genome.fa.s2.2.7.7.80.10.50.1000.99.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  99  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)
32119332--32119554	40	5.6	40	85	3	236	26	27	21	24	1.99
32119486--32119563	40	1.9	41	82	10	97	28	28	20	23	1.99
32134582--32134732	28	5.4	28	91	1	214	26	13	27	32	1.93
32142682--32142866	55	3.4	53	79	11	187	34	17	24	23	1.96
32142689--32142889	108	1.8	110	85	6	284	33	18	24	23	1.97
32143128--32143158	16	1.9	16	93	0	53	41	0	22	35	1.54
32151199--32151320	54	2.3	54	86	0	172	27	10	17	44	1.82
32151199--32151325	27	4.7	27	85	1	155	26	11	16	44	1.82
32151199--32151359	54	3.0	53	81	5	155	26	10	19	44	1.83
32151672--32151717	18	2.6	18	89	0	74	19	19	15	45	1.85
32153760--32153918	72	2.3	67	86	7	203	29	22	28	19	1.98
32153848--32153899	27	2.0	26	84	3	68	34	21	26	17	1.95
32154540--32154683	27	5.3	27	89	0	207	22	18	21	37	1.94
32154540--32154701	54	3.0	53	83	3	207	24	17	20	36	1.95
32154540--32154701	81	2.0	81	85	4	220	24	17	20	36	1.95
32155649--32155753	56	1.9	56	84	5	142	35	20	24	20	1.96
32155674--32155753	27	2.9	27	88	5	115	32	21	25	21	1.98
32155869--32155933	28	2.3	28	92	5	105	29	7	29	33	1.85
32162331--32162445	55	2.1	56	80	11	130	36	21	22	19	1.95
32162364--32162445	28	3.0	27	85	10	105	32	21	24	20	1.98
32162364--32162445	27	3.0	28	81	13	107	32	21	24	20	1.98
32162551--32162615	28	2.3	28	92	5	105	29	7	29	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32167799--32167823	12	2.1	12	100	0	50	56	16	0	28	1.41
32169592--32169742	27	5.6	27	82	6	173	41	21	6	29	1.79
32169582--32169758	54	3.3	54	84	4	216	41	19	7	31	1.79
32169607--32169821	80	2.7	80	80	6	213	40	19	8	32	1.81
32169600--32169827	107	2.1	107	80	9	250	40	19	8	32	1.81
32169833--32170002	27	6.3	27	89	0	259	31	23	5	39	1.77
32169618--32170091	27	17.6	27	77	7	203	38	20	7	33	1.80
32169835--32170045	81	2.6	81	86	1	244	32	23	5	38	1.78
32170077--32170105	14	2.0	15	93	6	51	62	17	0	20	1.33
32170100--32170368	27	10.0	27	82	2	299	34	18	21	25	1.96
32170104--32170314	109	1.9	110	92	4	356	33	20	21	25	1.97
32171018--32171116	27	3.7	27	83	5	110	19	22	22	36	1.95
32171256--32171372	6	18.8	6	73	16	96	18	17	14	48	1.81
32171256--32171367	31	3.6	31	93	1	170	18	17	15	48	1.82
32171256--32171372	19	6.3	18	72	17	96	18	17	14	48	1.81
32172645--32172717	25	2.9	25	76	8	76	24	20	20	34	1.97
32177802--32177891	27	3.2	27	81	7	101	33	24	22	20	1.97
32177997--32178116	28	4.2	28	94	1	204	30	7	25	35	1.84
32181076--32181132	27	2.1	28	96	3	107	40	0	21	38	1.53
32185280--32185332	2	27.0	2	88	3	81	49	0	50	0	1.00
32186394--32186450	20	2.8	20	75	17	55	40	14	0	45	1.44
32190700--32190919	27	8.1	27	84	0	251	29	20	7	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32190700--32190919	54	4.1	54	83	0	287	29	20	7	42	1.80
32190700--32190919	81	2.7	81	80	2	280	29	20	7	42	1.80
32190705--32190907	108	1.9	108	91	2	336	29	19	8	42	1.80
32191457--32191523	25	2.7	24	90	4	98	19	23	10	46	1.81
32191426--32191523	31	3.4	30	73	21	91	19	21	11	47	1.80
32193416--32193495	31	2.6	31	78	7	90	20	18	12	48	1.80
32193438--32193538	37	2.7	37	84	3	123	21	20	9	47	1.79
32193472--32193537	6	10.8	6	79	9	71	19	19	10	50	1.77
32205515--32205626	40	2.8	40	83	0	125	26	30	20	22	1.98
32205603--32205653	24	2.1	24	88	0	75	21	27	27	23	1.99
32205564--32205689	64	2.0	64	88	0	189	25	26	21	26	1.99
32205628--32205737	40	2.8	40	91	0	175	27	26	20	25	1.99
32205541--32205733	104	1.9	104	86	2	280	26	27	21	23	1.99
32212180--32212260	27	3.0	27	87	7	128	27	14	18	39	1.90
32212515--32212559	23	1.9	24	90	4	74	22	2	51	24	1.60
32212575--32212636	18	3.4	18	72	0	61	25	16	12	45	1.83
32217766--32217937	93	1.8	93	91	0	281	21	19	29	29	1.98
32217770--32217944	46	3.8	46	76	13	178	21	19	29	29	1.97
32220321--32220399	39	2.0	39	92	4	133	26	22	24	26	2.00
32224898--32225028	65	2.0	65	98	0	253	35	25	15	23	1.94
32235071--32235516	46	9.7	46	91	5	724	28	28	21	21	1.99
32239439--32239559	61	2.0	61	98	0	233	42	11	7	38	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32244150--32244210	30	2.0	30	83	0	77	31	22	8	37	1.84
32248340--32248569	115	2.0	115	98	0	442	38	18	8	34	1.81
32248705--32248765	30	2.0	30	83	0	77	31	22	8	37	1.84
32248586--32249088	251	2.0	251	97	0	943	28	21	9	41	1.84
32249113--32249532	210	2.0	210	98	0	813	33	19	12	34	1.89
32257531--32257618	29	3.1	29	83	8	101	29	30	12	27	1.93
32257843--32257873	16	1.9	16	100	0	62	16	25	12	45	1.83
32271142--32271235	46	2.0	46	95	0	170	29	19	13	37	1.90
32275190--32275254	16	3.9	17	69	15	55	67	4	3	24	1.24
32278289--32278504	80	2.7	79	83	3	236	25	20	27	26	1.99
32278335--32278504	40	4.3	40	90	0	234	24	21	28	26	1.99
32278357--32278539	79	2.3	80	82	1	226	25	20	27	25	1.99
32289732--32289814	42	2.0	42	97	0	157	32	25	6	36	1.80
32289774--32290028	128	2.0	128	97	0	483	34	20	9	36	1.84
32290107--32290253	73	2.0	73	98	0	285	42	22	12	22	1.86
32290357--32290500	39	3.7	39	87	1	191	29	27	21	21	1.99
32292581--32292610	14	2.1	14	93	0	51	30	20	16	33	1.94
32300984--32301286	40	7.6	40	90	2	387	24	20	28	27	1.99
32308346--32308568	40	5.6	39	80	10	202	25	21	27	25	1.99
32308426--32308603	79	2.2	80	79	5	184	25	21	28	24	1.99
32310506--32310649	39	3.7	39	91	0	234	27	26	22	22	1.99
32324031--32324062	16	2.0	16	93	0	55	53	25	3	18	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32325431--32325478	19	2.6	19	86	3	62	29	16	35	18	1.93
32325546--32325669	29	4.3	29	76	6	119	30	12	28	29	1.92
32325550--32325662	58	2.0	57	82	5	138	30	12	30	27	1.93
32331831--32331877	19	2.5	19	77	16	53	31	8	0	59	1.27
32334278--32334366	25	3.6	25	76	14	94	23	26	20	29	1.99
32336924--32336991	29	2.3	29	82	5	84	26	29	13	30	1.94
32337098--32337165	29	2.3	29	85	5	93	27	30	13	27	1.94
32337271--32337338	29	2.3	29	82	5	84	27	32	13	26	1.93
32336813--32337443	174	3.6	174	93	0	1111	31	24	14	29	1.95
32344482--32344549	29	2.3	29	82	5	84	29	30	13	26	1.94
32344371--32344720	174	2.0	174	97	0	664	31	25	14	28	1.95
32344656--32344729	29	2.6	29	86	4	96	25	31	16	27	1.96
32358360--32358543	67	2.8	64	77	8	194	29	17	29	22	1.97
32364418--32364484	33	2.0	33	91	0	107	41	13	11	32	1.81
32367591--32367935	40	8.5	40	83	7	428	26	25	23	25	2.00
32367591--32367935	83	4.2	80	84	6	444	26	25	23	25	2.00
32367591--32367935	123	2.8	123	92	1	563	26	25	23	25	2.00
32373884--32374190	40	7.7	40	93	0	524	28	20	28	22	1.99
32373884--32374190	120	2.6	120	97	0	578	28	20	28	22	1.99
32381285--32381351	21	3.1	21	84	2	89	41	49	1	7	1.40
32381440--32381503	27	2.4	27	81	0	74	32	14	25	28	1.94
32381600--32381760	27	6.0	27	80	6	166	25	22	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32381600--32381752	81	1.9	81	83	2	200	25	22	17	33	1.96
32382316--32382347	15	2.1	15	94	0	55	46	40	0	12	1.42
32393384--32393409	13	2.0	13	100	0	52	30	30	38	0	1.58
32399317--32399401	15	5.8	14	77	8	71	57	16	16	9	1.64
32399328--32399405	15	5.2	15	74	11	79	56	15	16	11	1.67
32405424--32405686	40	6.6	39	86	4	278	25	27	21	25	1.99
32405424--32405686	120	2.2	119	82	4	307	25	27	21	25	1.99
32405618--32405695	40	1.9	41	82	10	97	26	28	20	24	1.99
32413460--32413682	40	5.6	40	85	3	236	26	27	21	24	1.99
32413614--32413691	40	1.9	41	82	10	97	26	28	21	23	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