genome.fa.s20.2.7.7.80.10.50.1000.33.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  33  of  186  ( 22216 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)
9903951--9903981	6	5.2	6	92	0	53	19	16	64	0	1.29
9910484--9910586	4	24.5	4	73	20	59	33	0	65	0	1.00
9910491--9910594	10	10.9	10	76	11	94	35	0	63	0	1.01
9910511--9910594	2	42.5	2	81	2	80	38	0	61	0	0.96
9910491--9910592	14	7.2	14	78	12	93	35	0	63	0	1.01
9910484--9910590	12	9.2	12	77	17	109	34	0	64	0	1.00
9911918--9911942	6	4.2	6	100	0	50	20	0	0	80	0.72
9914321--9914372	22	2.3	23	80	9	63	51	25	3	19	1.63
9923396--9923449	24	2.2	24	90	0	81	40	1	7	50	1.41
9931850--9931943	40	2.3	40	90	0	143	23	20	25	30	1.98
9931886--9932008	40	3.0	40	88	4	158	26	16	24	33	1.96
9931933--9932017	42	2.0	42	100	0	170	28	17	23	30	1.97
9935967--9936038	25	3.0	25	83	6	85	37	20	22	19	1.94
9936015--9936142	64	2.0	64	84	0	166	35	23	19	21	1.95
9937629--9937669	6	6.5	6	83	10	55	17	0	4	78	0.93
9937634--9937683	20	2.4	21	86	6	66	26	0	4	70	1.05
9940104--9940203	46	2.2	46	88	0	155	38	18	20	24	1.93
9940129--9940213	23	3.7	23	78	6	100	36	18	20	24	1.95
9952245--9952293	25	2.0	25	100	0	98	20	36	18	24	1.94
9952243--9952299	25	2.3	25	90	0	96	24	33	17	24	1.96
9980387--9980541	53	2.9	54	87	5	224	45	18	22	13	1.85
9982065--9982165	43	2.3	43	82	1	121	31	15	28	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9982086--9982189	43	2.4	45	86	3	140	28	14	26	29	1.95
9981642--9982427	176	4.5	174	78	8	792	31	17	23	27	1.96
9988018--9988086	27	2.6	27	92	0	111	30	18	18	31	1.96
9988652--9988692	20	2.0	20	100	0	82	41	19	0	39	1.52
9995647--9995719	27	2.7	27	82	2	85	31	16	17	34	1.93
9999452--9999600	23	6.5	23	75	3	120	35	19	20	24	1.95
9999502--9999600	46	2.2	46	90	3	155	36	22	18	23	1.95
10005167--10005264	30	3.3	30	78	16	89	43	3	0	53	1.16
10007971--10008006	2	18.5	2	88	5	56	47	2	0	50	1.15
10009054--10009302	131	1.9	131	89	1	383	29	18	18	32	1.95
10019918--10020581	180	3.7	174	81	8	695	29	24	16	30	1.96
10019918--10020581	177	3.7	174	81	7	696	29	24	16	30	1.96
10020548--10020670	44	2.8	45	70	18	112	28	22	19	29	1.98
10020447--10020908	234	2.0	235	79	5	515	26	23	17	32	1.97
10021090--10021280	64	3.0	64	91	0	301	38	13	16	31	1.87
10023112--10023152	9	4.6	9	93	6	66	0	2	7	90	0.54
10033927--10034461	44	12.2	44	85	3	700	28	15	29	25	1.96
10036115--10037085	485	2.0	485	100	0	1942	32	9	8	49	1.67
10037833--10038081	131	1.9	131	91	1	410	30	19	17	32	1.95
10038239--10038477	130	1.8	130	81	3	302	25	19	19	35	1.96
10039301--10039393	31	3.1	30	74	10	82	41	5	25	26	1.77
10046376--10046430	18	3.1	18	83	0	74	41	18	21	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10049805--10049844	21	1.9	21	89	0	62	27	32	17	22	1.96
10050187--10050451	131	2.0	131	98	0	512	30	18	9	41	1.82
10053074--10053175	50	2.0	50	85	7	136	35	4	16	43	1.70
10053916--10054023	15	7.2	15	69	12	87	25	23	7	43	1.79
10053906--10054029	30	4.1	30	95	1	212	25	25	6	42	1.78
10057602--10057725	30	4.1	30	91	1	194	25	23	6	44	1.77
10059147--10059199	18	2.9	18	75	11	54	33	1	0	64	1.05
10059953--10059986	14	2.3	15	85	10	52	38	0	8	52	1.33
10060442--10060467	12	2.2	12	100	0	52	30	0	0	69	0.89
10062096--10062148	26	2.1	26	96	3	99	52	9	22	15	1.70
10066973--10067129	2	78.5	2	100	0	314	0	0	49	50	1.00
10071868--10071898	15	2.1	15	93	0	53	29	0	0	70	0.87
10072453--10072528	31	2.5	31	83	8	86	50	13	5	31	1.63
10072477--10072560	31	2.7	31	85	1	107	44	10	8	36	1.70
10076294--10076331	2	19.0	2	100	0	76	0	50	0	50	1.00
10081540--10081579	21	1.9	21	100	0	80	32	0	20	47	1.50
10083819--10086799	744	4.0	744	98	0	5692	36	11	18	32	1.87
10091204--10091231	9	3.1	9	100	0	56	32	0	32	35	1.58
10092272--10092384	49	2.3	49	83	5	142	26	12	21	39	1.88
10094212--10094249	15	2.5	15	87	8	51	21	34	5	39	1.76
10095880--10095904	11	2.3	11	100	0	50	24	8	16	52	1.70
10098478--10098518	12	3.4	12	89	0	64	7	24	39	29	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10107791--10107880	45	2.0	45	93	0	153	43	16	13	26	1.85
10109916--10109986	36	2.0	36	82	0	88	28	7	19	45	1.76
10110643--10110740	34	2.9	35	86	6	121	33	4	14	47	1.63
10110640--10110722	17	4.9	17	83	2	96	34	4	15	44	1.68
10110660--10110744	17	5.0	17	74	5	73	31	4	14	49	1.63
10114296--10114339	20	2.3	18	84	7	52	6	6	43	43	1.57
10116150--10116179	15	2.0	15	93	0	51	16	0	36	46	1.47
10116268--10116510	126	1.9	126	91	1	398	36	16	19	26	1.93
10119689--10121231	116	13.3	116	99	0	2996	46	9	3	39	1.54
10121616--10121655	18	2.2	18	90	0	62	45	10	30	15	1.78
10121705--10121761	30	1.9	30	85	7	80	10	19	40	29	1.85
10122266--10122292	7	3.9	7	100	0	54	59	14	0	25	1.36
10122258--10122291	14	2.4	14	90	0	50	64	8	0	26	1.22
10123394--10123424	15	2.1	15	100	0	62	74	0	6	19	1.03
10123440--10123483	22	2.0	22	82	8	54	43	2	25	29	1.67
10128451--10128503	26	1.9	27	81	11	63	50	0	7	41	1.30
10128643--10128673	6	5.2	6	100	0	62	48	0	0	51	1.00
10130590--10130619	14	2.1	14	100	0	60	0	13	0	86	0.57
10143736--10143795	22	2.8	20	82	10	66	43	6	8	41	1.61
10143976--10144057	22	4.0	22	63	18	59	32	10	15	40	1.83
10149478--10149525	17	2.8	17	81	9	53	54	12	0	33	1.38
10152170--10152211	16	2.7	16	81	3	50	50	4	0	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10158323--10158352	7	4.3	7	95	0	51	3	10	0	86	0.67
10162698--10162915	121	1.8	121	96	2	411	33	14	13	38	1.85
10165225--10165276	18	2.8	18	82	8	52	28	23	0	48	1.51
10166402--10166510	16	6.7	17	67	20	56	36	19	0	43	1.57
10171953--10171993	11	3.7	11	80	0	55	19	14	9	56	1.66
10172033--10172094	30	2.1	30	87	6	90	29	1	8	61	1.34
10172214--10172247	12	2.8	12	90	0	50	67	0	0	32	0.91
10175388--10175449	32	1.9	32	96	0	115	61	6	14	17	1.53
10179595--10179705	7	15.9	7	74	7	73	20	4	27	46	1.70
10179837--10179898	7	8.9	7	72	0	52	22	1	33	41	1.64
10179832--10179875	21	2.1	21	87	4	63	29	0	29	40	1.57
10181096--10181129	16	2.2	15	89	5	50	11	14	20	52	1.73
10182752--10182804	24	2.2	24	93	0	88	41	3	5	49	1.44
10183753--10183837	40	2.1	40	100	0	170	51	0	9	38	1.34
10183848--10183886	19	2.0	20	85	9	55	58	7	0	33	1.26
10184000--10184076	9	8.6	9	88	0	100	42	27	0	29	1.56
10189160--10189188	14	2.1	14	93	6	51	34	0	10	55	1.34
10192552--10192593	10	4.3	10	78	3	50	30	4	0	64	1.14
10194969--10195025	23	2.6	22	78	13	64	54	0	1	43	1.10
10205651--10205697	16	2.9	16	78	12	51	53	2	4	40	1.32
10210396--10210431	19	1.9	19	94	5	65	63	0	0	36	0.94
10211892--10211957	26	2.5	26	80	7	71	50	3	18	28	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10211960--10212043	26	3.2	26	77	5	96	57	0	9	33	1.31
10216359--10216622	46	5.7	46	95	0	449	39	14	23	22	1.91
10218605--10218654	10	5.0	10	76	9	57	20	4	2	74	1.08
10224822--10224876	18	3.0	20	85	12	66	23	3	0	72	1.00
10224832--10224884	8	6.6	8	79	16	56	24	3	0	71	1.02
10224822--10224886	25	2.6	25	95	4	114	23	4	0	72	1.03
10224843--10224885	12	3.5	12	76	17	52	23	4	0	72	1.04
10224822--10224884	33	1.9	33	84	12	85	23	4	0	71	1.05
10226001--10226250	96	2.6	96	96	0	446	24	17	29	29	1.97
10228742--10228783	21	2.0	21	81	9	50	47	16	11	23	1.80

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