genome.fa.s4.2.7.7.80.10.50.1000.145.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  145  of  235  ( 28198 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)
48662379--48662524	72	2.0	72	98	0	283	30	7	23	38	1.82
48665450--48665528	28	2.7	29	72	16	83	45	0	0	54	0.99
48665443--48665539	48	1.9	52	80	19	118	46	0	2	51	1.12
48678779--48679098	49	6.7	48	71	12	176	24	31	18	26	1.97
48678778--48679083	142	2.1	142	81	7	350	24	31	17	26	1.97
48681925--48681953	15	1.9	15	100	0	58	31	6	34	27	1.83
48682742--48682778	19	1.9	19	100	0	74	13	10	37	37	1.80
48685551--48685693	71	2.0	71	87	2	207	28	18	20	32	1.96
48687788--48687860	23	3.2	23	72	11	69	35	0	10	53	1.36
48698033--48698156	59	2.1	60	85	7	164	37	3	14	44	1.61
48703063--48703139	9	8.3	9	76	9	75	33	2	0	63	1.08
48703648--48703778	9	14.4	9	70	14	74	32	0	1	65	1.07
48703674--48703733	11	5.4	11	73	9	50	28	1	0	70	0.97
48703695--48703778	25	3.2	25	72	13	71	29	1	2	66	1.11
48704398--48704437	20	2.0	21	85	14	57	62	2	0	35	1.09
48704425--48704472	11	4.4	10	78	17	51	56	4	0	39	1.19
48704425--48704472	16	2.9	16	84	6	60	56	4	0	39	1.19
48704425--48704476	22	2.3	23	81	15	65	57	3	0	38	1.17
48704425--48704472	5	8.8	5	80	15	51	56	4	0	39	1.19
48704972--48705046	28	2.7	28	78	10	73	58	1	1	38	1.15
48713541--48713736	48	4.1	50	74	12	155	25	30	18	25	1.98
48715425--48715608	54	3.4	54	88	0	269	34	20	13	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48716972--48717140	84	2.0	84	98	0	329	27	27	15	29	1.96
48733581--48733609	14	2.0	15	93	6	51	55	20	0	24	1.44
48741046--48741096	16	3.2	16	82	0	57	39	5	29	25	1.79
48741527--48741715	94	2.0	94	95	0	342	31	15	7	45	1.75
48743296--48743331	17	2.1	17	100	0	72	50	11	11	27	1.72
48746038--48746160	40	3.1	39	87	4	174	16	28	19	35	1.93
48746038--48746139	20	5.1	20	67	13	66	16	29	19	34	1.94
48751677--48751701	13	1.9	13	100	0	50	40	0	0	60	0.97
48752337--48752368	14	2.3	14	94	0	55	65	0	0	34	0.93
48753206--48753253	15	2.8	17	74	20	55	41	0	2	56	1.11
48753400--48753438	18	2.1	19	85	4	53	43	0	5	51	1.24
48754011--48754069	31	1.9	31	92	0	100	33	1	10	54	1.44
48757283--48757315	13	2.3	15	90	10	52	57	12	0	30	1.35
48758767--48758951	79	2.3	82	84	7	238	25	27	22	24	2.00
48758748--48758951	40	5.1	40	82	8	238	25	27	22	25	2.00
48766738--48766922	79	2.3	81	82	7	218	25	27	22	24	2.00
48766738--48766922	40	4.7	40	78	7	198	25	27	22	24	2.00
48778207--48778341	40	3.5	40	86	7	188	22	23	27	25	2.00
48779148--48779180	16	2.1	16	100	0	66	27	12	18	42	1.85
48788888--48788917	16	1.9	16	93	6	53	30	0	20	50	1.49
48791464--48791510	20	2.3	20	85	0	58	48	0	14	36	1.44
48792597--48793004	205	2.0	205	99	0	807	26	13	23	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48793093--48793382	145	2.0	145	96	0	535	28	8	23	38	1.84
48799806--48799862	30	1.9	30	85	0	78	40	10	22	26	1.86
48800450--48800689	49	4.8	49	80	5	277	25	15	26	31	1.96
48800450--48800689	99	2.4	99	97	0	444	25	15	26	31	1.96
48826454--48826719	40	6.7	40	88	3	376	24	23	27	24	2.00
48831133--48831158	13	2.0	13	100	0	52	69	15	0	15	1.20
48843812--48843889	40	2.0	39	87	2	111	25	12	29	32	1.93
48843896--48843964	28	2.5	28	86	6	95	30	20	26	23	1.98
48848068--48848126	29	2.0	30	83	3	75	33	5	10	50	1.58
48848745--48848775	14	2.2	14	94	0	53	19	6	12	61	1.53
48849882--48849914	16	2.0	17	88	5	50	21	3	12	63	1.41
48853491--48853617	35	3.6	35	82	1	155	43	33	8	14	1.77
48862448--48862507	27	2.3	26	82	2	66	36	20	21	21	1.95
48862552--48862603	27	2.0	26	84	3	68	34	21	26	17	1.95
48871878--48871946	26	2.7	26	81	2	77	36	20	27	15	1.93
48873296--48873352	30	1.9	30	82	3	71	33	14	21	31	1.92
48877038--48877068	6	5.2	6	92	0	53	16	3	0	80	0.83
48884791--48884968	27	6.6	27	83	3	205	26	15	28	29	1.96
48884792--48884947	82	1.9	81	88	3	233	26	15	28	29	1.96
48884788--48884968	82	2.2	81	83	2	229	27	15	27	29	1.96
48886551--48886654	43	2.4	43	80	6	122	29	16	20	33	1.94
48886516--48886672	43	3.7	42	73	13	117	26	16	24	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48889168--48889193	5	5.2	5	100	0	52	19	0	0	80	0.71
48891117--48891142	5	5.2	5	100	0	52	19	0	0	80	0.71
48899868--48899896	15	1.9	15	100	0	58	34	13	37	13	1.85
48903206--48903237	16	1.9	17	93	6	57	56	3	9	31	1.47
48903912--48903963	25	2.1	24	82	10	61	46	0	9	44	1.36
48904024--48904081	30	2.0	30	82	3	73	43	12	10	34	1.76
48906386--48906473	29	3.0	29	93	1	149	37	10	23	28	1.88
48910345--48910598	27	9.4	27	85	1	321	25	20	18	35	1.95
48910345--48910598	81	3.1	81	87	1	366	25	20	18	35	1.95
48916067--48916100	16	2.1	16	94	0	59	41	17	2	38	1.65
48917125--48917202	40	1.9	41	84	2	104	26	28	19	25	1.99
48917222--48917303	43	1.9	43	94	0	146	21	28	21	28	1.99
48928143--48928292	55	2.8	54	80	4	149	26	15	29	28	1.96
48928115--48928292	27	6.6	27	77	6	146	25	15	28	30	1.96
48928116--48928271	82	1.9	81	81	6	190	25	16	28	30	1.96
48947824--48948008	40	4.7	40	81	5	178	27	28	20	24	1.99
48947791--48948008	40	5.5	39	77	7	165	25	27	20	25	1.99
48955692--48955956	40	6.7	40	85	5	286	26	27	21	24	1.99
48955659--48955956	80	3.7	80	79	9	263	25	27	21	25	1.99
48955888--48955965	40	1.9	41	82	10	97	26	28	20	24	1.99
48961943--48962051	54	2.0	55	90	1	175	38	6	16	38	1.74
48963787--48963811	13	1.9	13	100	0	50	24	20	48	8	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48966586--48966703	43	2.8	42	85	5	157	33	25	17	23	1.97
48976820--48976948	49	2.6	49	90	3	188	22	27	18	31	1.97
48976964--48977086	46	2.7	45	81	8	133	21	26	18	34	1.96
48986474--48986530	30	1.9	29	92	3	96	56	15	15	12	1.68
48986484--48986532	15	3.3	15	72	11	55	57	14	14	14	1.66
48993667--48993714	20	2.3	21	92	3	80	45	0	4	50	1.21
48995604--48995651	20	2.3	21	92	3	80	45	0	4	50	1.21
48998363--48998460	35	2.8	35	76	6	108	42	30	11	15	1.82
49018649--49018886	39	6.1	39	98	0	449	23	31	25	20	1.98
49021102--49021245	39	3.4	39	73	20	137	22	30	23	22	1.99
49021118--49021213	50	1.9	50	93	0	165	23	30	26	19	1.98
49023815--49023864	11	4.5	11	72	18	50	0	28	4	68	1.08
49024543--49024567	9	2.8	9	100	0	50	0	44	0	56	0.99
49027131--49027278	51	2.9	51	90	2	235	28	27	14	30	1.95
49027302--49027396	28	3.5	28	79	13	110	27	21	15	35	1.94
49029657--49029721	16	3.8	18	71	17	57	27	4	3	64	1.28
49029638--49029696	16	3.7	16	72	17	59	28	0	3	67	1.06
49035035--49035089	28	1.9	29	85	3	76	14	20	43	21	1.87
49038978--49039018	18	2.3	18	91	0	64	39	24	24	12	1.89
49039127--49039189	33	1.9	33	93	0	108	25	12	31	30	1.93
49057227--49057380	41	3.8	41	82	3	168	22	16	29	32	1.95
49057227--49057380	81	1.9	82	83	5	204	22	16	29	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49064791--49064848	13	4.6	12	77	14	55	0	20	0	79	0.74
49077372--49077519	62	2.4	62	81	2	163	25	25	24	25	2.00
49078170--49078252	25	3.4	24	75	12	71	69	2	22	4	1.19
49081048--49081211	42	3.9	42	82	9	192	27	24	16	31	1.96
49081698--49081730	10	3.2	11	91	8	52	30	27	0	42	1.56
49083334--49083398	28	2.4	27	84	2	76	30	23	26	20	1.98
49085922--49085980	29	2.0	29	100	0	118	33	20	13	32	1.91
49086954--49087049	48	2.0	48	93	0	165	51	8	15	25	1.71
49090224--49090252	11	2.5	12	88	11	51	13	0	6	79	0.93
49102618--49102643	10	2.6	10	100	0	52	30	19	0	50	1.48

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235