genome.fa.s25.2.7.7.80.10.50.1000.83.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   

This is table  83  of  297  ( 35593 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)
29881004--29881044	19	2.3	19	83	8	50	36	0	4	58	1.20
29883221--29883328	37	2.9	37	94	0	180	25	32	19	22	1.97
29883491--29883629	47	3.0	47	88	0	197	25	30	12	32	1.92
29891737--29891967	48	4.9	48	78	9	242	26	19	23	29	1.99
29894599--29894760	38	4.0	38	76	13	162	30	25	14	30	1.95
29894606--29894807	85	2.4	85	90	3	322	30	24	14	29	1.95
29894648--29894847	47	4.5	47	75	16	201	31	24	15	29	1.95
29894748--29894834	44	2.0	43	84	2	111	32	20	16	31	1.94
29903621--29903758	42	3.2	44	82	5	147	27	25	19	27	1.99
29903658--29903758	44	2.4	42	84	3	121	29	25	20	23	1.99
29918125--29918232	40	2.7	39	85	7	146	25	26	21	25	1.99
29918196--29918472	146	1.9	146	95	3	504	35	22	10	31	1.88
29926088--29926130	17	2.4	17	84	7	50	16	30	39	13	1.87
29929661--29929798	68	2.0	68	95	0	249	38	17	23	20	1.93
29935046--29935075	6	5.0	6	91	0	51	20	16	63	0	1.31
29941118--29941187	28	2.5	28	88	9	99	31	27	14	27	1.95
29944804--29945440	212	3.0	212	99	0	1265	30	23	8	37	1.86
29950445--29950475	16	1.9	16	93	0	53	70	9	9	9	1.33
29953695--29953811	49	2.3	49	85	8	148	28	30	12	28	1.93
29958026--29958100	24	3.2	24	75	11	84	38	16	20	25	1.92
29963281--29963318	20	1.9	20	94	0	67	15	18	18	47	1.83
29963623--29963670	16	2.9	16	77	17	53	18	12	37	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29970242--29970266	4	6.2	4	100	0	50	24	0	0	76	0.80
29975346--29975437	27	3.4	27	80	5	105	29	21	7	41	1.81
29975450--29975568	54	2.2	53	77	7	132	39	21	10	29	1.86
29975469--29975650	54	3.3	54	81	4	188	41	18	7	32	1.77
29975469--29975568	27	3.7	27	83	0	137	40	21	8	31	1.82
29975522--29975655	27	4.9	27	76	10	94	41	16	6	35	1.75
29975696--29975769	27	2.7	27	76	12	71	40	20	16	22	1.91
29976090--29976131	20	2.0	22	86	9	61	21	16	35	26	1.94
29976586--29976668	25	3.4	24	86	8	105	27	22	24	25	2.00
29976803--29976894	42	2.2	42	98	0	175	31	15	20	32	1.94
29976918--29977031	31	3.7	31	92	2	187	28	15	26	28	1.96
29979441--29979473	17	1.9	17	100	0	66	36	15	12	36	1.84
29987213--29987338	25	5.3	25	63	21	81	34	11	26	27	1.90
29987166--29987406	94	2.6	94	89	2	367	34	11	27	26	1.90
29987376--29988328	48	19.8	48	98	0	1818	33	6	28	31	1.82
29988474--29988582	37	2.9	37	93	0	182	22	18	31	27	1.97
29991660--29991836	48	3.7	48	73	7	153	21	18	26	33	1.96
29997507--29997747	120	2.0	120	95	0	437	23	16	22	37	1.93
30000680--30000722	22	2.0	22	85	0	59	30	11	4	53	1.57
30004036--30004083	23	2.1	23	84	7	62	35	8	12	43	1.73
30007172--30007310	62	2.3	61	81	3	154	24	28	15	31	1.96
30010386--30010452	32	2.1	32	100	0	134	41	20	2	34	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30016326--30016551	45	4.9	46	85	4	233	25	31	18	24	1.97
30029777--30029815	21	1.9	21	89	5	62	23	25	35	15	1.94
30030964--30031283	47	6.8	47	76	13	254	22	29	21	27	1.99
30031152--30031322	46	3.7	46	75	16	156	23	28	21	26	1.99
30032141--30032199	29	2.0	29	93	0	100	32	23	6	37	1.81
30034355--30034406	26	2.0	26	100	0	104	30	15	11	42	1.82
30038203--30038409	53	3.8	53	76	4	209	37	16	24	21	1.93
30045609--30045812	55	3.8	53	75	6	176	40	17	21	21	1.92
30047101--30047196	48	2.0	48	91	0	156	30	23	17	28	1.97
30047157--30047299	37	3.9	37	78	1	99	28	22	18	30	1.98
30054826--30054878	27	2.0	27	92	0	88	33	22	22	20	1.97
30055018--30055141	27	4.6	27	77	4	133	21	21	18	37	1.94
30055226--30055473	27	9.2	27	76	10	168	27	8	22	41	1.82
30055169--30055512	54	6.4	54	77	6	252	29	9	20	40	1.83
30055226--30055463	81	2.9	80	79	7	250	27	7	22	42	1.81
30055160--30055512	27	13.1	27	74	8	128	30	9	20	40	1.84
30061823--30061901	29	2.7	29	86	5	106	27	32	15	24	1.95
30063862--30063980	44	2.8	43	81	8	118	32	25	17	24	1.97
30072564--30072613	26	2.0	24	84	7	64	62	6	2	30	1.31
30072584--30072642	21	2.8	21	78	12	59	69	8	0	22	1.15
30073567--30073736	46	3.7	46	79	10	184	22	19	27	30	1.98
30073561--30073731	93	1.8	93	89	0	270	22	19	28	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30078363--30078461	28	3.5	28	84	4	119	32	26	13	28	1.93
30081300--30081423	27	4.6	27	78	12	121	40	23	8	28	1.83
30081300--30081450	27	5.6	25	72	11	95	40	23	8	27	1.84
30081292--30081452	54	3.0	54	80	4	173	39	23	8	28	1.84
30081324--30081468	27	5.3	26	73	16	82	42	21	7	28	1.80
30081446--30081694	27	9.2	27	84	3	279	30	21	7	40	1.81
30081461--30081692	80	2.9	79	87	3	320	31	20	7	40	1.81
30082020--30082079	27	2.3	26	88	2	84	21	20	20	38	1.94
30082210--30082276	31	2.2	31	86	0	89	20	16	11	50	1.76
30082229--30082285	12	4.7	12	72	12	53	21	17	12	49	1.79
30084234--30084358	27	4.7	26	76	8	99	41	22	7	28	1.80
30084341--30084396	27	2.2	25	84	12	69	46	19	8	25	1.79
30084227--30084386	54	3.0	54	77	7	173	40	21	8	29	1.82
30084381--30085061	27	25.2	27	85	0	833	31	20	7	40	1.80
30084398--30085050	81	8.1	81	96	0	1135	31	20	7	41	1.79
30085298--30085349	27	2.0	26	84	3	68	17	26	21	34	1.95
30085566--30085638	6	11.8	6	73	21	62	19	19	15	46	1.84
30085576--30085633	25	2.3	25	93	0	98	17	20	17	44	1.86
30087685--30087829	26	5.7	26	87	2	206	26	22	23	27	1.99
30087669--30087829	51	3.2	51	85	4	211	27	21	21	29	1.99
30087879--30087933	11	5.5	11	71	20	57	30	20	10	38	1.87
30087879--30087952	20	3.8	20	87	10	102	33	18	9	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30087879--30087951	39	1.9	37	86	10	103	32	19	9	38	1.84
30091701--30092002	40	7.6	40	90	4	441	25	21	27	25	2.00
30094182--30094348	45	3.7	45	84	1	210	25	13	26	34	1.93
30094182--30094349	90	1.9	90	87	2	248	25	14	26	34	1.94
30097706--30097754	22	2.2	22	96	0	89	36	4	26	32	1.75
30100834--30100866	15	2.2	16	89	10	52	30	0	15	54	1.41
30101931--30102052	45	2.7	45	85	0	181	25	13	24	36	1.91
30104615--30104718	23	4.5	23	80	3	111	24	19	17	39	1.92
30123381--30123426	22	2.0	23	84	12	60	19	8	2	69	1.25
30126793--30126858	34	1.9	34	84	6	89	24	22	22	30	1.99
30129314--30129362	25	2.0	25	95	0	89	24	20	16	38	1.92
30132366--30132522	43	3.7	42	78	6	174	29	28	18	23	1.98
30134651--30134797	28	5.3	28	87	1	188	24	17	35	22	1.95
30135130--30135254	27	4.6	27	87	0	187	37	20	11	30	1.88
30135130--30135268	54	2.6	54	87	0	197	37	22	10	29	1.88
30135245--30135309	27	2.4	27	84	0	76	40	16	15	27	1.89
30135175--30135281	54	2.0	54	85	3	144	39	20	11	28	1.87
30135260--30135311	27	1.9	27	92	0	86	34	17	19	28	1.94
30149422--30149813	40	9.8	40	85	3	520	26	28	20	24	1.99
30149402--30149809	120	3.4	120	95	0	719	26	28	20	23	1.99
30175101--30175497	47	8.4	47	95	1	695	31	8	30	29	1.87
30182495--30182520	13	2.0	13	100	0	52	69	0	15	15	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30184662--30184789	48	2.7	48	85	2	177	32	28	17	21	1.96
30187788--30187835	25	1.9	25	86	0	69	33	25	16	25	1.96
30187874--30187930	9	5.9	9	73	15	51	35	8	21	35	1.84
30187872--30187942	20	3.5	20	94	0	124	35	11	21	32	1.89
30187883--30187937	11	5.4	11	70	16	55	36	12	20	30	1.90
30187988--30188107	24	5.0	24	91	5	181	30	20	21	28	1.98
30188301--30188364	31	2.1	31	90	0	101	35	15	23	25	1.94
30197777--30197843	20	3.3	20	91	0	107	32	11	22	32	1.90
30197894--30198012	23	5.1	23	91	2	193	27	20	21	31	1.98
30198227--30198290	31	2.1	31	84	0	83	39	15	20	25	1.92

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