genome.fa.s2.2.7.7.80.10.50.1000.189.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: At_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   

This is table  189  of  322  ( 38559 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)
62020633--62020677	19	2.4	18	85	7	54	51	0	13	35	1.41
62020642--62020677	18	1.9	19	88	5	56	47	0	16	36	1.47
62024853--62025150	45	6.9	45	73	10	221	23	16	26	33	1.95
62024933--62025113	85	2.1	84	87	3	265	23	17	25	33	1.96
62033788--62033866	30	2.6	30	95	0	140	24	44	17	13	1.85
62034820--62034976	56	2.8	53	80	7	145	28	31	17	21	1.96
62037570--62037816	52	4.6	54	76	8	232	35	22	12	29	1.91
62037583--62037742	55	2.9	54	77	12	157	36	23	11	28	1.90
62038467--62038550	42	2.0	42	97	0	159	30	22	21	25	1.98
62039719--62039762	17	2.6	17	85	0	61	40	4	2	52	1.34
62041578--62041692	43	2.7	43	78	5	133	33	26	14	25	1.95
62042869--62042899	15	2.0	16	93	6	55	41	6	0	51	1.27
62046087--62046266	40	4.4	40	87	5	240	23	24	26	25	2.00
62057356--62057407	20	2.6	20	100	0	104	17	32	30	19	1.95
62061653--62061773	43	2.9	42	78	11	129	29	24	16	28	1.97
62061653--62061773	42	2.9	42	82	4	145	29	24	16	28	1.97
62066032--62066217	40	4.7	40	85	5	216	25	21	26	26	1.99
62066032--62066250	40	5.5	40	82	6	205	26	21	26	26	1.99
62075795--62075899	40	2.6	41	80	8	126	23	23	27	24	2.00
62083210--62083755	278	2.0	278	96	0	1011	29	14	22	33	1.94
62083671--62083896	40	5.7	40	87	4	271	25	21	26	26	1.99
62083724--62083927	80	2.6	80	83	8	256	26	20	25	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62095201--62095244	22	2.0	22	90	0	70	52	2	2	43	1.26
62100481--62100611	46	2.8	46	85	9	167	32	16	23	27	1.96
62100484--62100619	23	5.8	23	78	9	132	32	16	24	26	1.96
62103393--62103423	16	1.9	16	93	0	53	35	22	0	41	1.54
62103390--62103429	20	2.0	20	85	0	53	37	22	0	40	1.54
62104975--62105320	173	2.0	173	97	0	647	32	23	15	28	1.96
62107444--62107483	10	3.9	10	87	6	62	32	20	15	32	1.93
62117266--62117332	31	2.2	31	89	5	100	16	22	19	41	1.90
62128418--62128495	39	2.0	39	97	0	147	33	34	2	29	1.71
62131447--62131523	40	1.9	40	89	5	120	40	18	7	33	1.79
62140268--62140563	39	7.6	39	86	3	373	30	26	20	22	1.99
62146129--62146425	39	7.6	39	87	3	341	31	27	19	21	1.97
62146129--62146425	78	3.8	77	85	3	378	31	27	19	21	1.97
62146129--62146425	117	2.5	117	86	2	398	31	27	19	21	1.97
62157383--62157581	27	7.4	27	83	3	222	29	22	8	40	1.83
62157383--62157581	80	2.5	81	85	4	285	29	22	8	40	1.83
62157585--62157709	27	4.6	27	82	5	112	43	21	7	28	1.79
62157571--62157709	54	2.6	53	82	5	154	41	21	8	28	1.83
62157613--62157738	27	4.6	28	86	6	145	43	22	4	29	1.73
62158400--62158446	20	2.3	20	92	7	78	36	10	19	34	1.86
62158519--62158601	25	3.4	25	86	6	125	27	20	20	31	1.97
62163135--62163192	27	2.1	27	87	6	82	37	15	17	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62172271--62172424	40	3.9	39	83	6	134	26	27	20	25	1.99
62172295--62172477	79	2.3	80	82	7	212	25	27	22	24	2.00
62172293--62172477	40	4.7	40	82	7	216	25	28	22	24	1.99
62180384--62180566	79	2.3	81	83	5	221	24	28	22	24	2.00
62180363--62180566	40	5.1	40	80	8	220	24	28	22	25	1.99
62181120--62181220	51	2.0	51	98	0	193	32	23	17	25	1.97
62182879--62182930	27	2.0	26	84	3	68	17	30	21	30	1.96
62189780--62189810	10	3.1	10	100	0	62	32	29	9	29	1.89
62192857--62192956	27	3.7	27	90	2	148	41	27	7	25	1.81
62192857--62192981	54	2.3	54	86	5	164	40	24	8	26	1.83
62192848--62192981	27	5.0	27	81	8	139	39	24	8	27	1.84
62192848--62193008	54	3.0	54	80	5	148	39	24	8	27	1.83
62192857--62193053	27	7.3	26	81	6	105	40	24	8	27	1.83
62192933--62193089	81	1.9	81	81	2	190	38	22	7	30	1.82
62192965--62193089	27	4.6	27	79	4	117	39	24	7	29	1.82
62193074--62193143	27	2.6	27	86	0	104	38	18	17	25	1.92
62194503--62195484	40	24.6	40	97	1	1787	26	27	20	25	1.99
62204182--62204283	28	3.6	28	90	0	159	27	34	13	24	1.93
62204494--62204530	16	2.3	16	90	0	56	13	24	16	45	1.83
62211177--62211397	40	5.6	40	81	8	247	23	22	28	25	1.99
62211181--62211397	80	2.7	79	87	2	276	22	22	29	25	1.99
62219141--62219361	40	5.6	40	82	6	254	22	22	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62219145--62219361	80	2.7	79	87	2	285	22	23	29	25	1.99
62221262--62221388	48	2.6	48	83	2	157	27	31	14	25	1.95
62221296--62221392	48	2.0	48	91	0	158	26	31	14	26	1.95
62227475--62227698	40	5.6	40	91	1	308	24	20	28	26	1.99
62227436--62227698	80	3.3	80	85	3	318	23	20	28	26	1.99
62227436--62227698	120	2.2	120	82	4	318	23	20	28	26	1.99
62229760--62229886	48	2.6	48	83	2	157	27	31	14	25	1.95
62229794--62229890	48	2.0	48	91	0	158	26	31	14	26	1.95
62235900--62235937	19	2.1	19	90	5	60	18	36	23	21	1.95
62237329--62237413	42	2.0	42	86	0	116	34	28	11	25	1.91
62241204--62241353	41	3.7	41	83	1	203	28	27	22	21	1.99
62248857--62248990	67	2.0	67	95	0	241	42	25	8	23	1.83
62248942--62249168	114	2.0	114	97	0	427	39	22	12	25	1.89
62249596--62249732	39	3.5	40	91	4	215	29	31	21	17	1.96
62251717--62251757	19	2.2	19	90	0	64	39	9	0	51	1.35
62252151--62252176	6	4.3	6	100	0	52	84	0	0	15	0.62
62254916--62255062	68	2.2	68	97	0	276	46	19	9	24	1.80
62255910--62256032	39	3.1	39	87	3	122	30	30	21	17	1.96
62255937--62256032	39	2.5	39	94	0	165	30	30	21	17	1.97
62258017--62258057	19	2.2	19	90	0	64	39	9	0	51	1.35
62258662--62258713	25	2.1	25	85	3	70	46	3	0	50	1.20
62267842--62267926	38	2.2	40	85	4	111	51	5	2	40	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62273800--62274165	46	8.0	46	92	2	540	21	24	16	38	1.92
62273858--62273929	21	3.2	21	64	21	56	19	23	13	43	1.87
62276322--62276358	20	1.9	20	88	5	58	51	8	0	40	1.32
62276896--62277113	106	2.1	105	87	4	314	25	8	22	43	1.81
62280278--62280414	40	3.4	40	83	2	150	24	14	25	35	1.94
62280402--62280471	28	2.5	28	92	0	113	25	14	31	28	1.95
62287012--62287190	46	3.9	46	77	5	173	31	26	18	22	1.98
62308804--62308864	24	2.5	24	86	5	79	34	27	16	21	1.95
62313595--62313770	46	3.8	46	80	12	216	20	21	29	28	1.98
62313592--62313762	93	1.8	93	94	0	306	20	21	29	28	1.98
62316710--62316789	15	5.4	15	77	7	83	10	18	13	57	1.64
62316701--62316788	30	3.0	30	80	11	92	10	18	15	55	1.68
62319181--62319356	46	3.8	46	78	14	209	21	20	28	29	1.98
62319177--62319348	93	1.8	93	95	2	310	21	20	29	28	1.98
62326080--62326161	39	2.1	39	95	0	146	23	31	24	20	1.98
62331108--62331147	19	2.1	19	100	0	80	37	25	5	32	1.77
62333764--62333802	17	2.2	17	86	9	51	10	28	12	48	1.74
62336270--62336350	24	3.3	23	77	8	72	37	17	24	20	1.94
62354101--62354148	22	2.3	21	80	16	55	37	0	8	54	1.31
62354104--62354143	21	1.9	22	85	10	57	32	0	7	60	1.25
62359960--62359997	19	2.0	20	89	5	60	39	0	5	55	1.23
62368253--62368307	22	2.5	22	80	19	62	47	1	1	49	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62368252--62368307	23	2.4	23	77	22	64	48	1	1	48	1.22
62372345--62372378	11	3.2	11	87	8	52	88	0	11	0	0.52
62372344--62372385	5	8.2	5	82	12	50	80	0	19	0	0.70
62372345--62372384	16	2.5	16	88	8	55	85	0	15	0	0.61
62375161--62375194	18	1.9	17	88	5	50	26	17	11	44	1.83
62378934--62379017	25	3.4	25	81	8	118	61	0	0	38	0.96
62378922--62379020	23	4.3	23	77	7	103	61	1	0	37	1.03
62379149--62379190	21	2.0	22	85	4	59	59	0	33	7	1.25
62379295--62379346	25	2.1	25	82	3	61	34	30	5	28	1.81
62379311--62379364	26	2.1	26	96	3	101	27	33	3	35	1.75

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