genome.fa.s7.2.7.7.80.10.50.1000.16.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  16  of  290  ( 34714 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)
4968254--4968296	8	5.4	8	85	0	50	13	13	23	48	1.79
4972719--4972774	18	3.0	18	73	14	51	23	35	25	16	1.94
4977202--4977236	18	1.9	18	88	11	54	25	5	0	68	1.11
4978258--4978283	13	2.0	13	100	0	52	53	0	0	46	1.00
4985092--4985189	27	3.5	28	90	2	135	25	12	28	33	1.92
5002620--5002722	27	3.8	27	90	0	143	33	25	1	38	1.67
5002620--5002722	54	1.9	54	93	0	179	33	25	1	38	1.67
5002721--5002877	27	5.8	27	86	4	201	41	21	8	28	1.82
5002721--5002876	81	1.9	81	87	5	226	41	21	8	28	1.82
5002889--5002940	27	1.9	27	88	7	79	40	13	11	34	1.81
5003868--5003937	25	2.8	24	84	4	86	27	25	22	24	2.00
5003893--5003964	25	3.0	24	80	13	76	29	22	22	26	1.99
5004085--5004174	42	2.1	42	97	0	171	32	14	20	33	1.92
5004199--5004344	31	4.7	31	88	4	224	29	17	24	28	1.97
5006514--5006541	14	2.0	14	100	0	56	35	21	0	42	1.53
5008427--5008530	53	1.9	54	94	1	183	25	25	12	36	1.91
5012084--5012145	31	2.0	31	96	0	115	29	25	14	30	1.95
5015542--5015597	23	2.4	23	82	14	71	28	3	0	67	1.07
5018784--5018893	42	2.6	42	88	0	157	28	26	15	30	1.96
5023225--5023376	40	3.8	40	79	5	144	37	23	19	19	1.94
5023268--5023333	20	3.3	20	73	0	69	45	24	15	15	1.84
5024771--5024813	13	3.3	13	76	0	50	30	6	23	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5025353--5025692	169	2.0	169	98	0	653	32	18	14	33	1.92
5028357--5028443	43	2.0	43	81	16	101	24	19	29	26	1.98
5030442--5030489	16	3.1	15	84	6	51	64	0	33	2	1.05
5041452--5041562	38	2.8	40	74	8	102	24	20	25	29	1.99
5042545--5042741	104	1.9	104	100	0	394	31	24	18	24	1.97
5051339--5052328	40	24.8	40	97	0	1811	24	20	27	27	1.99
5054900--5054924	13	1.9	13	100	0	50	32	20	16	32	1.94
5056084--5056237	77	2.0	77	96	0	281	39	9	12	38	1.76
5057892--5058016	62	2.0	62	96	0	232	32	12	21	33	1.90
5058116--5058291	46	3.8	46	73	16	157	22	20	27	30	1.98
5058112--5058283	93	1.8	93	88	2	265	22	20	27	29	1.99
5058878--5059039	31	5.2	33	61	22	96	31	14	17	36	1.90
5058870--5059056	62	3.0	62	100	0	374	32	14	17	35	1.90
5061852--5061992	70	2.0	70	98	0	273	42	6	7	43	1.57
5071111--5071154	18	2.5	17	85	10	61	29	13	29	27	1.94
5071151--5071254	45	2.3	45	83	0	136	32	11	26	28	1.91
5071196--5071234	18	2.2	18	85	0	51	41	15	23	20	1.90
5072311--5072356	23	2.0	23	84	12	60	45	10	6	36	1.65
5072318--5072362	23	2.0	23	82	8	56	40	13	8	37	1.76
5099200--5099233	13	2.5	13	90	9	50	35	2	14	47	1.60
5100457--5100582	40	3.2	40	94	1	218	23	23	27	25	2.00
5105095--5105149	22	2.4	22	74	17	58	7	21	7	63	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5105141--5105201	24	2.6	22	79	20	63	8	18	3	70	1.26
5108621--5108663	18	2.4	18	92	0	68	25	11	32	30	1.91
5108616--5108668	27	2.0	27	88	0	79	28	9	33	28	1.88
5108622--5108711	27	3.3	27	80	0	99	24	11	31	33	1.90
5108632--5108726	27	3.5	27	82	0	100	26	12	31	29	1.93
5112233--5112278	22	2.1	22	84	8	58	10	10	0	78	0.97
5116529--5116744	108	2.0	108	98	0	414	34	6	13	45	1.69
5116925--5117100	46	3.8	45	75	10	176	21	19	28	30	1.97
5117027--5118288	625	2.0	630	93	1	2183	27	14	23	34	1.94
5128946--5128999	27	2.0	27	85	0	72	38	14	5	40	1.70
5129979--5130033	21	2.6	21	79	0	65	36	9	32	21	1.85
5136579--5136622	23	1.9	23	86	9	63	43	6	15	34	1.74
5141261--5141504	40	6.1	40	90	0	373	27	27	22	22	1.99
5155170--5155248	37	2.1	37	88	0	113	26	31	17	24	1.97
5155369--5155510	47	3.0	47	86	2	167	26	31	9	31	1.89
5155367--5155513	49	3.1	49	83	5	185	26	31	9	32	1.88
5161827--5161870	23	1.9	23	86	9	63	43	6	15	34	1.74
5171158--5172098	48	19.6	48	98	0	1756	26	32	18	21	1.97
5184453--5184619	27	6.2	27	80	2	174	17	24	21	35	1.95
5184453--5184619	54	3.1	54	90	1	246	17	24	21	35	1.95
5184453--5184611	81	2.0	81	86	5	223	18	25	20	35	1.96
5190391--5190490	50	2.0	50	98	0	191	32	13	24	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5191531--5191696	27	6.1	27	80	2	172	16	23	23	36	1.95
5191531--5191696	54	3.1	54	91	1	253	16	23	23	36	1.95
5191531--5191696	81	2.0	81	85	4	219	16	23	23	36	1.95
5195271--5195358	33	2.7	33	82	3	97	28	22	15	32	1.95
5197588--5197770	40	4.6	39	81	6	170	24	20	27	26	1.99
5197624--5197805	79	2.3	80	79	3	190	26	20	27	25	1.99
5204697--5204868	79	2.2	79	84	3	220	25	21	27	25	1.99
5204644--5204866	40	5.6	39	81	8	209	25	21	27	25	1.99
5204724--5204901	79	2.2	80	80	3	191	25	21	28	24	1.99
5209560--5209609	15	3.3	15	85	0	64	54	10	22	14	1.69
5211799--5211829	16	2.0	16	93	6	55	29	12	0	58	1.35
5212090--5212120	16	2.0	16	93	6	55	29	12	0	58	1.35
5211670--5212236	291	1.9	291	99	0	1125	30	17	12	38	1.87
5218300--5218366	27	2.5	27	85	0	89	32	14	23	28	1.95
5218311--5218378	27	2.5	27	83	4	75	35	17	19	27	1.94
5218362--5218477	27	4.3	27	79	4	117	40	23	7	28	1.82
5218359--5218475	54	2.2	55	81	9	150	40	22	8	29	1.83
5218454--5220024	54	29.1	54	93	1	2245	28	21	8	41	1.82
5222023--5222153	40	3.3	40	88	2	192	23	19	27	29	1.99
5221970--5222150	80	2.3	81	83	9	221	23	20	27	28	1.99
5221977--5222190	40	5.4	38	77	11	162	25	20	26	28	1.99
5229887--5230096	40	5.3	39	89	4	242	25	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5229834--5230096	120	2.2	120	82	4	309	25	21	27	25	1.99
5229835--5230131	80	3.7	80	81	6	230	26	21	27	24	1.99
5234738--5234804	32	2.1	32	88	5	100	50	5	13	29	1.65
5236210--5236263	25	2.1	26	83	10	67	25	7	7	59	1.51
5243982--5244206	40	5.7	40	85	5	278	24	22	28	25	2.00
5244035--5244239	40	5.2	40	85	4	192	25	20	28	24	1.99
5244021--5244239	79	2.8	80	83	6	225	26	21	28	24	1.99
5261965--5262019	27	2.0	27	96	0	101	36	9	34	20	1.84
5266529--5266989	49	9.6	49	70	13	237	23	27	20	28	1.99
5266501--5266850	98	3.6	97	79	9	419	23	28	19	28	1.98
5266584--5266941	93	3.8	93	77	11	379	22	27	20	29	1.99
5266580--5266998	142	2.9	144	75	13	339	23	27	20	28	1.99
5266547--5266989	191	2.3	191	93	1	746	23	27	20	28	1.99
5277891--5277966	40	1.9	40	86	5	109	21	21	27	30	1.98
5285791--5285962	40	4.3	40	83	5	215	23	22	27	26	1.99
5285791--5285962	80	2.2	79	87	5	240	23	22	27	26	1.99
5292217--5292260	22	2.0	22	82	8	54	38	13	18	29	1.89
5292487--5292708	40	5.6	40	92	1	349	28	26	22	22	1.99
5305226--5305336	43	2.6	42	80	7	116	24	14	30	30	1.94
5305255--5305340	43	2.0	43	90	0	136	23	16	32	27	1.96
5310106--5310279	46	3.8	46	72	13	158	29	28	18	22	1.98
5317381--5317468	43	2.1	42	95	2	158	26	21	42	10	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5317546--5317582	18	2.1	18	89	0	56	54	0	24	21	1.45
5318435--5318605	93	1.8	93	94	0	306	28	28	21	21	1.98
5318427--5318602	46	3.8	46	77	12	207	29	28	20	21	1.98
5319028--5319087	30	2.0	30	86	0	84	30	23	8	38	1.84
5319639--5320275	319	2.0	319	99	0	1247	34	21	9	33	1.87
5329287--5329510	79	2.8	78	83	6	272	25	27	21	25	1.99
5329287--5329510	40	5.7	40	87	6	280	25	27	21	25	1.99
5333030--5333116	42	2.1	42	86	0	120	27	26	19	26	1.99
5339846--5339889	19	2.4	19	88	7	65	50	0	11	38	1.39
5350272--5350343	36	2.0	37	91	2	119	33	13	25	27	1.94

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