genome.fa.s10.2.7.7.80.10.50.1000.39.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  39  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)
12312724--12312832	43	2.6	42	79	5	130	31	17	22	28	1.97
12317872--12317951	29	2.8	29	80	0	88	46	26	11	16	1.80
12320045--12320107	18	3.4	18	75	14	56	50	7	23	17	1.72
12325723--12325828	42	2.6	40	82	8	133	25	16	21	36	1.94
12342258--12342468	40	5.3	39	89	3	282	24	27	21	26	1.99
12344463--12344612	55	2.8	54	80	4	149	26	15	29	28	1.96
12344435--12344612	27	6.6	27	77	6	146	25	15	28	30	1.96
12344436--12344591	82	1.9	81	81	6	190	25	16	28	30	1.96
12347861--12347970	53	2.1	53	93	1	186	30	8	33	27	1.86
12368818--12368882	34	1.9	34	81	6	78	29	23	23	24	1.99
12390053--12390093	12	3.6	12	80	12	59	51	2	9	36	1.48
12390053--12390096	22	2.0	22	100	0	88	50	4	9	36	1.55
12400465--12400546	24	3.4	24	83	3	94	41	21	20	15	1.90
12400482--12400556	24	3.1	24	83	7	73	45	24	16	14	1.84
12400482--12400567	24	3.5	24	78	10	59	45	22	18	13	1.85
12404482--12405094	48	12.8	48	74	8	446	27	19	29	23	1.98
12404534--12405097	96	5.9	96	78	9	542	27	20	28	23	1.99
12404469--12405088	144	4.3	144	88	1	825	27	19	29	23	1.98
12408514--12408558	21	2.1	21	84	8	56	11	8	28	51	1.68
12408579--12408625	14	3.1	14	77	16	58	8	0	19	72	1.10
12408587--12408619	17	1.9	17	93	0	57	6	0	18	75	1.00
12409324--12409382	21	2.9	21	82	2	75	11	37	27	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12417338--12417471	50	2.7	50	83	1	171	33	26	13	26	1.93
12419039--12419106	35	1.9	35	96	0	127	50	22	5	22	1.70
12420515--12420629	57	2.0	57	98	0	221	27	23	6	42	1.77
12421893--12422042	50	3.0	50	87	0	221	29	28	16	26	1.97
12423599--12423666	35	1.9	35	100	0	136	47	23	5	23	1.73
12425210--12425332	28	4.4	28	90	2	176	33	26	12	27	1.92
12425209--12425332	55	2.2	57	86	2	180	33	27	12	27	1.92
12427895--12427924	15	1.9	16	93	6	53	36	13	0	50	1.42
12428873--12428991	60	2.0	60	98	0	229	40	16	17	25	1.90
12429003--12429135	50	2.7	50	88	2	189	28	26	16	28	1.97
12430856--12431177	48	6.7	48	75	5	283	26	20	29	23	1.99
12430856--12431178	96	3.4	96	80	2	317	26	20	29	23	1.99
12430843--12431177	145	2.3	144	80	4	370	26	20	28	24	1.99
12432201--12432239	21	1.9	21	89	5	62	20	28	38	12	1.89
12433398--12433640	46	5.2	45	80	8	227	22	29	18	28	1.98
12435151--12435210	21	2.9	21	84	0	75	15	30	28	26	1.96
12436150--12436289	70	2.0	70	98	0	271	36	7	7	49	1.58
12440027--12440093	30	2.3	29	78	19	77	49	1	0	49	1.10
12440497--12440523	6	4.5	6	100	0	54	85	0	14	0	0.61
12443652--12443692	21	2.0	21	90	0	64	21	29	19	29	1.98
12448019--12448072	21	2.6	21	85	2	74	57	1	0	40	1.09
12448019--12448080	21	3.0	21	83	4	72	59	1	0	38	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12448042--12448113	31	2.4	30	79	9	74	58	1	1	38	1.15
12448568--12448611	18	2.7	16	86	10	54	43	0	2	54	1.12
12450197--12450248	27	1.9	27	88	0	77	36	26	17	19	1.94
12451047--12451089	20	2.0	20	86	8	59	46	4	20	27	1.71
12454128--12454160	11	2.8	12	86	4	50	33	3	12	51	1.54
12454779--12454850	12	6.0	12	72	22	53	43	2	1	52	1.24
12454938--12454988	25	2.0	26	84	3	68	41	5	9	43	1.62
12463623--12463667	15	3.0	15	87	12	74	44	26	6	22	1.77
12475435--12475469	18	1.9	18	94	0	61	54	0	2	42	1.15
12478941--12479103	46	3.5	46	74	11	161	30	27	19	22	1.98
12481150--12481211	31	2.0	31	100	0	124	38	22	19	19	1.93
12483910--12483968	29	2.0	29	100	0	118	23	13	16	45	1.83
12485578--12485615	13	3.0	13	96	3	69	44	0	7	47	1.32
12490952--12490997	24	2.0	23	91	4	74	43	2	0	54	1.12
12490966--12491005	18	2.2	18	86	8	55	47	0	0	52	1.00
12490952--12491022	31	2.3	31	77	18	76	42	1	0	56	1.08
12490981--12491149	52	3.2	52	74	20	165	37	1	2	57	1.22
12491858--12491895	12	3.2	12	77	7	51	36	2	0	60	1.11
12491971--12492205	125	1.9	121	84	7	312	34	17	18	29	1.94
12492492--12492544	22	2.5	20	74	17	52	54	0	0	45	0.99
12495723--12495774	26	2.0	27	92	3	88	48	3	7	40	1.50
12497039--12497072	17	1.9	18	94	5	61	47	5	0	47	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12502664--12502929	47	5.7	48	79	9	243	22	30	19	27	1.98
12502663--12502932	94	2.9	95	77	14	278	22	30	19	27	1.98
12504776--12504809	17	2.0	17	100	0	68	35	41	5	17	1.74
12506862--12507087	80	2.8	79	84	4	285	23	26	21	28	1.99
12506862--12507048	40	4.7	40	90	2	270	23	25	20	29	1.99
12508327--12508371	23	1.9	24	86	4	65	6	17	2	73	1.15
12514241--12514361	60	2.0	61	98	1	235	23	18	17	41	1.90
12514468--12514492	9	2.8	9	100	0	50	20	0	0	80	0.72
12516961--12517025	32	2.0	32	93	0	112	23	20	16	40	1.92
12518109--12518147	20	1.9	21	89	5	62	10	23	43	23	1.84
12519007--12519188	92	2.0	93	86	1	258	25	24	19	29	1.99
12519580--12519624	18	2.5	18	88	0	63	22	13	28	35	1.92
12522667--12522726	31	1.9	31	83	6	77	40	11	8	40	1.72
12525317--12525541	48	4.7	48	76	9	176	36	24	18	20	1.95
12528132--12528169	20	1.9	20	88	0	58	26	7	21	44	1.79
12531215--12531481	131	2.0	132	90	0	419	33	16	22	26	1.96
12533458--12533522	25	2.9	23	80	15	66	67	9	0	23	1.19
12533486--12533527	19	2.2	19	91	8	68	80	9	0	9	0.89
12537633--12537810	27	6.6	26	82	6	178	26	15	28	29	1.96
12537634--12537789	82	1.9	81	86	3	224	26	16	28	28	1.97
12537630--12537810	82	2.2	81	82	2	220	27	16	27	29	1.97
12537715--12537821	27	3.9	27	85	1	70	26	14	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12545757--12545935	27	6.6	26	80	8	171	27	16	27	28	1.97
12545757--12545935	54	3.3	54	80	9	193	27	16	27	28	1.97
12545754--12545936	83	2.2	82	81	4	226	27	16	27	28	1.97
12545839--12545946	27	3.9	27	82	2	72	26	15	27	29	1.96
12550057--12550140	41	2.1	40	80	10	91	42	1	14	41	1.53
12576182--12576208	6	4.5	6	100	0	54	62	0	0	37	0.95
12577032--12577085	26	2.1	26	82	6	65	24	3	0	72	1.01
12581099--12581162	29	2.2	29	88	0	92	32	25	1	40	1.65
12584613--12584645	17	2.0	17	88	5	50	39	3	9	48	1.50
12589784--12589828	23	2.0	23	86	0	63	40	11	8	40	1.72
12603941--12603970	12	2.5	12	94	0	51	50	36	0	13	1.42
12604088--12604140	24	2.1	26	86	6	74	52	11	22	13	1.71
12604428--12604589	3	52.0	3	67	21	59	25	8	4	62	1.41
12604459--12604541	30	2.8	30	79	17	84	24	10	2	62	1.39
12604832--12605093	125	2.1	127	82	6	309	35	14	14	35	1.87
12612893--12612926	16	2.1	16	100	0	68	17	20	11	50	1.77
12613280--12613393	60	1.9	60	98	0	219	40	14	21	23	1.90
12630686--12630800	44	2.6	44	85	2	149	35	13	22	27	1.92
12630686--12630819	46	3.0	45	82	4	153	35	14	23	26	1.93
12632680--12632766	39	2.2	39	93	0	147	27	26	22	22	2.00
12636306--12636399	43	2.2	42	84	7	118	34	26	13	25	1.94
12641575--12641621	21	2.2	21	96	0	85	53	12	12	21	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12643156--12643185	6	5.0	6	91	0	51	0	63	0	36	0.95
12643156--12643190	12	3.0	12	91	4	54	0	60	0	40	0.97
12652735--12652780	17	2.6	17	86	10	58	69	6	2	21	1.22
12652753--12652792	18	2.2	18	86	4	53	70	7	0	22	1.12
12653723--12653752	15	2.0	15	93	0	51	16	6	10	66	1.41
12654883--12654935	26	2.0	26	85	7	72	45	3	9	41	1.54
12663165--12663207	21	2.0	21	86	0	59	16	13	25	44	1.85
12665858--12666040	83	2.2	84	89	1	269	46	11	9	32	1.73
12666157--12666281	63	2.0	62	92	3	207	38	8	12	40	1.75
12666237--12666396	89	1.8	86	81	6	196	41	11	13	33	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