genome.fa.s23.2.7.7.80.10.50.1000.54.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  54  of  167  ( 19959 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)
16660665--16660712	24	2.0	24	100	0	96	37	8	8	45	1.64
16660863--16661159	149	2.0	149	98	0	576	26	32	11	28	1.92
16663650--16663682	13	2.6	13	90	4	50	39	0	12	48	1.40
16674920--16674979	8	7.6	8	75	16	54	70	1	25	3	1.12
16674920--16674979	15	3.8	16	75	14	54	70	1	25	3	1.12
16679372--16679439	28	2.4	27	90	4	100	25	23	10	41	1.86
16681384--16681422	19	2.1	19	100	0	78	33	20	15	30	1.94
16685741--16685767	13	2.1	13	100	0	54	66	0	14	18	1.25
16693036--16693068	11	3.1	11	91	8	59	54	0	0	45	0.99
16704255--16704291	19	2.0	20	89	10	60	29	0	13	56	1.37
16711204--16711255	4	13.0	4	87	0	50	44	26	7	21	1.79
16712426--16712474	20	2.7	18	77	22	57	51	2	2	44	1.24
16721005--16721111	56	1.9	56	90	0	169	27	28	15	28	1.96
16723195--16723236	20	2.2	20	91	4	68	9	19	23	47	1.78
16724431--16724502	36	2.0	36	91	0	117	30	18	16	34	1.93
16725117--16725174	21	2.8	21	72	0	62	22	1	8	67	1.27
16726301--16726387	39	2.2	40	82	10	99	51	2	2	43	1.26
16737087--16737199	55	2.1	55	100	0	226	31	15	23	28	1.96
16737800--16737832	17	1.9	17	93	0	57	48	3	18	30	1.63
16738150--16738347	97	2.0	97	85	5	267	45	2	3	48	1.31
16743906--16744231	163	2.0	163	100	0	652	29	12	9	48	1.73
16748872--16748946	3	25.3	3	76	8	73	61	4	2	32	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16748958--16749045	29	3.0	29	77	9	90	61	6	14	17	1.54
16749748--16749786	10	3.9	10	83	12	53	79	0	7	12	0.93
16749748--16749786	20	1.9	21	89	5	62	79	0	7	12	0.93
16751139--16751193	17	3.4	17	72	18	55	70	0	3	25	1.03
16751207--16751334	10	13.2	9	73	14	87	60	3	0	35	1.18
16751199--16751258	29	2.1	28	81	3	66	60	8	0	31	1.27
16751207--16751334	19	6.6	19	72	16	68	60	3	0	35	1.18
16751248--16751300	12	4.0	12	73	21	52	67	1	0	30	1.01
16751289--16751356	29	2.4	27	80	9	75	57	1	1	39	1.17
16752817--16752855	21	1.9	21	89	5	62	53	0	10	35	1.35
16770620--16770654	18	1.9	18	94	0	61	25	40	28	5	1.78
16777606--16777640	18	1.9	18	88	0	52	74	8	0	17	1.06
16777999--16778040	14	3.1	14	76	13	52	61	4	0	33	1.17
16777993--16778047	26	2.1	27	86	3	76	61	3	1	32	1.24
16778751--16778794	19	2.4	18	85	7	54	40	9	0	50	1.34
16780728--16780977	51	4.9	51	91	0	392	29	25	12	32	1.93
16781003--16781092	28	3.4	28	82	13	109	28	24	12	34	1.91
16782396--16782437	14	3.1	14	76	13	52	61	4	0	33	1.17
16782390--16782444	26	2.1	27	86	3	76	61	3	1	32	1.24
16782401--16782455	26	2.1	26	83	6	67	67	3	1	27	1.17
16782482--16782531	25	2.0	26	88	11	77	66	2	0	32	1.03
16784020--16784516	90	5.5	90	90	0	737	26	26	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16797116--16797178	30	2.1	30	93	0	108	42	14	3	39	1.61
16797806--16797842	18	2.1	18	100	0	74	24	27	37	10	1.88
16798526--16798649	3	42.0	3	75	10	96	29	5	2	62	1.30
16810011--16810087	18	4.3	18	86	5	111	37	11	14	36	1.82
16810017--16810084	35	1.9	36	90	3	111	36	13	13	36	1.83
16810592--16810647	17	3.5	15	75	22	51	33	1	0	64	1.04
16810623--16810672	26	1.9	26	83	0	64	36	4	0	60	1.16
16814056--16814388	172	1.9	172	99	0	657	31	19	25	23	1.98
16816410--16816479	6	11.8	6	76	14	65	80	0	20	0	0.72
16816398--16816473	16	5.1	15	79	13	77	81	0	18	0	0.69
16816398--16816479	26	3.2	25	79	17	105	81	0	18	0	0.69
16817392--16817571	44	4.1	44	75	8	195	30	16	25	27	1.96
16817682--16818024	83	4.1	83	92	0	562	32	18	20	27	1.96
16821109--16821138	3	10.0	3	100	0	60	0	33	0	66	0.92
16825321--16825380	28	2.1	28	100	0	120	40	6	13	40	1.71
16826406--16826470	32	2.0	32	100	0	130	41	24	9	24	1.84
16827744--16827961	118	1.8	118	85	3	305	39	6	5	48	1.53
16827973--16828009	17	2.2	17	90	9	58	37	5	0	56	1.22
16830325--16830475	43	3.5	43	81	9	191	30	22	15	31	1.95
16836427--16836459	17	1.9	17	93	0	57	39	0	18	42	1.50
16842981--16843092	56	2.0	56	100	0	224	39	8	1	50	1.44
16844025--16844088	19	3.4	19	80	8	69	34	0	4	60	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16844027--16844089	20	3.2	20	74	12	60	31	0	4	63	1.15
16847436--16847659	40	5.6	40	91	1	308	24	20	28	26	1.99
16847397--16847659	80	3.3	80	85	3	318	23	20	28	26	1.99
16847397--16847659	120	2.2	120	82	4	318	23	20	28	26	1.99
16854789--16854834	22	2.1	22	100	0	92	21	13	21	43	1.86
16856532--16856581	23	2.2	23	92	0	82	36	14	18	32	1.90
16857386--16857513	9	13.6	9	76	9	121	46	21	0	31	1.57
16857403--16857480	39	2.0	39	97	0	147	46	21	0	32	1.52
16857399--16857511	57	2.0	57	89	0	172	46	23	0	30	1.58
16879603--16879735	46	2.9	46	87	2	178	28	27	22	21	1.99
16879608--16879750	46	3.1	45	76	14	139	29	26	22	21	1.99
16882123--16882211	30	3.0	30	77	8	92	57	14	16	11	1.65
16882123--16882202	15	5.4	15	77	7	83	58	12	17	11	1.62
16882134--16882211	15	5.2	15	74	9	61	56	14	16	12	1.68
16885124--16885251	46	2.8	46	86	0	184	28	28	22	19	1.98
16895305--16895355	25	2.1	24	88	3	75	37	19	23	19	1.94
16902702--16902768	26	2.6	26	82	0	89	28	17	28	25	1.98
16911466--16911528	28	2.2	28	97	0	117	22	36	23	17	1.95
16924248--16924422	46	3.8	46	76	13	187	30	29	19	20	1.97
16924255--16924426	93	1.8	93	92	2	292	29	29	19	20	1.97
16924297--16924435	47	3.0	46	71	16	126	30	28	17	22	1.97
16926131--16926198	27	2.5	28	83	11	95	33	29	10	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16926129--16926226	28	3.5	28	84	2	117	32	29	12	25	1.92
16931400--16931493	27	3.4	28	89	2	127	26	11	28	32	1.92
16931424--16931507	27	3.0	27	87	5	96	29	11	25	33	1.91
16939632--16939839	40	5.2	40	83	7	253	25	21	27	25	1.99
16939632--16939818	79	2.3	81	83	8	247	24	21	27	26	2.00
16939636--16939853	79	2.7	78	79	12	237	25	21	27	25	1.99
16942599--16942637	20	2.0	20	89	0	60	51	0	12	35	1.40
16943541--16943640	47	2.1	47	81	3	112	32	20	22	26	1.98
16943855--16944634	389	2.0	389	98	0	1506	42	19	2	36	1.65
16945300--16945354	3	18.7	3	81	10	69	60	1	0	38	1.08
16945320--16945354	13	2.7	13	90	0	52	60	2	0	37	1.12
16945468--16945520	21	2.3	23	75	21	58	52	3	0	43	1.19
16949174--16949245	36	2.0	36	97	0	135	48	8	9	33	1.66
16949620--16949685	28	2.4	28	87	5	100	34	22	21	21	1.96
16957363--16957428	27	2.4	27	82	9	73	36	24	21	18	1.95
16961359--16961390	17	1.9	17	93	6	57	28	9	0	62	1.26
16970974--16971212	50	4.9	50	80	8	258	26	20	30	22	1.98
16970988--16971212	95	2.3	97	84	5	285	26	20	31	22	1.98
16982051--16982233	79	2.3	81	84	7	232	24	22	27	25	2.00
16982051--16982235	40	4.6	41	84	7	231	23	22	28	25	2.00
16986886--16986944	30	2.0	30	86	6	84	28	6	0	64	1.19
16992163--16992239	40	1.9	40	92	5	129	40	5	15	38	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16997127--16997245	43	2.8	43	84	2	150	26	16	24	31	1.96
16997127--16997269	43	3.3	43	81	3	101	28	17	22	31	1.96
17001059--17001255	55	3.7	53	76	4	153	37	20	22	19	1.94
17001057--17001262	53	3.8	54	77	4	218	37	19	23	19	1.94
17006982--17007029	25	1.9	25	86	0	69	33	25	16	25	1.96
17007068--17007124	9	5.9	9	73	15	51	35	8	21	35	1.84
17007066--17007128	20	3.2	20	95	0	117	36	12	19	31	1.89
17007182--17007325	24	6.0	24	90	8	222	29	20	22	27	1.99
17007519--17007582	31	2.1	31	93	0	110	37	15	23	23	1.93
17008378--17008409	17	2.0	17	88	11	50	15	0	21	62	1.32

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