genome.fa.s8.2.7.7.80.10.50.1000.172.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  172  of  279  ( 33431 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)
56892143--56892246	23	4.5	23	71	2	82	42	17	15	25	1.88
56892259--56892307	2	24.5	2	87	0	71	44	0	2	53	1.12
56892268--56892307	14	2.9	14	100	0	80	45	0	0	55	0.99
56893210--56893323	43	2.6	42	82	10	149	30	25	18	25	1.98
56895165--56895250	9	8.3	11	91	8	73	30	3	0	66	1.08
56895164--56895231	3	23.0	3	88	8	104	32	1	0	66	1.01
56910683--56910716	16	2.1	16	94	0	59	44	0	0	55	0.99
56910689--56910747	17	3.7	16	72	19	52	42	1	1	54	1.20
56910732--56910818	14	6.1	15	66	18	53	50	2	0	47	1.13
56914167--56914204	20	2.0	20	84	5	51	26	7	2	63	1.35
56915627--56915694	30	2.2	31	86	2	93	32	19	22	26	1.97
56915560--56915774	89	2.4	86	82	5	252	39	17	19	23	1.92
56917099--56917209	57	1.9	57	98	0	213	25	12	9	53	1.68
56917194--56917228	15	2.3	15	90	5	52	20	0	0	80	0.72
56917194--56917228	16	2.2	16	90	5	54	20	0	0	80	0.72
56923335--56923448	41	2.9	37	69	10	93	28	26	21	23	1.99
56923682--56923756	19	4.0	19	69	20	68	37	25	1	36	1.65
56924760--56924821	2	35.0	2	73	23	59	54	0	0	45	0.99
56924761--56924822	5	12.2	5	86	11	74	56	0	0	43	0.99
56925211--56925268	23	2.4	25	82	8	75	39	17	12	31	1.86
56925259--56925365	23	4.6	23	80	2	115	40	17	16	25	1.91
56925226--56925365	70	2.0	69	88	4	210	40	18	15	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56925226--56925365	23	6.0	23	75	6	113	40	18	15	26	1.90
56925285--56925379	47	2.0	47	85	0	127	40	17	15	26	1.90
56926296--56926416	43	2.8	43	79	14	142	28	25	20	24	1.99
56928250--56928274	3	8.3	3	100	0	50	32	0	32	36	1.58
56928273--56928302	3	10.0	3	100	0	60	33	0	0	66	0.92
56933387--56933412	6	4.3	6	100	0	52	34	0	0	65	0.93
56938833--56938860	13	2.2	13	100	0	56	14	7	21	57	1.61
56938948--56939013	13	5.1	13	79	0	78	34	6	22	36	1.79
56939625--56939663	20	2.0	20	94	0	69	38	5	41	15	1.69
56940663--56940744	41	2.0	41	97	0	155	17	20	32	29	1.95
56940736--56941408	158	4.4	157	88	5	991	29	11	8	50	1.67
56940736--56941408	306	2.2	314	90	4	1041	29	11	8	50	1.67
56946353--56946420	30	2.2	31	86	2	102	30	17	20	30	1.96
56946305--56946500	89	2.2	90	84	4	254	39	16	18	25	1.91
56947451--56947627	3	59.0	3	100	0	354	33	0	0	66	0.92
56953776--56953810	16	2.2	16	89	0	52	42	0	0	57	0.99
56953770--56953833	29	2.2	29	83	10	78	45	1	0	53	1.10
56953769--56953912	32	4.5	31	71	15	91	47	0	0	51	1.05
56953806--56953857	17	3.2	16	83	8	61	42	1	0	55	1.10
56953840--56953864	13	1.9	13	100	0	50	52	0	0	48	1.00
56953860--56953904	23	1.9	24	86	13	67	48	0	0	51	1.00
56953861--56953912	14	3.5	15	79	10	54	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56953860--56953915	21	2.6	22	76	18	55	48	0	0	51	1.00
56956816--56956872	29	2.0	29	86	6	80	29	21	33	15	1.94
56959148--56959215	30	2.2	31	86	2	102	30	17	20	30	1.96
56959122--56959296	90	2.0	88	85	6	237	38	16	19	25	1.92
56959261--56959327	31	2.2	31	83	5	82	29	16	22	31	1.96
56964703--56964808	55	1.9	55	84	3	142	28	10	19	41	1.84
56972227--56972273	7	6.7	7	100	0	94	42	0	44	12	1.42
56980653--56980680	8	3.5	8	100	0	56	35	28	10	25	1.89
56980854--56980891	17	2.2	17	86	9	51	42	21	2	34	1.67
56983901--56983936	17	2.0	19	89	10	58	33	0	5	61	1.19
56990886--56990957	11	6.9	11	70	20	57	58	0	1	40	1.07
56990915--56990977	28	2.2	29	94	2	110	68	0	0	31	0.90
56990933--56990987	19	2.8	20	81	8	78	74	0	0	25	0.82
56990926--56990986	9	6.6	9	79	7	68	72	0	0	27	0.85
56996435--56996475	21	2.0	21	86	9	59	39	0	4	56	1.21
57000434--57000485	20	2.6	20	84	0	68	46	21	5	26	1.74
57000803--57000858	19	2.9	19	81	2	67	33	14	8	42	1.77
57008090--57008120	14	2.2	14	94	0	53	19	6	12	61	1.53
57008337--57008370	12	2.8	12	90	0	50	67	0	0	32	0.91
57008619--57008697	33	2.5	32	87	6	108	24	8	8	58	1.57
57010766--57010807	13	3.4	12	84	12	50	9	0	19	71	1.13
57014662--57014691	6	5.0	6	100	0	60	16	0	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57015349--57015526	69	2.5	70	80	9	191	36	15	5	42	1.71
57015794--57016056	141	1.9	142	83	5	345	32	15	14	37	1.88
57016256--57016321	27	2.4	28	80	10	73	42	7	0	50	1.31
57016791--57016841	19	2.7	18	82	8	66	68	1	0	29	1.00
57031441--57031485	23	2.0	23	86	0	63	75	2	11	11	1.13
57036853--57036982	60	2.2	61	80	5	140	40	15	4	39	1.68
57044598--57044645	24	2.0	24	100	0	96	29	20	12	37	1.90
57048107--57048156	13	3.8	13	86	0	64	68	2	0	30	1.01
57048133--57048178	13	3.6	13	85	2	67	65	2	0	32	1.05
57048686--57048745	27	2.2	27	80	11	68	48	31	0	20	1.50
57057231--57057270	19	2.2	19	86	4	55	35	2	10	52	1.48
57057243--57057286	20	2.2	20	88	4	63	40	2	6	50	1.42
57062378--57062447	19	3.7	19	78	3	61	61	4	4	30	1.34
57062306--57062430	56	2.2	56	82	10	141	60	2	3	34	1.26
57062738--57062784	10	4.8	10	78	5	60	34	0	0	65	0.93
57062738--57062784	19	2.4	20	82	7	60	34	0	0	65	0.93
57062738--57062815	29	2.8	29	79	12	83	34	1	0	64	1.02
57068835--57068884	21	2.4	21	74	12	57	12	6	40	42	1.67
57069350--57069403	27	2.0	28	86	10	78	48	1	9	40	1.46
57077105--57077169	32	2.0	32	100	0	130	36	15	9	38	1.79
57089008--57089037	13	2.3	13	100	0	60	36	0	0	63	0.95
57094149--57094295	42	3.4	42	94	2	240	39	12	29	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57094718--57094857	42	3.3	42	95	1	244	37	12	30	19	1.89
57095754--57095794	15	2.5	17	80	11	59	63	0	2	34	1.08
57095745--57095794	24	2.0	26	84	7	68	60	0	2	38	1.09
57102499--57103559	46	23.0	46	97	0	1856	38	13	25	23	1.91
57108972--57109025	26	2.1	26	100	0	108	37	29	14	18	1.91
57110360--57110415	25	2.4	23	80	16	62	28	7	8	55	1.57
57110701--57110754	20	2.6	21	79	2	65	20	11	33	35	1.88
57110836--57110901	26	2.5	27	81	13	68	63	1	6	28	1.27
57111157--57111210	25	2.2	25	83	12	67	53	3	5	37	1.42
57113219--57113264	19	2.4	20	86	13	62	32	0	0	67	0.91
57113223--57113265	20	2.2	20	87	8	61	37	0	0	62	0.95
57114979--57115003	3	8.3	3	100	0	50	0	64	0	36	0.94
57117865--57117900	18	2.0	18	100	0	72	0	0	38	61	0.96
57117863--57117902	20	2.0	20	90	0	62	0	0	40	60	0.97
57117862--57117903	21	2.0	21	85	0	57	0	0	40	59	0.97
57124634--57124665	3	10.7	3	100	0	64	31	0	0	68	0.90
57130958--57131042	44	2.0	43	95	2	152	43	4	7	44	1.52
57133185--57133209	12	2.1	12	100	0	50	72	0	0	28	0.86
57143098--57143230	67	2.0	67	83	4	169	35	6	12	46	1.66
57144339--57144378	16	2.3	18	83	12	57	60	7	0	32	1.25
57145028--57145057	6	5.2	6	96	4	53	46	16	0	36	1.47
57147957--57147989	13	2.4	14	90	5	50	6	24	0	69	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57165988--57166013	13	2.0	13	100	0	52	23	15	7	53	1.67
57166399--57166433	18	1.9	18	88	0	52	51	5	8	34	1.56
57167821--57167946	39	3.2	39	91	0	189	23	22	28	26	1.99
57167821--57167964	78	1.8	78	82	2	182	22	23	28	25	1.99
57167821--57167973	39	3.9	39	88	0	144	22	23	29	24	1.99
57167821--57167984	78	2.1	78	80	5	181	22	23	28	25	1.99
57174450--57174575	39	3.2	39	95	0	216	21	21	30	26	1.98
57174450--57174613	39	4.2	39	88	2	206	21	22	29	26	1.99
57174450--57174640	78	2.5	78	82	5	201	20	22	29	27	1.98
57174468--57174645	39	4.6	38	81	6	148	20	22	29	27	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