genome.fa.s10.2.7.7.80.10.50.1000.144.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  144  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)
47293678--47293717	11	3.4	12	86	13	57	47	0	0	52	1.00
47296403--47296459	20	2.8	20	89	0	78	22	29	0	47	1.52
47301259--47301429	93	1.8	93	96	0	315	28	28	21	21	1.99
47301251--47301426	46	3.8	46	79	12	216	28	28	21	21	1.98
47301852--47301911	30	2.0	30	90	0	93	30	25	8	36	1.85
47308010--47308180	93	1.8	93	94	0	306	28	28	21	21	1.99
47308005--47308177	46	3.7	46	79	10	208	28	27	21	21	1.99
47309157--47309252	42	2.3	42	81	3	113	16	20	19	42	1.89
47309184--47309269	42	2.0	43	84	2	111	13	24	20	40	1.89
47312946--47313031	44	2.0	44	86	4	120	20	18	24	36	1.95
47319899--47319929	16	1.9	16	100	0	62	32	12	19	35	1.90
47323192--47323224	15	2.2	15	89	10	50	81	6	12	0	0.85
47323268--47323298	15	2.1	15	93	0	53	77	3	0	19	0.90
47324051--47324148	35	2.8	35	78	9	110	39	32	12	15	1.84
47325211--47325244	18	1.9	17	88	5	50	41	8	0	50	1.34
47331975--47332020	24	1.9	24	90	0	74	67	0	2	30	1.03
47332019--47332053	18	1.9	18	88	0	52	62	0	2	34	1.10
47331973--47332058	25	3.4	26	75	13	74	63	0	2	33	1.07
47333358--47337326	2	1953.0	2	71	15	2645	44	6	5	43	1.51
47339986--47340013	13	2.2	13	100	0	56	28	7	14	50	1.69
47342918--47342961	20	2.1	22	83	8	56	72	6	6	13	1.25
47345318--47345356	18	2.2	18	85	0	51	61	2	23	12	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47348417--47348455	11	3.7	11	80	13	55	66	5	7	20	1.36
47355113--47355184	33	2.2	32	92	4	126	40	6	12	40	1.70
47360381--47360501	64	1.9	64	96	0	224	28	14	28	28	1.96
47363604--47363641	12	3.3	12	89	7	53	21	5	5	68	1.29
47363607--47363649	10	4.1	10	80	11	50	16	4	9	69	1.31
47371638--47371675	20	1.9	20	94	0	67	42	5	0	52	1.24
47374653--47374746	18	5.4	18	92	3	131	36	25	9	28	1.87
47374653--47374733	9	9.0	9	70	0	54	34	27	9	28	1.89
47375128--47375158	14	2.2	14	94	0	53	6	19	0	74	1.03
47375433--47375462	15	2.0	15	93	0	51	43	26	3	26	1.70
47377646--47377686	21	2.0	21	85	0	55	36	12	9	41	1.76
47377694--47377733	21	1.9	21	89	0	62	30	12	0	57	1.36
47378039--47378073	16	2.1	17	89	5	54	14	14	0	71	1.15
47393690--47393795	51	2.1	52	94	1	187	31	19	23	25	1.98
47395234--47395258	11	2.3	11	100	0	50	28	0	8	64	1.22
47395500--47395534	16	2.1	17	89	5	54	71	0	14	14	1.15
47395883--47395923	21	2.0	21	85	0	55	41	9	12	36	1.76
47399545--47399602	29	2.0	29	100	0	116	37	17	13	31	1.89
47401376--47401407	15	2.0	17	88	11	50	31	3	6	59	1.38
47401505--47401561	27	2.1	28	90	3	89	43	7	7	42	1.58
47407670--47407715	23	2.0	23	100	0	92	39	13	13	34	1.83
47410051--47410109	30	2.0	29	100	0	109	20	27	27	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47416146--47416188	17	2.4	18	80	7	61	53	0	4	41	1.21
47416286--47416319	11	3.0	11	86	4	50	76	0	23	0	0.79
47418161--47418216	22	2.5	22	85	0	76	25	37	25	12	1.91
47419547--47419626	42	1.9	42	82	5	99	23	37	22	16	1.93
47426014--47426080	19	3.3	20	77	10	66	77	2	13	5	1.07
47426085--47426128	15	2.8	15	86	13	54	65	0	27	6	1.17
47435077--47435182	48	2.2	47	85	9	135	59	1	24	14	1.45
47441411--47441467	20	2.9	19	82	7	78	29	17	28	24	1.97
47443395--47443438	21	2.1	21	83	8	54	25	9	2	63	1.35
47448962--47449097	40	3.5	38	75	6	128	40	19	22	17	1.91
47448969--47449117	78	1.9	79	84	2	201	39	18	23	18	1.92
47456586--47456774	50	3.6	51	84	5	211	26	20	28	24	1.99
47461326--47461408	41	2.0	41	90	0	130	28	30	18	22	1.97
47461393--47461486	25	3.8	25	78	0	107	29	23	21	25	1.99
47463567--47463591	13	1.9	13	100	0	50	0	8	4	88	0.64
47470465--47470646	28	6.5	28	92	1	276	33	26	12	28	1.92
47474139--47474164	5	5.2	5	100	0	52	19	0	0	80	0.71
47481254--47481314	20	3.0	20	80	0	77	19	26	21	32	1.97
47481247--47481355	40	2.7	39	78	4	110	19	23	18	38	1.93
47481694--47481732	20	1.9	20	89	5	60	33	10	10	46	1.72
47486564--47486622	21	2.8	21	78	0	64	30	28	27	13	1.94
47486829--47486911	30	2.8	30	87	1	114	20	38	26	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47489385--47489956	285	2.0	285	96	1	1065	36	14	15	34	1.88
47496931--47496968	19	2.0	19	94	0	67	39	5	13	42	1.66
47496993--47497087	41	2.3	41	90	3	147	30	3	14	51	1.58
47504505--47504556	25	2.1	25	85	0	68	38	15	9	36	1.80
47505809--47505833	11	2.3	11	100	0	50	64	0	28	8	1.22
47509359--47509411	6	8.8	6	91	0	79	35	0	18	45	1.50
47509644--47509705	32	1.9	32	93	0	106	51	9	3	35	1.51
47527667--47527885	39	5.6	39	96	0	384	24	31	23	20	1.98
47528711--47528812	51	2.0	51	98	0	195	37	24	7	30	1.84
47532326--47532754	50	8.9	50	72	10	248	24	27	17	29	1.97
47532426--47532737	45	6.6	45	72	9	192	25	28	17	29	1.97
47532374--47532738	95	3.9	95	84	1	446	24	28	17	29	1.97
47536744--47536988	81	3.0	81	99	0	481	27	4	31	36	1.77
47538769--47538804	15	2.4	15	90	0	54	58	0	11	30	1.33
47544525--47544678	77	2.0	75	97	2	290	38	9	18	34	1.82
47547868--47547921	17	3.1	17	75	24	58	33	1	0	64	1.04
47549673--47549698	11	2.4	11	100	0	52	11	7	7	73	1.26
47555513--47555542	14	2.1	14	93	0	51	30	13	10	46	1.75
47563878--47564117	89	2.6	91	79	7	211	33	16	20	29	1.95
47563894--47564411	228	2.3	226	84	6	674	30	18	21	29	1.97
47569025--47569077	22	2.5	21	84	6	70	73	1	13	11	1.18
47569129--47569161	10	3.3	10	95	0	57	78	0	12	9	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47570145--47570220	37	2.1	37	97	0	143	30	5	2	61	1.31
47570159--47570223	17	3.6	17	69	25	53	29	6	1	63	1.28
47573445--47573474	13	2.3	13	94	0	51	50	6	13	30	1.67
47575036--47575070	18	2.0	18	94	5	63	42	0	0	57	0.99
47575043--47575088	18	2.8	17	83	9	51	45	0	0	54	0.99
47575055--47575232	26	7.2	25	65	16	77	40	1	3	55	1.24
47575158--47575193	18	2.0	18	100	0	72	33	0	0	66	0.92
47575184--47575241	13	4.3	13	79	16	64	41	1	0	56	1.09
47575162--47575201	18	2.2	18	86	0	53	42	0	0	57	0.98
47574959--47575266	121	2.6	120	94	1	528	40	1	4	52	1.32
47575447--47575537	45	2.0	44	85	2	119	35	28	5	30	1.80
47575516--47575585	16	4.4	16	90	0	113	31	35	1	31	1.67
47576432--47576619	61	3.1	61	67	17	165	43	2	5	47	1.41
47576373--47576558	59	3.1	58	67	17	146	42	2	3	51	1.34
47576367--47576656	120	2.4	120	89	4	449	43	2	4	50	1.35
47576433--47576616	59	3.1	59	65	21	139	43	2	5	47	1.42
47576600--47576648	15	2.9	18	80	20	61	44	0	0	55	0.99
47576600--47576654	15	3.4	16	80	16	53	43	0	1	54	1.10
47576799--47576889	45	2.0	45	85	2	121	37	28	6	27	1.82
47576870--47576907	16	2.4	16	100	0	76	36	39	0	23	1.55
47596488--47596617	57	2.3	57	88	5	183	25	18	5	50	1.68
47596588--47596635	6	7.7	6	81	9	60	14	18	0	66	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47598898--47598959	30	2.1	30	93	0	106	51	12	19	16	1.76
47599313--47599402	43	2.1	43	85	0	117	35	22	13	28	1.92
47604758--47604833	10	8.0	10	70	27	51	23	2	1	72	1.05
47604760--47604837	15	5.4	15	73	22	69	23	2	1	73	1.03
47604772--47604837	5	12.8	5	75	12	62	22	3	1	72	1.06
47604761--47604840	27	2.8	29	83	12	103	22	3	1	72	1.08
47606811--47606870	10	6.0	10	86	7	77	23	6	1	68	1.22
47608236--47608287	15	3.2	15	73	19	50	44	0	1	53	1.11
47612220--47612270	22	2.3	23	89	3	77	52	3	25	17	1.61
47614781--47614823	14	3.0	15	86	10	63	0	30	0	69	0.88

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