genome.fa.s7.2.7.7.80.10.50.1000.125.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  125  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)
42529482--42529716	119	2.0	119	88	3	348	33	17	19	29	1.95
42530030--42530104	37	2.0	37	97	0	141	44	38	8	9	1.66
42539915--42540022	47	2.3	46	80	1	117	24	22	22	31	1.98
42539942--42540047	46	2.3	46	88	1	149	22	18	24	33	1.97
42543648--42543673	5	5.2	5	100	0	52	42	19	19	19	1.90
42543941--42543977	13	2.8	14	84	12	51	78	16	0	5	0.93
42544034--42544435	212	1.9	215	89	4	623	55	21	5	17	1.61
42546819--42546885	30	2.2	30	97	0	125	55	4	5	34	1.45
42554520--42554647	24	5.2	25	80	11	113	31	17	21	28	1.97
42555516--42555572	28	2.0	28	93	0	96	31	10	14	43	1.79
42558418--42558446	15	1.9	15	100	0	58	20	10	34	34	1.87
42558743--42558803	31	2.0	31	86	0	86	45	8	19	26	1.78
42559198--42559230	17	1.9	17	93	0	57	66	3	3	27	1.21
42559863--42559916	23	2.3	23	81	6	65	42	1	9	46	1.46
42561667--42561698	5	6.6	5	92	7	57	81	0	0	18	0.70
42561668--42561698	9	3.3	9	95	4	53	80	0	0	19	0.71
42566118--42566149	5	6.6	5	92	7	57	81	0	0	18	0.70
42566119--42566149	9	3.3	9	95	4	53	80	0	0	19	0.71
42571685--42571785	52	1.9	52	83	0	130	33	26	15	23	1.95
42576064--42576151	46	1.9	46	95	0	158	40	15	5	37	1.72
42586131--42586169	20	2.0	20	85	10	53	23	12	12	51	1.74
42586148--42586206	27	2.3	27	82	5	77	15	15	13	55	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42586973--42587007	8	4.2	8	88	3	52	60	0	40	0	0.97
42588588--42588624	3	12.3	3	100	0	74	32	0	0	67	0.91
42589453--42589513	29	2.1	29	100	0	122	37	24	9	27	1.87
42590073--42590127	27	2.0	27	92	0	92	29	29	3	38	1.74
42597788--42598012	40	5.7	40	85	4	267	35	17	29	17	1.93
42597807--42598012	78	2.6	79	85	1	279	35	18	28	16	1.93
42597788--42598009	118	1.9	119	85	1	311	35	18	28	17	1.93
42598157--42598191	18	1.9	18	88	0	52	8	34	5	51	1.56
42609119--42609166	20	2.4	20	96	0	87	39	10	16	33	1.83
42609214--42609285	26	2.8	26	87	2	101	26	25	20	27	1.99
42609505--42609588	31	2.7	31	94	1	143	34	17	23	23	1.96
42617191--42617238	20	2.4	20	100	0	96	37	10	18	33	1.85
42617202--42617238	11	3.5	11	78	14	51	37	10	18	32	1.86
42617286--42617358	26	2.8	26	91	4	112	28	24	20	26	1.99
42617296--42617371	26	2.9	26	88	7	93	28	23	19	27	1.98
42617578--42617656	31	2.5	31	87	0	113	32	18	24	24	1.97
42621734--42621864	49	2.7	49	82	7	167	23	27	18	30	1.98
42621882--42622039	46	3.4	47	81	5	178	23	28	19	28	1.98
42631316--42632001	342	2.0	342	100	0	1372	36	10	18	33	1.86
42632343--42632684	171	2.0	171	99	0	675	35	16	21	25	1.95
42634380--42634457	41	1.9	41	84	5	104	26	23	37	12	1.91
42636501--42636533	18	1.9	17	88	11	50	18	27	39	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42649992--42650141	55	2.8	54	80	4	149	26	15	29	28	1.96
42649964--42650141	27	6.6	27	77	6	146	25	15	28	30	1.96
42649965--42650120	82	1.9	81	81	6	190	25	16	28	30	1.96
42652831--42652907	36	2.1	36	90	0	118	49	3	6	40	1.47
42653284--42653342	29	2.1	29	96	3	111	45	3	18	32	1.66
42654215--42654245	13	2.4	13	94	0	53	35	0	12	51	1.40
42656054--42656107	22	2.5	21	81	3	63	12	31	35	20	1.90
42658356--42658483	46	2.8	48	81	10	158	26	19	30	23	1.98
42665890--42666062	46	3.7	47	83	9	182	26	18	30	24	1.98
42675459--42675582	43	2.9	42	71	7	115	29	24	12	33	1.93
42678360--42678403	14	3.1	14	87	6	54	40	2	2	54	1.25
42678904--42678928	3	8.3	3	100	0	50	68	0	0	32	0.90
42682358--42682399	9	4.6	9	80	14	50	83	0	7	9	0.81
42692409--42692677	46	5.8	46	90	0	340	20	24	14	40	1.90
42693058--42693108	24	2.1	24	88	0	75	60	1	0	37	1.08
42700090--42700132	21	2.0	21	86	0	59	44	16	23	16	1.86
42703909--42703950	21	2.0	21	86	9	59	40	4	0	54	1.21
42706743--42706804	30	2.1	30	96	0	115	59	14	3	22	1.49
42706834--42706876	22	2.0	22	85	0	59	55	9	11	23	1.64
42707122--42707184	30	2.1	30	93	0	108	25	0	12	61	1.31
42707269--42707307	18	2.0	20	85	9	55	25	0	10	64	1.25
42707308--42707341	12	2.8	12	90	0	50	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42707615--42707665	16	3.1	16	77	8	50	68	0	19	11	1.20
42707623--42707691	36	1.9	36	84	0	93	66	0	17	15	1.25
42710310--42710356	24	2.0	24	87	8	69	27	10	17	44	1.81
42710318--42710390	24	3.0	24	79	0	65	24	12	23	39	1.89
42710818--42710872	16	3.4	16	89	0	83	36	7	27	29	1.84
42711053--42711176	58	2.1	58	88	2	178	51	3	0	45	1.17
42713090--42713162	35	2.1	35	97	0	137	49	8	13	28	1.71
42717289--42717332	21	2.1	21	87	8	63	31	25	13	29	1.94
42717750--42717831	43	1.9	43	92	0	137	34	25	15	24	1.95
42717663--42717821	86	1.9	85	80	6	187	33	25	15	26	1.95
42724810--42724979	93	1.8	93	92	0	286	30	28	19	22	1.98
42724804--42724976	46	3.7	46	76	13	174	30	27	19	22	1.98
42727072--42727099	4	7.0	4	100	0	56	50	0	0	50	1.00
42727845--42727892	10	4.3	12	75	20	50	70	4	0	25	1.04
42727845--42727892	16	3.0	16	79	11	62	70	4	0	25	1.04
42727937--42727976	20	2.0	20	100	0	80	65	5	5	25	1.34
42728148--42728185	20	1.9	20	84	10	51	50	7	5	36	1.54
42730366--42730437	35	2.0	36	81	2	83	52	11	2	33	1.51
42732041--42732070	12	2.5	12	100	0	60	6	36	20	36	1.79
42738223--42739106	6	147.3	6	100	0	1768	50	16	0	33	1.46
42746948--42747013	29	2.3	29	89	10	100	28	18	7	45	1.76
42752459--42752775	94	3.3	95	80	10	323	27	17	29	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42752507--42752775	96	2.8	95	81	8	302	26	17	30	25	1.97
42752497--42752773	47	5.8	50	73	11	190	26	17	30	24	1.97
42756689--42756846	43	3.7	43	77	12	110	34	27	16	22	1.95
42760898--42761053	68	2.3	68	94	0	267	17	25	23	32	1.97
42778364--42778471	54	2.0	54	94	1	191	39	30	5	24	1.78
42782434--42782721	46	6.1	46	76	8	240	26	29	16	27	1.97
42782498--42782711	93	2.3	94	84	2	270	25	29	16	28	1.97
42788195--42788395	48	4.3	48	79	11	177	23	30	16	29	1.96
42788216--42788476	92	2.9	87	79	10	251	22	30	18	28	1.97
42788220--42788476	46	5.6	46	78	9	204	23	30	18	28	1.97
42788220--42788489	138	2.0	136	80	7	303	23	30	18	28	1.97
42801997--42802054	30	2.0	30	86	3	82	34	10	12	43	1.76
42802838--42802893	25	2.2	27	78	18	66	32	5	1	60	1.29
42807941--42807975	15	2.3	15	95	0	61	48	11	28	11	1.74
42811372--42811475	47	2.2	45	92	1	127	25	18	12	44	1.84
42817138--42817222	29	3.0	29	78	8	70	30	27	14	28	1.95
42817150--42817222	29	2.6	28	82	4	92	30	28	12	28	1.93
42817433--42817475	8	5.4	8	88	0	50	11	23	13	51	1.74
42827979--42828200	40	5.6	40	86	3	306	25	24	25	24	2.00
42827979--42828200	80	2.8	80	92	2	349	25	24	25	24	2.00
42832188--42832221	18	1.9	18	88	5	52	29	8	20	41	1.82
42832777--42832803	13	2.1	13	100	0	54	22	33	14	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42833873--42834505	29	21.9	29	97	0	1171	27	30	17	24	1.97
42835564--42835635	37	1.9	37	94	0	126	22	40	6	30	1.80
42836482--42836516	18	1.9	18	88	0	52	14	42	0	42	1.45
42837701--42837736	15	2.4	15	90	0	54	55	25	0	19	1.43
42838751--42838849	29	3.5	28	83	5	119	28	29	17	25	1.97
42839763--42839847	28	3.0	28	82	3	98	30	28	15	25	1.96
42839906--42839939	18	1.9	18	88	5	52	20	38	23	17	1.93
42840749--42840848	29	3.5	29	86	1	139	28	29	16	27	1.97
42841754--42841867	29	4.0	29	82	8	119	28	28	15	27	1.96
42841745--42841853	58	1.9	58	83	5	141	27	30	15	26	1.96

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