genome.fa.s4.2.7.7.80.10.50.1000.141.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  141  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)
47404027--47404455	48	8.9	48	94	1	653	28	28	8	34	1.86
47409742--47409784	13	3.5	13	78	18	56	48	11	0	39	1.40
47409742--47409793	23	2.3	23	96	0	95	48	11	0	40	1.40
47409742--47409806	23	2.8	23	86	4	60	50	10	0	38	1.37
47410483--47410525	22	2.0	22	85	0	59	53	2	6	37	1.41
47410775--47410834	30	2.0	30	90	0	93	36	8	18	36	1.81
47416210--47416345	56	2.4	56	97	0	254	36	25	13	25	1.92
47417665--47417718	15	3.7	15	69	16	51	59	14	1	24	1.46
47418726--47418769	21	2.1	21	95	0	79	47	2	20	29	1.62
47421031--47421515	241	2.0	241	98	0	934	34	14	20	30	1.93
47427592--47427622	15	2.1	15	93	0	53	54	16	16	12	1.71
47427828--47427900	36	2.0	36	86	5	103	24	20	16	38	1.93
47429009--47429304	74	4.0	74	99	0	583	25	14	24	35	1.94
47431534--47431597	28	2.3	27	76	5	74	18	21	26	32	1.97
47431558--47431620	33	1.9	33	86	0	90	26	22	25	25	2.00
47432780--47432805	12	2.2	12	100	0	52	42	7	7	42	1.62
47432860--47432986	68	1.9	67	85	9	177	49	3	3	42	1.39
47435162--47435259	48	2.0	48	100	0	196	30	12	6	51	1.64
47437783--47437968	40	4.6	40	79	6	187	33	24	13	27	1.94
47437781--47437939	81	1.9	82	85	7	216	32	25	15	27	1.95
47439149--47439215	35	1.9	35	93	0	116	25	10	22	41	1.85
47443339--47443436	49	2.0	49	93	0	169	27	33	10	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47444434--47444459	12	2.2	12	100	0	52	7	23	42	26	1.81
47444563--47444635	32	2.3	32	92	0	128	27	34	23	15	1.94
47444563--47444653	32	2.8	32	81	6	96	26	34	24	15	1.95
47445507--47445650	40	3.6	40	81	2	173	31	25	16	26	1.97
47446844--47447071	90	2.5	90	87	3	307	30	10	11	46	1.75
47455000--47455151	27	5.6	27	92	3	232	30	28	13	26	1.94
47455000--47455151	55	2.8	55	93	0	250	30	28	13	26	1.94
47458883--47458923	21	2.0	21	95	0	73	26	19	29	24	1.98
47464051--47464098	18	2.7	18	96	0	87	43	6	16	33	1.73
47464054--47464133	36	2.2	36	82	12	94	43	5	15	36	1.68
47464054--47464133	18	4.4	18	79	16	85	43	5	15	36	1.68
47466996--47467065	20	3.6	19	84	9	79	57	7	0	35	1.26
47466996--47467080	19	4.2	19	79	14	82	55	5	0	38	1.24
47467045--47467093	25	2.0	25	88	4	73	55	2	0	42	1.11
47477885--47478020	55	2.5	55	80	7	141	27	30	25	16	1.97
47484574--47484599	13	2.0	13	100	0	52	15	0	0	84	0.62
47487197--47487288	45	2.0	45	91	4	150	35	9	20	33	1.86
47488913--47488981	31	2.3	31	84	2	86	30	23	14	31	1.94
47489287--47489323	10	3.7	10	92	7	58	32	18	10	37	1.86
47489267--47489317	21	2.4	21	86	0	66	29	19	13	37	1.90
47504131--47504260	40	3.3	39	85	3	170	23	21	28	26	1.99
47504131--47504295	79	2.1	79	80	2	179	25	21	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47507503--47507838	47	7.1	47	90	2	465	32	11	29	26	1.91
47507812--47507993	46	4.0	46	90	0	265	35	8	30	25	1.85
47514203--47514281	37	2.1	37	88	4	115	25	30	18	25	1.98
47514400--47514943	47	11.4	47	94	1	890	29	29	9	32	1.88
47514400--47514939	143	3.8	143	92	2	895	29	29	9	32	1.88
47550906--47550976	28	2.5	28	88	0	97	29	11	28	30	1.91
47550923--47550984	28	2.2	28	85	0	88	37	8	24	30	1.84
47556229--47556365	69	2.0	69	98	0	265	26	16	9	48	1.76
47558900--47558962	23	2.7	23	97	0	117	44	33	4	17	1.70
47558914--47559017	28	3.9	26	83	10	124	46	32	2	18	1.64
47558880--47558993	23	4.7	23	78	12	95	47	32	3	16	1.64
47570269--47570365	40	2.4	40	87	0	131	21	15	28	34	1.94
47570346--47570416	28	2.5	28	86	0	106	22	12	32	32	1.92
47573123--47573482	27	13.3	27	78	7	214	36	20	9	33	1.85
47573123--47573257	55	2.5	55	85	7	193	39	20	8	31	1.82
47573369--47573549	54	3.3	55	80	7	165	42	20	7	29	1.80
47573448--47573555	27	3.9	27	72	13	85	43	18	7	30	1.77
47573596--47573669	27	2.7	27	76	12	71	37	20	20	21	1.94
47573609--47573673	27	2.4	27	82	5	78	35	18	24	21	1.96
47574297--47574344	25	1.9	25	95	0	87	27	18	20	33	1.96
47574380--47574446	20	3.3	20	89	4	100	37	11	19	31	1.88
47574391--47574446	11	5.5	11	75	16	66	37	12	19	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47574496--47574618	52	2.4	51	93	2	212	26	23	22	27	2.00
47574496--47574618	26	4.8	26	89	1	178	26	23	22	27	2.00
47574763--47574854	42	2.2	42	96	0	166	27	11	21	39	1.89
47574878--47574956	31	2.5	31	95	0	149	29	18	25	26	1.98
47581359--47581465	40	2.7	40	85	1	135	20	15	28	35	1.94
47581446--47581522	28	2.8	28	85	0	118	23	12	32	31	1.92
47584856--47584949	47	2.0	47	87	4	136	36	14	23	25	1.93
47586481--47586537	24	2.3	25	85	8	73	17	17	19	45	1.86
47594731--47594780	23	2.2	23	86	13	68	42	20	14	24	1.88
47594816--47594920	27	3.9	27	74	9	88	23	18	17	40	1.90
47594832--47594943	27	4.1	27	77	2	82	24	15	19	41	1.90
47602854--47602908	27	2.0	27	96	0	101	23	23	16	36	1.94
47608793--47608854	31	2.0	32	87	3	90	37	19	22	20	1.95
47616212--47616353	67	2.1	67	88	5	203	31	23	26	18	1.97
47626135--47626211	40	1.9	40	89	5	120	25	25	18	29	1.98
47628539--47628691	42	3.7	42	74	1	137	26	24	16	31	1.97
47637219--47637334	58	2.0	58	96	0	214	42	19	6	31	1.76
47654014--47654042	14	2.1	14	100	0	58	48	0	13	37	1.43
47656514--47656563	26	1.9	26	91	0	82	18	28	24	30	1.97
47659182--47659365	40	4.6	40	81	5	219	25	25	22	27	2.00
47668088--47668216	40	3.2	40	91	0	195	25	21	27	24	1.99
47668101--47668253	80	1.9	79	80	6	175	27	20	27	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47674085--47674284	100	2.0	100	98	0	382	30	21	22	26	1.99
47674462--47674568	53	2.0	53	94	0	187	23	21	34	20	1.97
47676103--47676274	79	2.2	79	84	3	220	25	21	27	25	1.99
47676050--47676272	40	5.6	39	81	8	209	25	21	27	25	1.99
47676130--47676307	79	2.2	80	80	3	191	25	21	28	24	1.99
47677318--47677431	57	2.0	57	92	0	192	30	15	31	21	1.95
47684079--47684250	79	2.2	79	84	3	220	25	21	27	25	1.99
47684026--47684248	40	5.6	39	81	8	209	25	21	27	25	1.99
47684106--47684283	79	2.2	80	80	3	191	25	21	28	24	1.99
47697671--47697807	51	2.7	51	79	0	166	40	13	6	40	1.70
47699563--47699596	18	1.9	17	88	5	50	50	0	32	17	1.47
47701881--47701960	34	2.5	32	82	8	90	30	21	22	26	1.99
47735179--47735218	20	2.1	20	86	9	57	57	0	2	40	1.12
47735171--47735221	18	2.6	19	81	15	59	56	1	1	39	1.22
47738806--47738889	36	2.3	36	83	2	96	1	32	3	63	1.19
47738851--47738893	15	2.7	16	78	10	52	0	27	0	72	0.85
47738845--47738888	21	2.1	21	86	0	61	0	29	0	70	0.88
47738828--47738892	12	5.4	12	78	12	62	0	30	1	67	1.00
47738824--47738892	36	1.9	36	90	0	111	0	31	1	66	1.00
47739897--47739954	27	2.1	27	80	3	62	56	15	5	22	1.58
47750842--47750870	3	10.0	3	92	7	51	68	0	0	31	0.89
47754565--47754600	18	2.0	18	94	0	63	38	8	11	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47756470--47756540	27	2.7	27	86	2	99	18	21	32	28	1.96
47756524--47756581	27	2.2	27	90	3	91	20	22	32	24	1.98
47756531--47756591	27	2.3	27	85	0	77	24	22	31	21	1.98
47766024--47766053	16	1.9	15	93	6	51	33	6	6	53	1.53
47772513--47772551	21	1.9	19	85	10	51	23	33	10	33	1.88
47778094--47778120	4	6.8	4	100	0	54	77	0	0	22	0.76
47779474--47779526	23	2.4	22	76	20	56	9	18	1	69	1.25
47781904--47781931	4	7.0	4	100	0	56	75	0	0	25	0.81
47782196--47782260	7	9.3	7	76	6	60	26	0	38	35	1.57
47782842--47782875	16	2.1	17	94	5	61	73	0	0	26	0.83

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