genome.fa.s20.2.7.7.80.10.50.1000.53.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  53  of  186  ( 22216 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)
16341526--16341558	16	1.9	18	88	11	52	0	27	0	72	0.85
16341581--16341635	28	2.0	28	100	0	110	29	14	14	41	1.85
16345880--16345932	27	1.9	28	84	3	72	43	1	0	54	1.11
16356750--16356887	3	45.3	3	72	9	102	57	3	5	33	1.40
16356961--16357005	22	2.0	23	91	4	74	64	4	6	24	1.37
16357291--16357334	12	3.7	12	76	11	54	56	2	9	31	1.43
16357550--16357594	22	2.0	22	82	0	54	40	2	15	42	1.59
16359354--16360021	87	7.7	87	82	5	668	22	21	20	34	1.97
16359354--16360021	175	3.8	173	79	5	679	22	21	20	34	1.97
16359330--16360021	43	15.9	43	63	13	218	23	21	20	34	1.97
16364710--16364755	9	4.8	10	77	17	53	50	13	17	19	1.78
16364710--16364755	19	2.4	19	85	7	58	50	13	17	19	1.78
16367914--16367950	18	2.1	18	94	0	65	54	0	0	45	1.00
16367924--16367963	18	2.2	18	86	0	53	52	5	0	42	1.23
16371978--16372019	6	7.2	6	84	15	61	33	0	0	66	0.92
16372652--16372676	8	3.1	8	100	0	50	40	0	0	60	0.97
16372921--16372947	11	2.5	11	100	0	54	18	25	0	55	1.43
16373268--16373332	21	3.2	20	68	25	55	52	7	13	26	1.67
16373271--16373333	19	3.2	18	70	25	56	50	9	14	25	1.72
16376591--16376625	2	17.5	2	93	0	61	51	2	0	45	1.16
16379931--16379992	30	2.1	30	90	3	99	32	9	3	54	1.49
16384006--16384050	19	2.4	19	85	7	56	28	22	8	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16392603--16393111	178	2.9	177	82	7	577	29	14	28	26	1.96
16392856--16392941	44	2.0	44	85	0	118	30	15	26	27	1.96
16393023--16393125	44	2.3	45	81	8	138	29	16	26	28	1.97
16393505--16393532	13	2.2	13	100	0	56	64	14	7	14	1.48
16395134--16395201	29	2.4	29	87	7	95	32	7	4	55	1.47
16395133--16395210	28	2.8	28	83	9	95	29	7	5	57	1.48
16397340--16397374	6	5.8	6	93	0	61	20	45	0	34	1.51
16399838--16399881	17	2.6	17	89	7	63	72	0	0	27	0.85
16399773--16399976	102	2.0	104	95	3	369	61	2	6	28	1.37
16399799--16399968	49	3.4	50	69	13	152	60	2	7	30	1.36
16400227--16400271	23	2.0	21	87	8	63	42	13	6	37	1.70
16400251--16400353	19	5.8	18	84	10	117	37	13	10	37	1.80
16400263--16400353	35	2.5	37	89	8	141	37	14	10	37	1.81
16400251--16400365	54	2.2	53	86	7	164	38	12	11	38	1.79
16400277--16400331	17	3.4	15	87	9	58	36	14	10	38	1.81
16400263--16400353	19	4.9	19	89	8	152	37	14	10	37	1.81
16400716--16400828	44	2.5	45	82	1	138	26	29	14	30	1.95
16400716--16400846	45	2.9	45	82	1	147	25	28	15	31	1.95
16400967--16401390	78	5.4	78	87	3	593	25	23	18	32	1.97
16400870--16401390	156	3.4	155	88	3	743	25	23	18	32	1.97
16400870--16401390	234	2.3	226	86	4	713	25	23	18	32	1.97
16401332--16402357	219	4.7	219	98	0	1917	26	22	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16414156--16414214	17	3.4	17	78	17	66	33	13	10	42	1.78
16414163--16414216	17	2.9	18	89	10	83	35	12	11	40	1.79
16417231--16417276	24	1.9	24	100	0	92	32	4	15	47	1.65
16418801--16418855	7	7.9	7	88	8	85	69	0	1	29	0.99
16426624--16426846	49	4.6	49	87	5	269	24	29	18	26	1.98
16426668--16426846	99	1.8	96	88	5	270	23	29	18	27	1.98
16433083--16433222	33	4.3	32	83	7	149	39	10	21	29	1.86
16433206--16433321	33	3.5	32	80	5	106	32	15	25	26	1.95
16441610--16441713	54	1.9	54	98	0	199	20	23	24	32	1.98
16442345--16442389	19	2.4	19	85	7	56	2	28	0	68	1.01
16446510--16446548	12	3.2	12	85	0	51	46	12	28	12	1.79
16446634--16446679	19	2.5	19	96	3	85	19	2	13	65	1.37
16448170--16448215	23	2.0	23	91	0	74	17	13	6	63	1.50
16463006--16463046	11	3.7	11	93	0	73	29	17	17	36	1.92
16465144--16465185	20	2.1	20	90	0	66	14	14	14	57	1.66
16470458--16470589	26	4.8	26	72	14	79	43	1	3	50	1.29
16470430--16470586	52	2.8	55	78	13	153	41	1	3	52	1.30
16473388--16473558	91	1.8	93	85	6	240	25	29	18	26	1.98
16478898--16479357	47	9.8	46	75	10	333	23	28	18	29	1.98
16478904--16479257	93	3.8	93	89	1	512	24	28	18	29	1.98
16478898--16479162	140	1.9	140	82	7	333	24	29	18	28	1.98
16482207--16482419	46	4.6	46	76	9	166	23	28	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16482207--16482431	94	2.4	92	82	8	262	24	29	18	28	1.98
16484461--16484549	45	2.0	45	86	4	126	23	20	12	43	1.85
16486705--16486828	46	2.8	46	91	3	200	27	22	16	33	1.96
16486705--16486976	37	6.8	45	87	9	216	26	21	15	36	1.93
16486791--16487003	37	5.8	37	94	0	363	25	21	14	38	1.91
16494438--16494561	46	2.8	46	91	3	200	27	22	16	33	1.96
16494438--16494635	37	4.8	45	84	10	207	26	21	16	35	1.94
16494524--16494662	37	3.8	37	95	0	233	25	21	13	38	1.90
16499240--16499286	25	2.0	25	83	8	62	27	14	4	53	1.60
16499547--16499760	46	4.7	46	86	2	270	20	24	15	39	1.91
16502057--16502133	31	2.5	32	77	10	88	54	3	1	40	1.27
16502750--16502977	46	5.0	46	92	0	339	39	14	23	22	1.91
16503119--16503331	100	2.1	100	95	0	381	49	6	13	31	1.66
16504527--16504556	3	10.0	3	100	0	60	66	0	33	0	0.92
16517205--16517502	46	6.8	45	72	12	221	25	21	21	31	1.98
16517174--16517502	44	7.6	44	72	12	202	25	20	21	31	1.98
16526528--16526600	36	2.0	36	100	0	146	13	31	16	38	1.88
16535705--16535807	35	2.9	36	72	8	111	33	21	22	22	1.97
16543066--16543101	12	2.9	12	95	4	63	88	0	11	0	0.50
16543066--16543101	13	2.8	13	91	4	56	88	0	11	0	0.50
16544549--16544582	3	11.7	3	87	6	52	73	0	26	0	0.83
16544546--16544579	15	2.3	15	100	0	68	76	0	23	0	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16549230--16549265	15	2.4	15	95	0	63	36	22	22	19	1.95
16553444--16553496	16	3.3	16	86	5	63	15	20	0	64	1.29
16554895--16554935	3	13.7	3	94	0	55	39	0	60	0	0.96
16556452--16556493	16	2.4	19	80	11	54	26	2	4	66	1.23
16557034--16557091	27	2.1	28	80	3	64	51	3	10	34	1.53
16559811--16559857	23	2.0	23	100	0	94	25	21	8	44	1.80
16565869--16565902	16	2.1	16	94	0	59	44	17	8	29	1.79
16567905--16567944	21	1.9	21	84	0	53	25	5	0	70	1.08
16567892--16567945	27	1.9	29	85	7	76	27	3	0	68	1.06
16570427--16570507	18	4.5	18	90	4	128	37	13	11	38	1.80
16570427--16570516	35	2.5	36	90	7	146	37	14	10	37	1.80
16574363--16574579	46	4.7	46	94	0	362	20	23	30	25	1.98
16582146--16582230	34	2.5	34	96	0	152	21	34	21	23	1.97
16583403--16583430	3	9.3	3	100	0	56	67	0	0	32	0.91
16584159--16584193	17	1.9	19	88	11	56	11	11	11	65	1.47
16584159--16584193	18	2.0	17	88	5	52	11	11	11	65	1.47
16586037--16586091	23	2.4	23	82	8	60	23	23	16	36	1.94
16592453--16592477	3	8.3	3	100	0	50	68	0	0	32	0.90
16592646--16592685	3	13.3	3	100	0	80	67	0	0	32	0.91
16593496--16593520	13	1.9	13	100	0	50	28	0	0	72	0.86
16594230--16594343	44	2.6	44	82	0	147	31	14	20	33	1.93
16594230--16594390	88	1.8	88	81	2	198	29	18	18	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16609071--16609122	22	2.3	23	83	6	61	19	23	17	40	1.91
16613706--16613730	7	3.6	7	100	0	50	32	0	0	68	0.90
16615451--16615489	21	1.9	20	84	5	51	30	25	5	38	1.78
16615450--16615500	21	2.5	20	78	12	50	31	25	5	37	1.80
16616349--16616407	23	2.5	24	78	13	61	38	6	3	50	1.45
16618322--16618365	23	2.0	22	86	4	61	36	15	2	45	1.59
16627029--16627173	71	2.0	71	85	0	191	33	19	15	31	1.93
16629156--16629225	34	2.1	34	97	0	131	45	21	11	21	1.83
16640764--16640793	3	10.0	3	100	0	60	66	0	33	0	0.92
16640872--16640913	6	7.0	6	100	0	84	0	33	16	50	1.46

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