50862695	18	2.3	18	83	0	57	40	16	7	35	1.76
50863998--50864079	42	1.9	42	87	2	119	32	26	17	23	1.96
50863965--50864131	44	3.9	43	75	12	146	31	26	16	25	1.97
50890148--50890393	39	6.2	40	79	9	143	25	26	21	27	1.99
50890171--50890341	39	4.3	39	87	3	220	25	26	21	26	1.99
50890210--50890393	78	2.3	79	82	10	218	25	27	21	25	2.00
50890171--50890391	118	1.9	119	80	10	265	24	26	21	26	2.00
50898044--50898267	39	5.7	40	85	8	266	24	26	22	25	2.00
50898044--50898267	118	1.9	120	85	9	316	24	26	22	25	2.00
50898044--50898267	40	5.7	39	84	8	253	24	26	22	25	2.00

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