genome.fa.s2.2.7.7.80.10.50.1000.106.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  106  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)
34405198--34405548	46	7.6	46	71	16	285	22	19	28	30	1.98
34405191--34405603	93	4.4	93	96	0	736	22	19	28	30	1.98
34405247--34405589	47	7.4	47	72	16	311	21	19	28	30	1.98
34407960--34408021	16	4.1	15	75	17	58	70	0	9	19	1.14
34408743--34408791	25	2.0	25	83	0	62	38	0	16	44	1.48
34415282--34415312	16	2.0	16	93	6	55	58	6	6	29	1.48
34417300--34417342	22	2.0	22	81	9	52	30	4	2	62	1.28
34417661--34417704	11	3.6	11	78	21	52	63	0	2	34	1.07
34417661--34417714	26	2.1	26	86	6	74	62	1	3	31	1.23
34419898--34419937	8	4.8	8	84	9	53	12	2	2	82	0.87
34423332--34423443	33	3.4	33	79	8	120	25	21	23	29	1.99
34424041--34424147	45	2.4	44	85	4	135	31	17	19	30	1.95
34427057--34427211	43	3.6	42	81	11	181	25	19	24	30	1.98
34434004--34434028	9	2.8	9	100	0	50	64	0	12	24	1.27
34434514--34434670	43	3.7	43	79	10	160	24	17	27	30	1.97
34441874--34441899	13	2.0	13	100	0	52	84	0	0	15	0.62
34444733--34445004	39	7.0	39	92	0	436	23	28	25	22	1.99
34447219--34447248	16	1.9	15	93	6	51	26	0	0	73	0.84
34448636--34448667	15	2.0	17	88	11	50	62	6	3	28	1.34
34449104--34449164	10	6.6	9	74	20	54	39	1	3	55	1.26
34449112--34449193	18	4.5	19	73	15	57	35	2	3	58	1.29
34449112--34449176	28	2.4	28	76	7	71	38	1	3	56	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34449103--34449180	9	8.6	9	74	13	52	35	1	2	60	1.19
34449151--34449195	17	2.6	18	85	3	56	28	2	2	66	1.15
34449720--34449763	20	2.1	21	87	4	63	61	0	0	38	0.96
34450764--34450809	23	2.0	23	84	12	60	45	10	6	36	1.65
34450771--34450815	23	2.0	23	82	8	56	40	13	8	37	1.76
34455703--34455790	26	3.4	26	91	0	140	26	39	15	18	1.90
34457084--34457201	43	2.8	42	77	1	119	23	20	25	30	1.98
34459619--34459684	27	2.4	27	90	5	98	34	30	16	18	1.93
34459736--34459781	23	2.0	23	91	0	74	32	13	17	36	1.88
34459795--34459904	15	7.3	15	81	0	103	29	23	20	26	1.99
34459786--34459850	30	2.2	30	82	0	76	30	26	20	23	1.98
34459771--34459904	45	3.0	45	79	4	119	32	22	19	26	1.97
34463949--34463986	17	2.3	17	90	4	60	10	0	7	81	0.87
34464729--34464799	21	3.4	21	60	0	52	26	1	25	46	1.61
34464718--34464796	42	1.9	41	92	2	131	25	1	27	45	1.61
34464848--34464954	34	3.1	34	81	4	117	45	0	13	41	1.43
34465013--34465657	126	5.1	126	94	1	1012	37	16	16	29	1.91
34468714--34468769	24	2.4	22	80	16	67	51	5	0	42	1.24
34469196--34469230	18	1.9	18	94	0	61	42	0	25	31	1.55
34470989--34471053	30	2.2	30	94	0	112	36	3	32	27	1.72
34472872--34472948	13	5.9	13	89	0	118	36	22	7	33	1.83
34473377--34473410	16	2.1	16	94	0	59	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34479353--34480107	150	5.0	150	96	0	1343	34	13	21	29	1.92
34482399--34482436	15	2.7	14	88	8	51	57	7	0	34	1.28
34492810--34492876	30	2.2	30	89	0	98	13	22	37	26	1.91
34496023--34496499	27	17.7	27	78	6	241	38	20	8	32	1.82
34496184--34496415	80	2.9	79	88	1	338	41	20	7	29	1.80
34496184--34496443	107	2.4	107	81	5	278	41	20	7	29	1.80
34496184--34496443	80	3.2	79	86	5	319	41	20	7	29	1.80
34496546--34496623	27	2.9	27	74	11	79	37	20	20	21	1.95
34496936--34496976	20	2.0	20	90	9	66	21	19	34	24	1.97
34497409--34497556	26	5.8	26	87	2	194	27	23	20	28	1.99
34497409--34497556	52	2.9	51	88	6	219	27	23	20	28	1.99
34497409--34497556	25	5.8	26	84	5	178	27	23	20	28	1.99
34497701--34497792	42	2.2	42	92	0	148	29	14	21	34	1.93
34497816--34497892	31	2.5	31	93	0	136	29	18	24	27	1.98
34501688--34501727	21	1.9	21	100	0	80	40	27	5	27	1.77
34507318--34507568	43	5.9	43	95	0	443	10	23	33	32	1.89
34510781--34510824	14	3.1	14	76	0	52	20	45	0	34	1.51
34511625--34511664	20	2.0	21	85	14	57	27	5	15	52	1.63
34519224--34519248	12	2.1	12	100	0	50	24	24	16	36	1.94
34521523--34521601	37	2.1	37	90	0	122	25	31	18	24	1.98
34521722--34521848	47	2.7	47	82	4	150	26	30	9	33	1.88
34525188--34525452	28	9.5	28	97	0	478	32	28	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34525853--34526115	40	6.6	39	86	4	278	25	27	21	25	1.99
34525853--34526115	120	2.2	119	82	4	307	25	27	21	25	1.99
34526047--34526124	40	1.9	41	82	10	97	26	28	20	24	1.99
34533839--34534181	40	8.6	40	90	2	451	27	28	20	24	1.99
34534460--34535339	28	31.5	28	99	0	1699	35	28	11	25	1.90
34537899--34538016	46	2.5	46	83	8	141	23	29	18	27	1.98
34537940--34538065	46	2.8	43	83	7	144	24	27	18	29	1.98
34539884--34539982	49	2.0	49	90	3	155	23	19	21	36	1.95
34544555--34544620	19	3.7	19	76	15	86	39	3	6	51	1.42
34546214--34546321	26	4.2	26	93	0	189	32	7	24	36	1.83
34559203--34559228	12	2.2	12	100	0	52	26	23	15	34	1.94
34559330--34559554	48	4.7	49	75	4	197	25	25	20	27	1.99
34561874--34561898	5	5.0	5	100	0	50	20	0	0	80	0.72
34563243--34563300	26	2.2	27	87	3	82	12	6	1	79	1.00
34563263--34563319	20	2.8	20	86	7	80	12	1	5	80	0.95
34563252--34563319	6	10.5	6	77	14	64	11	4	4	79	1.02
34569058--34569091	2	17.0	2	87	0	50	47	2	2	47	1.32
34571717--34571756	21	1.9	21	84	0	53	50	15	5	30	1.65
34573562--34573593	8	4.0	8	95	0	55	34	15	0	50	1.45
34576585--34576609	7	3.6	7	100	0	50	44	0	28	28	1.55
34578664--34578755	27	3.4	27	83	5	114	28	23	7	40	1.82
34578787--34578910	27	4.6	27	79	4	135	42	22	7	27	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34578787--34578987	54	3.7	54	76	6	172	41	18	8	31	1.81
34578888--34578972	27	3.1	27	76	8	91	40	15	8	36	1.77
34579883--34579952	25	2.8	24	84	4	86	25	25	22	25	2.00
34579883--34579979	25	4.0	23	81	8	77	27	23	22	25	2.00
34580100--34580194	42	2.3	42	92	0	154	28	13	22	35	1.92
34581881--34582037	43	3.7	42	79	9	158	25	15	22	35	1.94
34581919--34582020	42	2.4	41	81	14	127	25	15	21	37	1.93
34583343--34583374	16	2.0	16	93	0	55	56	34	0	9	1.32
34584918--34585015	29	3.4	29	84	1	126	27	14	29	28	1.95
34589598--34589716	39	2.9	39	80	10	114	23	17	26	32	1.97
34591603--34591649	19	2.3	20	82	10	60	36	0	14	48	1.44
34593095--34593339	49	4.9	49	80	3	301	30	26	17	25	1.97
34593755--34593788	17	2.0	17	88	0	50	55	8	2	32	1.45
34593987--34594046	30	2.0	30	83	6	77	28	26	6	38	1.81
34595943--34595981	15	2.5	15	91	4	60	56	15	12	15	1.68
34598721--34598965	49	4.9	49	80	4	285	29	26	19	25	1.98
34599615--34599672	30	1.9	30	82	6	73	27	27	3	41	1.72
34600496--34600828	50	6.6	50	72	7	219	27	18	24	30	1.98
34600495--34600828	150	2.2	150	87	3	474	27	17	24	30	1.98
34601038--34601069	16	2.0	16	93	0	55	46	0	18	34	1.49
34603522--34603629	27	4.0	28	86	2	123	36	18	23	22	1.95
34603517--34603630	55	2.1	54	82	6	133	36	18	22	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34606957--34607370	49	8.6	49	94	2	696	29	29	7	32	1.86
34610132--34610388	47	5.4	47	88	1	352	28	28	8	35	1.86
34616294--34616349	27	2.1	26	83	3	67	37	21	21	19	1.94
34616485--34616546	26	2.3	27	91	8	101	27	6	27	38	1.81
34622561--34622711	47	3.1	47	85	7	203	30	11	29	28	1.91
34622583--34622711	51	2.6	49	91	4	199	31	11	29	27	1.92
34622682--34622818	46	3.0	46	90	0	211	34	7	31	27	1.84
34622962--34623070	37	2.9	37	91	0	173	23	18	30	27	1.98
34625054--34625094	19	2.1	20	86	4	57	34	0	14	51	1.43
34625538--34625780	50	4.8	50	78	1	270	26	17	25	30	1.97

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