genome.fa.s2.2.7.7.80.10.50.1000.109.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  109  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)
35427448--35427605	78	2.0	78	86	2	219	40	10	12	36	1.77
35433347--35433472	40	3.2	40	85	1	155	23	20	26	29	1.99
35441238--35441403	40	4.2	40	88	0	226	23	19	27	28	1.98
35444629--35444690	28	2.1	28	91	5	97	41	1	6	50	1.38
35445750--35445841	44	2.1	44	86	8	125	19	19	23	36	1.95
35445984--35446125	39	3.6	39	87	0	203	39	10	12	37	1.78
35447666--35447699	12	2.8	12	86	0	50	26	29	41	2	1.70
35459662--35459915	42	5.7	42	86	6	262	29	27	14	28	1.96
35459774--35460081	48	6.3	49	79	7	288	31	26	13	27	1.94
35459948--35460079	53	2.6	53	81	11	152	32	25	13	28	1.94
35463894--35464640	40	18.6	40	96	0	1359	20	24	27	26	1.99
35471113--35471240	64	2.0	64	96	0	238	32	3	27	36	1.75
35471871--35472172	40	7.6	40	91	1	473	22	24	27	26	2.00
35475691--35475761	20	3.4	20	82	7	79	81	1	12	4	0.90
35475693--35475761	7	9.7	7	74	16	54	81	1	13	4	0.91
35475691--35475761	23	3.2	23	82	9	69	81	1	12	4	0.90
35475721--35475763	16	3.0	14	81	15	52	76	2	13	6	1.08
35476609--35477102	44	11.2	44	74	8	355	30	18	24	27	1.98
35476614--35477087	132	3.6	132	86	2	598	30	18	24	27	1.97
35476609--35476977	175	2.1	175	89	1	560	29	18	23	27	1.98
35477049--35478180	407	2.8	408	91	1	1809	30	18	21	29	1.97
35477049--35478180	206	5.5	206	92	1	1835	30	18	21	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35478586--35478664	19	4.2	19	90	9	126	37	10	16	35	1.82
35478576--35478663	36	2.4	36	80	17	119	38	10	15	35	1.82
35478988--35479128	65	2.2	65	100	0	282	33	8	5	52	1.55
35479235--35479283	26	2.0	24	84	8	62	22	6	8	63	1.44
35483723--35483786	28	2.3	28	86	0	83	20	18	35	25	1.95
35484111--35484497	27	14.4	27	85	2	474	39	21	9	30	1.85
35484462--35484539	27	2.9	27	88	0	102	35	17	17	28	1.94
35485965--35486092	37	3.5	37	97	0	238	24	31	20	24	1.98
35486256--35486410	47	3.3	47	87	1	204	27	31	9	30	1.89
35488791--35488895	28	3.7	27	78	12	104	32	30	15	21	1.94
35488922--35489290	40	9.2	40	96	0	666	27	28	19	24	1.99
35490948--35491386	48	9.0	48	91	2	680	30	26	6	37	1.81
35490948--35491384	98	4.5	96	93	1	685	30	26	6	37	1.81
35490947--35491384	146	3.0	146	92	2	727	30	26	6	37	1.81
35497426--35497586	43	3.8	42	80	4	153	25	15	26	32	1.95
35503262--35503386	45	2.8	44	85	2	142	39	18	20	22	1.93
35505599--35505644	20	2.3	20	92	0	74	17	26	30	26	1.97
35516050--35516089	20	2.0	20	85	5	53	5	25	17	52	1.64
35517920--35517973	27	2.0	27	96	0	99	14	25	24	35	1.94
35522503--35522551	24	2.0	24	88	4	71	38	14	22	24	1.91
35522516--35522583	24	2.8	24	84	4	84	35	16	23	25	1.95
35524809--35524941	69	1.9	70	90	1	214	32	14	16	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35526329--35526659	47	7.0	47	95	2	592	33	8	28	29	1.86
35526329--35526659	143	2.3	141	95	2	592	33	8	28	29	1.86
35528263--35528407	40	3.7	40	81	10	156	24	22	27	25	2.00
35528263--35528440	40	4.5	40	78	10	107	25	21	27	24	2.00
35528337--35528440	39	2.7	40	79	5	97	27	21	26	24	1.99
35529750--35529968	47	4.7	47	92	0	339	33	8	30	27	1.87
35530368--35530548	90	2.0	90	97	0	344	34	12	18	34	1.89
35534117--35534249	28	4.7	28	75	14	121	23	34	15	27	1.94
35534339--35534375	19	1.9	19	94	0	65	13	35	18	32	1.90
35538648--35538686	20	1.9	20	84	5	51	41	2	25	30	1.69
35539201--35539275	37	2.0	37	100	0	150	38	13	24	24	1.91
35544719--35544836	43	2.7	43	80	0	137	26	15	24	33	1.95
35548381--35548440	27	2.3	26	85	2	75	35	20	23	21	1.96
35548408--35548549	67	2.1	67	88	5	203	30	22	28	18	1.97
35548479--35548530	27	2.0	26	84	3	68	34	21	26	17	1.95
35551593--35551625	18	1.9	17	88	11	50	30	15	12	42	1.83
35552422--35552561	60	2.3	60	84	8	178	26	25	20	27	1.99
35552421--35552522	28	3.5	27	71	19	80	24	28	20	26	1.99
35556504--35556570	33	2.0	33	94	0	116	25	20	11	41	1.87
35559040--35559091	27	2.0	26	84	3	68	36	19	26	17	1.94
35559344--35559391	19	2.5	19	96	0	87	6	35	27	31	1.82
35563145--35563312	43	4.0	43	79	4	162	33	24	13	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35566691--35566788	39	2.5	40	86	1	135	18	29	17	34	1.94
35570382--35570420	20	2.0	20	85	10	53	20	5	2	71	1.17
35574594--35574727	27	5.0	27	79	0	142	26	13	17	41	1.87
35574594--35574729	54	2.5	54	87	0	182	27	13	17	41	1.86
35583740--35583779	21	1.9	21	85	10	55	27	5	7	60	1.45
35585430--35585497	34	2.0	34	88	0	100	30	23	20	25	1.98
35588272--35588346	39	1.9	39	86	0	105	32	2	29	36	1.72
35591083--35591258	96	1.8	96	88	0	271	34	19	13	33	1.90
35593521--35593677	47	3.4	46	80	4	145	43	12	10	33	1.77
35597848--35597952	28	3.8	27	74	13	97	28	16	29	25	1.97
35603857--35603888	16	2.0	16	93	0	55	50	34	6	9	1.60
35605365--35605476	28	4.0	28	77	6	111	26	16	31	25	1.96
35605364--35605473	56	1.9	57	83	8	145	27	16	31	24	1.96
35610489--35610604	52	2.2	52	95	0	205	34	14	24	26	1.94
35610489--35610604	24	4.4	27	82	15	154	34	14	24	26	1.94
35610626--35610876	51	4.9	51	90	0	360	32	13	25	28	1.93
35620121--35620216	42	2.3	42	83	8	115	30	27	16	26	1.97
35620164--35620488	48	6.8	48	89	0	461	28	25	18	27	1.98
35621672--35621730	30	2.0	30	86	0	82	38	3	28	28	1.73
35622067--35622321	55	4.8	54	79	7	247	35	18	24	21	1.95
35623695--35623867	47	3.7	47	81	6	181	27	28	10	32	1.91
35632364--35632466	43	2.3	44	83	14	147	27	17	30	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35632371--35632499	43	3.0	43	85	1	143	27	19	29	23	1.98
35633928--35634055	39	3.3	39	83	0	166	21	25	20	32	1.97
35641941--35642070	39	3.3	39	87	4	188	21	24	20	33	1.97
35641945--35642067	41	3.0	41	85	4	178	22	24	20	32	1.98
35646124--35646355	49	4.7	49	79	5	250	28	26	18	26	1.98
35649126--35649169	15	2.9	15	89	0	70	56	13	13	15	1.67
35658621--35658854	102	2.3	101	82	2	263	26	28	19	26	1.99
35658661--35658903	51	4.8	50	78	3	227	28	26	17	26	1.98
35658668--35658852	101	1.8	102	84	3	257	27	27	18	25	1.98
35662914--35663168	55	4.8	53	81	7	236	21	25	17	36	1.94
35662961--35663161	108	1.8	110	89	4	318	22	25	17	34	1.95
35664424--35664508	42	2.0	42	86	8	120	30	23	16	29	1.96
35664469--35664739	48	5.8	48	79	6	286	29	25	18	26	1.98
35664565--35664698	42	3.0	42	88	6	169	25	24	22	27	2.00
35664468--35664738	138	2.0	138	83	2	348	28	25	19	26	1.98
35664721--35664803	37	2.2	37	85	4	105	25	27	18	28	1.98
35670212--35670245	17	2.0	17	94	0	59	38	23	14	23	1.92
35670281--35670450	27	6.3	27	74	9	123	31	14	17	37	1.89
35670319--35670555	27	8.7	27	77	5	201	31	12	19	36	1.90
35670361--35670555	54	3.6	54	84	4	239	31	12	20	36	1.89
35670323--35670555	82	2.9	81	84	3	272	30	12	19	36	1.89
35670831--35670928	29	3.4	29	91	2	153	19	33	16	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35670830--35670967	28	4.9	28	90	0	150	24	34	15	26	1.95
35673903--35674019	27	4.3	26	80	8	74	28	11	18	41	1.86
35673931--35674154	54	4.2	53	81	10	163	31	10	18	39	1.84
35673971--35674235	27	9.8	27	80	10	265	30	9	20	38	1.85
35674192--35674274	43	1.9	43	87	0	121	26	14	18	40	1.88
35676985--35677034	19	2.6	19	81	6	57	32	0	28	40	1.57
35678943--35679408	40	11.7	40	91	0	747	28	25	22	23	1.99
35680441--35680483	14	3.1	14	80	6	52	58	9	2	30	1.42
35680441--35680479	13	2.9	13	84	3	51	58	10	2	28	1.44
35688013--35688073	30	2.0	30	83	0	77	31	22	8	37	1.84

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