genome.fa.s2.2.7.7.80.10.50.1000.170.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  170  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)
55496656--55496707	16	3.2	16	68	10	52	53	7	1	36	1.41
55496656--55496721	32	2.1	32	85	2	89	57	6	1	34	1.33
55497377--55497428	24	2.2	24	86	6	70	1	17	3	76	1.02
55507782--55507918	69	2.0	69	89	0	211	26	14	12	46	1.80
55510872--55510908	19	1.9	19	88	0	56	43	2	16	37	1.62
55511531--55511577	2	23.5	2	95	0	85	51	0	2	46	1.13
55512006--55512039	17	1.9	18	88	5	52	41	0	23	35	1.55
55512175--55512216	21	2.0	21	100	0	84	33	9	19	38	1.84
55514207--55514299	36	2.5	35	80	16	100	44	1	22	32	1.60
55515148--55515189	12	3.6	12	77	6	50	45	2	14	38	1.58
55515248--55515298	22	2.4	22	70	9	52	15	1	29	52	1.54
55515623--55515653	16	1.9	16	100	0	62	32	0	6	61	1.21
55515798--55515839	19	2.1	21	82	8	52	45	4	2	47	1.36
55518762--55518918	56	2.8	57	81	1	183	29	15	23	31	1.96
55525080--55525193	57	2.0	57	94	0	201	25	25	31	17	1.97
55531302--55531331	15	2.0	15	93	0	51	30	20	10	40	1.85
55535926--55535967	21	2.0	21	100	0	84	33	4	19	42	1.72
55539369--55539681	33	9.3	32	69	9	158	29	14	25	30	1.95
55539367--55539707	101	3.4	101	95	0	574	29	14	25	29	1.95
55543526--55543570	23	1.9	23	82	13	56	20	4	24	51	1.66
55546879--55546924	21	2.2	21	84	7	58	17	30	0	52	1.45
55547123--55547169	11	4.1	11	81	10	58	61	2	0	36	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55550537--55550592	28	2.0	28	92	0	94	51	12	8	26	1.69
55553181--55553239	21	2.8	21	97	0	109	20	6	38	33	1.79
55554012--55554132	3	40.3	3	100	0	242	33	0	0	66	0.92
55557005--55557052	12	4.1	11	80	15	51	79	6	4	10	1.05
55557083--55557123	12	3.5	12	80	6	57	63	2	7	26	1.33
55557169--55557223	23	2.3	24	81	3	67	78	3	5	12	1.06
55557243--55557280	11	3.7	11	90	10	55	81	5	0	13	0.85
55558108--55558144	19	1.9	19	88	0	56	16	32	29	21	1.95
55564096--55564263	42	3.9	42	78	4	156	42	16	24	16	1.88
55570445--55570549	44	2.4	45	83	4	124	25	19	10	44	1.82
55570396--55570568	45	3.8	45	77	8	156	23	17	12	46	1.83
55576671--55576788	28	4.2	28	85	4	148	29	12	23	33	1.92
55576658--55576779	56	2.2	56	88	2	174	26	12	26	35	1.91
55581047--55581687	213	3.0	213	98	0	1246	26	13	21	38	1.91
55589180--55589262	40	2.1	40	86	0	112	22	15	26	34	1.94
55589270--55589372	28	3.7	28	92	0	161	24	14	28	33	1.94
55596921--55596947	5	5.4	5	100	0	54	0	18	0	81	0.69
55602084--55602135	18	2.9	17	80	11	52	36	1	5	55	1.35
55602217--55602250	16	2.1	17	88	5	52	41	0	5	52	1.25
55614352--55614420	30	2.3	30	85	5	86	28	30	23	17	1.97
55615404--55615506	40	2.6	40	78	3	100	33	25	16	24	1.96
55615910--55615968	29	2.0	29	83	6	75	32	25	0	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55617459--55617499	20	2.0	20	100	0	82	43	9	21	24	1.83
55619976--55620000	13	1.9	13	100	0	50	16	24	40	20	1.91
55620041--55620066	13	2.0	13	100	0	52	15	15	30	38	1.88
55637818--55637850	18	1.9	17	88	11	50	21	15	9	54	1.68
55643994--55644170	40	4.4	40	81	2	187	25	27	22	24	2.00
55648650--55648757	43	2.5	43	83	8	123	36	20	12	30	1.90
55649240--55649299	29	2.1	28	81	9	68	28	25	1	45	1.63
55650597--55650727	6	21.3	6	70	18	74	50	12	18	19	1.77
55650606--55650727	37	3.4	36	79	13	146	50	11	18	18	1.76
55650620--55650727	31	3.3	31	74	14	108	50	12	18	19	1.78
55650846--55650905	27	2.3	26	82	2	66	36	20	21	21	1.95
55650944--55650995	27	2.0	26	84	3	68	34	21	26	17	1.95
55651231--55651478	27	9.2	27	87	0	316	40	7	22	29	1.80
55651231--55651478	81	3.1	81	88	0	370	40	7	22	29	1.80
55651457--55651623	27	6.3	27	77	12	130	29	8	22	39	1.84
55651402--55651602	54	3.7	53	77	6	172	32	8	22	36	1.84
55651564--55651623	26	2.3	25	83	13	68	26	8	23	41	1.82
55657241--55657292	20	2.6	20	81	0	59	34	9	9	46	1.69
55666440--55666467	14	2.0	14	100	0	56	35	0	64	0	0.94
55670648--55670934	27	11.0	24	71	17	87	2	44	6	46	1.43
55670669--55670760	27	3.5	27	75	11	93	2	48	6	42	1.41
55670721--55670769	15	3.3	15	76	21	57	0	53	8	38	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55670642--55670919	108	2.6	105	83	9	273	2	44	5	46	1.42
55670663--55670814	81	1.9	80	86	8	218	1	46	5	45	1.38
55670739--55670938	51	3.8	51	85	7	283	2	43	5	50	1.35
55670768--55670916	27	5.5	27	71	15	103	2	41	4	51	1.35
55670663--55671018	81	4.4	81	74	15	208	1	43	6	47	1.40
55670687--55670949	108	2.5	106	82	12	333	2	43	5	48	1.38
55670850--55670934	24	3.4	24	69	15	82	1	42	5	50	1.34
55670745--55670961	51	4.1	49	80	10	148	1	42	5	49	1.38
55670741--55670949	108	2.0	107	91	4	334	1	43	4	50	1.34
55670942--55671054	54	2.2	53	82	7	135	0	42	7	48	1.38
55680545--55680951	114	3.6	114	91	0	627	33	22	16	27	1.96
55685141--55685174	17	2.1	17	88	5	52	47	0	38	14	1.45
55685602--55685626	7	3.6	7	100	0	50	72	0	0	28	0.86
55691395--55691423	3	9.7	3	100	0	58	34	0	0	65	0.93
55694733--55694782	10	4.9	10	79	18	50	76	0	18	6	0.99
55702900--55702926	13	2.1	13	100	0	54	14	37	33	14	1.88
55717177--55717535	48	7.5	48	87	1	454	27	29	16	26	1.97
55727784--55727999	114	1.9	114	86	2	310	25	6	19	48	1.72
55727791--55728023	114	2.1	113	81	4	272	25	6	18	49	1.70
55727778--55728084	123	2.6	114	82	6	330	24	5	18	51	1.67
55740248--55740285	20	1.9	20	94	0	67	78	0	5	15	0.91
55748154--55748200	24	2.0	24	91	0	76	34	4	17	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55748554--55748587	13	2.5	13	95	4	59	29	0	17	52	1.45
55750510--55750565	26	2.2	26	100	0	112	30	7	26	35	1.83
55751589--55751690	51	2.0	51	100	0	204	29	5	25	39	1.79
55752176--55752320	54	2.7	54	93	3	238	17	24	22	34	1.96
55752179--55752338	27	5.9	27	82	12	177	19	25	21	34	1.96
55752179--55752338	81	2.0	81	84	7	209	19	25	21	34	1.96
55755941--55755974	11	3.1	11	86	0	50	8	11	14	64	1.49
55764304--55764382	37	2.1	37	88	0	113	26	31	17	24	1.97
55764503--55764629	47	2.7	47	83	2	157	27	31	9	31	1.88
55764633--55764738	47	2.2	47	88	5	160	28	30	9	32	1.88
55769203--55769244	18	2.3	18	88	8	59	42	11	19	26	1.85
55771860--55772037	98	1.8	100	79	10	215	30	0	13	56	1.38
55772002--55772033	15	2.1	16	94	5	57	37	0	6	56	1.25
55774055--55774142	33	2.6	33	73	18	83	17	43	11	28	1.83
55774119--55774197	33	2.4	33	76	0	86	15	44	8	31	1.77
55778357--55778392	18	2.0	19	89	10	58	16	36	30	16	1.91
55779995--55780050	27	2.1	27	86	3	78	25	26	25	23	2.00
55793009--55793043	16	2.2	16	90	10	54	28	11	8	51	1.67
55793580--55793618	15	2.5	15	95	4	69	10	5	17	66	1.39
55793833--55793933	31	3.4	30	80	5	107	42	1	19	35	1.63
55794991--55795076	41	2.1	40	84	2	109	20	3	9	66	1.35
55819119--55819143	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55819431--55819489	13	4.7	12	75	19	57	33	1	0	64	1.04
55820109--55820276	64	2.5	66	79	7	180	53	11	5	29	1.59
55820626--55820667	14	3.1	14	81	18	54	59	0	4	35	1.19
55822278--55823334	45	23.5	45	66	15	400	27	26	15	31	1.95
55822240--55823363	90	12.5	90	94	0	1784	27	26	15	31	1.95
55831470--55831501	14	2.1	16	88	11	50	43	12	25	18	1.85
55834821--55834860	15	2.6	16	82	17	50	65	2	5	27	1.27
55834742--55834911	69	2.5	66	81	5	198	54	11	5	28	1.58
55837739--55838215	258	1.8	258	98	0	918	28	15	20	36	1.93
55838115--55838315	100	2.0	100	97	0	375	31	11	18	38	1.87

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