genome.fa.s2.2.7.7.80.10.50.1000.107.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  107  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)
34625586--34625777	101	1.9	101	89	0	294	26	18	25	30	1.98
34625462--34625780	151	2.1	150	91	1	505	26	18	25	29	1.98
34625509--34625814	151	2.0	150	84	3	391	25	18	25	29	1.98
34625981--34626012	16	2.0	16	93	0	55	46	0	18	34	1.49
34629442--34629568	28	4.5	28	88	3	155	29	12	25	33	1.92
34629468--34629569	28	3.6	28	90	2	159	31	11	23	33	1.91
34629442--34629568	57	2.2	57	88	2	184	29	12	25	33	1.92
34637467--34637594	28	4.5	28	85	2	157	28	11	26	32	1.92
34652751--34652818	29	2.3	29	85	5	93	27	30	13	27	1.94
34652640--34652967	174	1.9	174	94	0	575	30	24	15	30	1.95
34652920--34652996	29	2.6	28	80	10	84	28	27	16	27	1.97
34656255--34656867	306	2.0	306	96	0	1127	28	22	20	29	1.98
34657037--34657336	150	2.0	150	100	0	600	32	26	14	27	1.94
34665457--34665524	29	2.3	29	85	5	93	27	30	13	27	1.94
34665346--34665673	174	1.9	174	97	0	620	30	24	14	30	1.95
34665626--34665704	29	2.7	30	82	13	110	29	30	15	25	1.96
34673603--34673670	29	2.3	29	85	5	93	27	30	13	27	1.94
34673772--34673850	29	2.7	30	82	13	110	29	30	15	25	1.96
34689906--34689951	23	2.0	23	87	4	67	45	8	6	39	1.61
34689913--34689957	23	2.0	23	86	0	63	40	11	8	40	1.72
34695903--34695981	38	2.1	38	90	0	122	22	21	25	30	1.99
34695979--34696089	43	2.6	43	92	0	186	13	25	30	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34698770--34698931	42	3.8	42	82	4	193	30	16	23	29	1.96
34705943--34706122	68	2.8	63	77	10	157	25	28	16	30	1.97
34716034--34716066	17	1.9	17	93	0	57	51	9	0	39	1.34
34718281--34718381	29	3.5	29	83	0	121	27	28	12	30	1.93
34718599--34718633	16	2.2	16	94	0	61	8	17	14	60	1.58
34732839--34732939	50	2.0	50	100	0	202	23	23	17	34	1.96
34736316--34736347	16	2.0	16	93	0	55	9	6	34	50	1.60
34737209--34737276	25	2.7	25	84	4	75	30	23	20	25	1.98
34751399--34751454	27	2.1	26	90	9	87	37	19	8	33	1.83
34753065--34753103	20	2.0	20	90	5	62	28	12	5	53	1.60
34755909--34756009	51	2.0	51	98	0	193	25	24	20	28	1.99
34765832--34765890	29	2.0	30	83	3	75	30	23	6	38	1.81
34772136--34772160	9	2.8	9	100	0	50	68	12	0	20	1.21
34773816--34773993	58	3.1	58	100	0	356	52	10	1	35	1.45
34774201--34774240	16	2.4	17	84	15	57	60	0	17	22	1.37
34775078--34775124	16	2.6	17	83	16	60	70	4	0	25	1.05
34775081--34775114	16	2.1	17	94	5	61	73	5	0	20	1.04
34775070--34775140	29	2.5	28	80	17	76	69	4	1	25	1.15
34775066--34775134	9	7.4	9	78	18	54	66	2	1	28	1.14
34780724--34781181	154	3.0	154	100	0	916	39	11	9	39	1.74
34781937--34781991	27	2.0	27	82	13	67	41	3	5	49	1.43
34782109--34782167	22	2.7	22	97	0	109	25	10	10	54	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34785428--34785605	27	6.6	27	85	3	214	30	28	14	26	1.95
34785449--34785604	82	1.9	81	89	3	242	30	28	14	26	1.95
34785428--34785619	82	2.3	83	78	11	225	30	27	14	28	1.95
34786699--34786723	13	1.9	13	100	0	50	32	16	20	32	1.94
34788937--34789085	74	2.0	74	97	0	280	18	26	22	32	1.97
34792745--34792902	84	1.9	84	100	0	316	35	29	16	18	1.93
34793137--34793307	83	2.1	83	100	0	342	28	22	21	27	1.99
34794262--34794439	27	6.6	27	84	3	205	29	28	15	26	1.96
34794283--34794438	82	1.9	81	88	3	233	29	28	15	26	1.96
34796474--34796589	42	2.7	41	75	12	117	32	23	18	25	1.97
34808295--34808423	43	3.0	42	70	9	109	30	23	19	27	1.98
34813584--34813734	40	3.8	40	86	3	189	22	25	29	22	1.99
34813700--34813799	50	2.0	50	94	0	173	26	22	28	24	1.99
34823072--34823105	16	2.1	16	100	0	68	61	5	5	26	1.42
34823471--34823543	21	3.4	22	79	9	87	30	28	27	13	1.94
34823748--34823803	29	2.0	29	89	3	87	48	28	5	17	1.69
34826872--34826950	37	2.1	37	90	0	122	25	31	18	24	1.98
34827069--34827228	47	3.4	47	92	0	257	28	31	8	32	1.86
34827119--34827197	25	3.3	25	66	16	76	31	29	5	34	1.79
34836204--34836248	21	2.1	21	84	8	56	40	20	24	15	1.91
34842604--34842786	79	2.3	81	83	7	223	25	27	22	24	2.00
34842602--34842786	40	4.7	40	81	9	209	25	28	22	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34852766--34853579	45	18.1	45	99	0	1619	35	22	8	33	1.85
34853727--34853845	43	2.8	42	78	5	132	31	24	15	29	1.95
34853727--34853887	42	3.8	42	79	4	155	31	24	13	29	1.94
34864323--34864416	45	2.1	45	97	0	179	36	21	9	32	1.86
34864564--34864682	43	2.8	42	78	5	132	31	24	15	29	1.95
34864564--34864724	42	3.8	42	79	4	155	31	24	13	29	1.94
34871950--34871976	13	2.1	13	100	0	54	14	37	33	14	1.88
34873415--34873639	40	5.7	40	87	5	287	25	27	22	24	2.00
34873415--34873639	119	1.9	120	84	6	305	25	27	22	24	2.00
34881506--34881709	40	5.1	40	80	7	218	26	27	21	24	1.99
34881554--34881705	79	1.9	80	84	6	202	26	27	20	25	1.99
34887322--34887346	13	1.9	13	100	0	50	16	32	36	16	1.90
34897508--34897537	14	2.1	14	100	0	60	50	6	6	36	1.55
34899869--34900123	55	4.8	53	80	8	245	36	16	24	21	1.94
34899876--34900076	108	1.8	110	88	4	309	35	16	25	22	1.95
34911570--34911613	24	1.9	23	86	9	63	20	31	2	45	1.64
34926547--34926576	12	2.5	12	94	0	51	30	6	6	56	1.51
34936171--34936234	18	3.6	18	69	12	60	39	18	1	40	1.60
34936166--34936235	35	2.0	35	100	0	140	40	20	2	37	1.67
34936462--34936495	16	2.1	16	100	0	68	32	20	23	23	1.98
34936811--34936842	16	1.9	17	93	6	57	37	9	0	53	1.34
34945076--34945184	42	2.6	42	80	2	130	32	24	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34951644--34951682	21	1.9	20	89	5	60	33	15	5	46	1.68
34959768--34959989	67	3.4	64	79	9	241	31	14	29	24	1.95
34966404--34966524	63	2.0	58	91	0	152	30	18	22	24	1.95
34967976--34968083	26	4.2	26	92	0	180	31	7	25	36	1.83
34973698--34973729	16	1.9	17	93	6	57	37	6	21	34	1.79
34973692--34973742	19	2.8	18	80	17	61	39	5	21	33	1.78
34974086--34974157	24	2.9	24	83	4	90	25	23	19	31	1.98
34974086--34974175	24	3.8	23	81	8	85	26	24	18	30	1.98
34974086--34974178	46	1.9	48	85	12	129	25	23	19	31	1.98
34982195--34982302	37	2.9	37	92	0	171	25	31	18	24	1.97
34982443--34982732	48	6.0	48	90	0	454	31	25	6	36	1.82
34988115--34988246	47	2.8	47	81	3	158	25	15	25	33	1.95
34996711--34996982	94	2.9	93	77	8	284	22	29	19	27	1.98
35000637--35000784	40	3.7	40	92	0	242	31	19	27	21	1.97
35007016--35007070	21	2.6	21	94	0	101	21	25	36	16	1.94
35008154--35008286	49	2.7	50	83	3	171	24	31	18	25	1.98
35008153--35008320	49	3.5	49	78	10	170	25	30	18	26	1.98
35014092--35014133	21	2.0	20	86	13	59	28	0	28	42	1.56
35015421--35015488	21	3.3	21	70	12	68	33	17	29	19	1.95
35015418--35015649	41	5.6	41	78	3	232	39	15	24	20	1.91
35015590--35015652	21	3.0	21	66	13	58	33	17	30	19	1.95
35015425--35015649	83	2.7	82	81	5	274	38	15	24	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35019307--35019452	38	3.8	38	86	5	190	23	23	24	28	1.99
35019445--35019526	43	1.9	43	89	0	128	14	24	31	29	1.95
35026031--35026077	23	2.0	23	100	0	94	19	8	25	46	1.77
35029906--35029935	16	1.9	15	93	6	51	63	10	0	26	1.26
35042017--35042057	21	2.0	21	95	4	75	51	4	9	34	1.56
35045555--35045646	37	2.5	37	85	0	121	39	21	16	22	1.92
35045811--35046210	200	2.0	200	96	0	728	38	18	9	33	1.84
35047569--35047660	43	2.1	43	85	0	121	25	11	23	39	1.89
35049158--35049380	40	5.6	40	86	3	245	24	20	27	26	1.99
35049233--35049415	79	2.3	80	82	1	226	25	20	27	25	1.99

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