genome.fa.s10.2.7.7.80.10.50.1000.20.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  20  of  172  ( 20562 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)
6388702--6388736	18	2.0	18	88	5	54	68	0	0	31	0.90
6389019--6389090	19	3.9	19	85	10	114	37	15	9	37	1.80
6389022--6389098	19	4.3	19	82	12	83	38	12	11	36	1.80
6389870--6390022	82	1.9	82	94	2	272	32	17	15	34	1.91
6392851--6392876	3	8.7	3	100	0	52	0	30	0	69	0.89
6395015--6395346	130	2.6	128	85	7	415	33	16	19	30	1.94
6395015--6395421	130	3.2	130	81	6	395	32	17	20	29	1.95
6398446--6398516	33	2.2	32	85	11	94	40	1	1	56	1.17
6406644--6406677	9	3.8	9	92	0	59	58	2	0	38	1.13
6407128--6407182	20	2.8	19	81	13	67	40	3	5	50	1.43
6407104--6407238	68	2.0	69	88	1	200	40	3	5	50	1.42
6407370--6407421	26	2.0	26	96	0	95	42	9	3	44	1.55
6409958--6410010	27	2.0	27	82	10	65	47	1	3	47	1.31
6410873--6410942	32	2.2	32	86	0	104	18	5	25	50	1.69
6427673--6427774	50	2.0	50	100	0	204	28	9	13	48	1.75
6428624--6428691	24	2.8	25	86	6	95	36	5	38	19	1.76
6430133--6430220	27	3.1	27	79	10	97	17	19	25	38	1.92
6433076--6433117	18	2.3	18	100	0	84	28	9	26	35	1.88
6436870--6436943	24	3.1	24	88	0	103	33	5	39	21	1.76
6438377--6438490	27	4.1	27	77	11	106	17	21	22	38	1.93
6439498--6439586	45	2.0	45	93	4	153	30	2	24	42	1.67
6442719--6442760	19	2.3	19	95	4	77	21	19	7	52	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6443199--6443309	38	2.9	38	86	2	152	33	9	18	38	1.83
6444670--6444794	38	3.3	38	82	2	153	36	12	12	38	1.81
6444917--6445087	89	1.9	89	80	2	200	22	16	22	38	1.93
6444991--6445087	45	2.2	45	88	1	142	21	20	25	31	1.98
6446987--6447012	11	2.4	11	100	0	52	53	0	0	46	1.00
6450593--6450618	7	3.7	7	100	0	52	15	0	0	84	0.62
6456690--6456714	7	3.6	7	100	0	50	16	56	0	28	1.41
6464393--6464446	27	2.0	27	92	0	90	35	5	35	24	1.79
6465194--6465425	117	2.0	117	96	0	428	40	9	21	28	1.84
6466646--6466687	19	2.2	19	95	0	75	11	23	4	59	1.51
6467448--6467487	20	2.0	22	85	14	59	32	5	15	47	1.66
6468400--6468493	24	3.8	25	71	9	68	36	23	23	17	1.95
6477337--6477382	17	2.8	16	84	15	67	56	4	2	36	1.31
6478589--6478630	21	2.0	21	100	0	84	19	23	9	47	1.78
6478609--6478705	47	2.1	47	100	0	194	22	14	16	46	1.83
6481545--6481579	18	1.9	18	88	0	52	14	31	34	20	1.92
6481602--6481640	19	2.1	19	95	0	69	28	43	17	10	1.82
6483652--6483708	16	3.6	16	95	0	87	29	0	36	33	1.58
6483954--6483988	18	2.0	17	88	5	52	54	0	0	45	0.99
6486356--6486381	12	2.2	12	100	0	52	34	23	26	15	1.94
6492082--6492114	16	2.0	17	88	5	50	45	3	12	39	1.57
6493363--6493465	35	2.9	35	77	5	109	19	17	32	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6496131--6496990	18	48.9	18	71	24	373	37	11	14	37	1.82
6496138--6496990	35	24.3	35	99	0	1670	37	11	14	37	1.82
6499239--6499289	25	2.0	25	100	0	102	27	23	13	35	1.93
6502206--6502270	1	65.0	1	75	0	58	87	0	12	0	0.54
6502206--6502264	21	2.7	23	87	12	90	88	0	11	0	0.53
6502210--6502270	29	2.2	27	88	5	86	86	0	13	0	0.56
6503261--6503415	79	1.9	81	90	3	251	29	24	23	23	1.99
6503494--6504901	206	6.8	206	97	0	2568	30	17	22	28	1.97
6505297--6505387	19	4.9	19	88	8	143	37	10	14	37	1.81
6505318--6505373	18	3.5	15	81	18	60	37	10	16	35	1.83
6505305--6505394	35	2.5	37	87	10	134	37	11	14	36	1.82
6519843--6519944	29	3.4	30	70	16	77	24	17	20	37	1.94
6519829--6519947	60	2.0	59	86	4	168	23	18	21	36	1.95
6519867--6519958	29	3.1	28	75	9	85	25	14	20	40	1.90
6520370--6520404	6	5.8	6	100	0	70	34	0	14	51	1.42
6525273--6525306	9	3.8	9	92	0	50	47	14	11	26	1.79
6525270--6525306	18	2.1	18	94	0	65	48	13	10	27	1.75
6526726--6526891	57	3.1	51	81	12	208	28	21	6	42	1.78
6532889--6532925	17	2.3	15	86	13	56	45	0	2	51	1.15
6538325--6538507	73	2.5	72	77	4	186	36	23	23	16	1.94
6538378--6538527	26	6.0	25	72	9	112	36	23	24	16	1.94
6542956--6542987	5	6.2	5	92	7	55	18	0	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6544393--6544446	22	2.4	23	78	6	65	24	22	18	35	1.96
6544381--6544485	23	4.6	23	74	15	92	26	20	20	33	1.97
6545843--6545867	11	2.3	11	100	0	50	84	0	0	16	0.63
6547527--6547607	41	2.0	41	100	0	162	28	14	17	39	1.89
6551308--6551605	117	2.5	117	99	0	587	35	11	16	36	1.84
6552728--6552766	12	3.3	12	85	3	53	33	0	0	66	0.92
6552886--6552947	30	2.1	30	87	3	90	61	9	3	25	1.42
6552977--6553019	22	2.0	22	85	0	59	60	9	11	18	1.57
6552984--6553024	11	3.7	11	80	0	55	56	9	14	19	1.66
6552985--6553034	22	2.3	22	86	6	66	60	6	16	18	1.55
6564091--6564446	88	4.0	88	98	0	676	30	20	14	33	1.93
6571120--6571173	25	2.2	25	100	0	108	33	14	24	27	1.94
6580535--6580589	30	1.9	29	82	10	69	56	7	10	25	1.59
6580702--6580745	12	3.5	12	85	14	54	59	2	0	38	1.10
6584112--6584161	24	2.1	24	85	7	66	26	12	22	40	1.88
6588830--6588964	40	3.4	39	83	3	162	11	14	30	43	1.80
6590729--6590792	33	1.9	33	83	0	83	20	20	12	46	1.82
6591468--6591507	20	2.0	20	85	9	55	55	25	17	2	1.55
6597096--6597159	32	2.0	32	87	0	92	31	7	25	35	1.84
6602372--6602413	22	1.9	22	100	0	84	21	9	26	42	1.83
6604876--6604959	30	2.8	29	73	8	89	41	4	0	53	1.22
6604969--6605032	24	2.9	23	70	29	59	39	1	0	59	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6604973--6605004	14	2.1	16	88	11	50	37	0	0	62	0.95
6613572--6613625	20	2.6	21	82	8	67	38	1	3	55	1.28
6620007--6620088	43	1.9	43	85	5	112	20	20	20	37	1.94
6621628--6621674	19	2.5	20	83	10	55	51	8	19	21	1.73
6625188--6625232	21	2.1	21	84	8	56	26	8	4	60	1.46
6625218--6625245	10	2.8	10	100	0	56	46	0	0	53	1.00
6625219--6625388	9	18.6	9	71	11	80	35	2	1	59	1.23
6625159--6625289	58	2.3	59	81	9	155	32	6	2	58	1.35
6625219--6625341	56	2.2	53	81	8	131	37	3	0	58	1.20
6625219--6625352	28	4.9	26	76	12	92	38	2	0	57	1.19
6626344--6626371	14	2.0	14	100	0	56	28	21	14	35	1.92
6630478--6630519	16	2.5	18	81	14	54	64	0	33	2	1.07
6636301--6636371	34	2.1	34	94	0	124	33	11	4	50	1.57
6636717--6636781	25	2.7	23	73	19	62	40	4	1	53	1.31
6637884--6637942	24	2.5	23	78	10	66	62	0	1	35	1.05
6640688--6640898	115	1.8	115	90	0	341	42	13	12	31	1.82
6647296--6647410	27	4.3	26	87	5	149	36	23	23	16	1.94
6647296--6647410	54	2.1	54	88	3	169	36	23	23	16	1.94
6649029--6649137	26	4.2	26	97	0	182	36	24	5	33	1.79
6652128--6652157	16	1.9	15	93	6	51	26	3	10	60	1.45
6653396--6653504	26	4.2	26	92	2	184	36	22	6	34	1.80
6653396--6653504	51	2.1	52	93	1	184	36	22	6	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6661444--6661501	28	2.1	28	90	0	89	32	25	13	27	1.94
6662875--6662912	15	2.5	16	83	12	53	50	13	0	36	1.42
6672896--6672937	21	2.0	20	82	13	50	42	4	7	45	1.52
6673066--6673091	3	8.7	3	100	0	52	69	0	0	30	0.89
6673343--6673396	19	2.8	20	88	5	76	59	0	1	38	1.08
6673343--6673403	19	3.1	21	79	11	67	59	0	3	37	1.14
6673634--6673672	10	3.9	10	82	0	51	23	7	0	69	1.14
6673634--6673693	20	3.0	20	85	4	68	28	5	0	66	1.12
6673657--6673703	10	4.7	10	94	5	78	36	2	0	61	1.08
6673699--6673865	90	1.9	88	81	8	203	38	7	16	36	1.78

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