genome.fa.s23.2.7.7.80.10.50.1000.53.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_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  53  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)
16390585--16390692	26	4.2	26	93	0	189	36	24	7	32	1.83
16390761--16390932	85	2.0	86	97	1	328	23	23	15	37	1.93
16398224--16398408	79	2.3	81	83	7	227	24	22	27	25	2.00
16398224--16398408	40	4.7	40	84	6	225	24	22	27	25	2.00
16398277--16398441	79	2.1	79	83	6	201	26	21	26	25	1.99
16401346--16401453	26	4.2	26	93	0	189	36	24	7	32	1.83
16408900--16409084	79	2.3	81	83	7	227	24	22	27	25	2.00
16408900--16409084	40	4.7	40	84	6	225	24	22	27	25	2.00
16408953--16409117	79	2.1	79	83	6	201	26	21	26	25	1.99
16411894--16411975	26	3.2	26	92	0	146	35	24	7	32	1.83
16413511--16413623	27	4.2	27	82	11	133	15	23	22	38	1.93
16413511--16413623	54	2.1	54	86	3	156	15	23	22	38	1.93
16415894--16415939	22	2.1	22	95	0	83	36	10	28	23	1.89
16419914--16419987	24	3.1	24	94	0	121	31	5	41	21	1.76
16421394--16421469	38	2.0	38	97	0	143	30	14	23	31	1.94
16422658--16422792	40	3.4	39	83	5	162	25	22	25	26	2.00
16425970--16426093	62	2.0	62	91	0	203	20	12	29	38	1.88
16433527--16433586	29	2.0	29	87	3	84	36	6	25	31	1.82
16434012--16434184	46	3.7	46	78	11	201	23	21	26	28	1.99
16434009--16434179	93	1.8	93	93	2	299	22	21	27	28	1.99
16435625--16435684	31	1.9	31	93	0	102	25	21	16	36	1.94
16435905--16435976	26	2.8	26	95	2	128	25	23	25	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16436870--16437067	27	7.3	27	77	7	159	32	7	19	39	1.80
16436850--16437057	54	3.8	54	78	7	177	30	7	20	40	1.81
16436847--16437069	83	2.7	83	79	3	227	32	8	20	39	1.82
16438084--16438169	27	3.2	26	87	8	118	12	24	23	39	1.89
16439907--16440080	45	3.9	45	83	5	205	24	20	28	27	1.99
16441883--16442057	91	1.9	92	92	3	300	28	16	13	41	1.86
16442312--16442417	53	2.0	53	98	0	203	31	18	14	35	1.91
16443202--16443466	40	6.6	39	87	6	334	25	28	24	22	1.99
16445891--16446052	80	2.0	80	93	0	279	33	10	16	38	1.83
16447260--16447339	28	2.8	29	86	3	117	47	32	3	16	1.64
16447498--16447530	17	1.9	17	93	0	57	27	24	3	45	1.68
16447871--16447897	14	1.9	14	100	0	54	0	7	11	81	0.87
16471606--16471802	103	1.9	103	85	2	270	18	28	35	17	1.94
16474590--16474670	38	2.1	38	83	0	99	50	19	11	18	1.76
16473981--16474959	341	2.9	342	90	0	1516	43	16	11	28	1.83
16479643--16479669	13	2.1	13	100	0	54	14	37	33	14	1.88
16488553--16488578	13	2.0	13	100	0	52	15	30	30	23	1.95
16498682--16499515	417	2.0	417	97	0	1571	33	19	12	34	1.89
16502489--16502566	38	2.1	38	95	0	138	47	25	11	15	1.79
16506964--16507021	30	1.9	30	82	6	73	22	13	6	56	1.61
16507191--16507229	20	2.0	20	94	0	69	30	0	0	69	0.89
16507241--16507344	33	3.2	33	71	15	90	36	0	1	60	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16507263--16507403	26	5.5	25	73	19	121	32	1	1	64	1.11
16507262--16507396	17	8.0	18	71	21	91	31	1	0	65	1.06
16507261--16507396	7	18.4	7	70	20	82	32	1	0	65	1.07
16507262--16507386	12	11.1	12	74	17	90	32	1	0	65	1.08
16507291--16507398	55	2.0	55	87	7	157	33	1	0	64	1.04
16507262--16507388	67	1.9	65	87	6	184	32	1	0	65	1.08
16507269--16507398	55	2.5	50	78	17	151	32	1	0	65	1.07
16507771--16507805	18	1.9	18	88	0	52	20	2	5	71	1.19
16507847--16508058	115	1.8	113	81	6	262	29	5	12	52	1.61
16519090--16519218	45	2.9	45	68	20	117	27	16	28	27	1.97
16519136--16519294	75	2.1	76	94	1	275	27	16	26	28	1.97
16519211--16519660	90	5.0	90	89	1	697	31	15	26	26	1.95
16519211--16519660	179	2.5	179	91	1	713	31	15	26	26	1.95
16519244--16519660	45	9.3	45	65	14	193	31	15	27	26	1.95
16521105--16521161	29	2.0	29	92	0	96	33	0	0	66	0.92
16521113--16521364	97	2.5	97	75	14	228	34	1	0	63	1.10
16521193--16521368	7	23.4	7	70	24	103	32	1	0	65	1.04
16521193--16521367	11	15.8	12	73	20	125	32	1	0	65	1.04
16521193--16521370	80	2.2	80	84	10	240	32	1	0	65	1.04
16521195--16521375	15	12.5	15	70	26	110	32	1	1	65	1.07
16525595--16525900	46	6.5	46	72	10	151	28	19	28	23	1.98
16525778--16525903	49	2.6	49	84	3	164	29	21	26	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16529289--16529315	12	2.2	12	100	0	54	18	25	7	48	1.74
16529951--16529984	17	2.0	17	88	0	50	35	0	20	44	1.52
16529968--16530012	22	2.0	23	82	4	56	42	0	13	44	1.43
16530171--16530281	47	2.4	47	85	0	150	28	9	23	38	1.85
16532869--16532911	21	2.0	21	95	0	77	34	16	13	34	1.88
16536896--16536921	7	3.7	7	100	0	52	11	0	26	61	1.30
16537095--16537167	28	2.6	28	80	0	83	19	23	36	20	1.95
16547878--16547919	13	2.9	14	80	13	50	54	0	0	45	0.99
16547882--16547918	16	2.3	16	86	13	58	59	0	0	40	0.97
16548448--16548490	14	3.1	14	86	0	59	44	11	2	41	1.53
16548562--16548632	19	3.8	19	69	9	56	23	1	8	66	1.28
16550819--16550853	15	2.3	15	90	0	52	25	2	2	68	1.17
16550831--16550870	21	2.0	20	85	5	53	20	7	0	72	1.08
16552401--16552440	17	2.3	18	86	8	64	15	5	47	32	1.66
16553407--16553432	3	8.7	3	100	0	52	0	30	0	69	0.89
16555172--16555208	17	2.1	18	90	5	58	70	2	0	27	1.01
16555187--16555225	20	2.0	20	89	0	60	64	5	2	28	1.28
16555265--16555328	29	2.1	31	94	5	114	67	0	4	28	1.11
16555333--16555358	12	2.2	12	100	0	52	50	7	15	26	1.71
16563871--16563992	46	2.6	47	84	5	147	26	22	14	36	1.93
16571366--16571426	30	2.0	30	84	6	79	31	24	3	40	1.71
16572725--16572780	13	4.6	12	76	17	53	76	0	23	0	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16572705--16572780	34	2.1	36	80	9	84	75	3	19	1	1.04
16572726--16572771	22	2.0	23	91	4	76	76	0	23	0	0.79
16572724--16572780	17	3.2	17	76	14	62	77	0	22	0	0.77
16575214--16575277	13	5.2	13	76	12	55	78	3	18	0	0.89
16575224--16575276	16	3.3	16	87	7	81	81	0	18	0	0.70
16576806--16576860	19	2.9	19	71	12	51	69	7	1	21	1.23
16576806--16576900	37	2.6	38	78	11	99	67	6	1	25	1.21
16580161--16580197	3	12.3	3	94	0	65	32	0	2	64	1.07
16580349--16580603	3	85.0	3	67	12	87	28	7	4	58	1.46
16580419--16580484	23	3.0	21	78	12	69	28	6	6	59	1.46
16584936--16584987	25	2.1	24	89	3	77	32	25	17	25	1.97
16585274--16585442	82	2.1	82	87	0	239	23	41	17	17	1.90
16589055--16589133	28	2.9	28	86	1	106	53	20	17	8	1.70
16589187--16589294	54	2.0	54	80	3	119	50	28	0	21	1.49
16590587--16590683	8	11.9	8	85	12	99	63	6	0	29	1.18
16590587--16590683	23	4.0	23	88	10	115	63	6	0	29	1.18
16596028--16596112	23	3.7	23	84	4	109	35	3	22	38	1.71
16596534--16596580	19	2.5	19	76	10	51	21	2	4	72	1.12
16606416--16606440	13	1.9	13	100	0	50	40	20	40	0	1.52
16614907--16615056	55	2.8	54	80	4	149	26	15	29	28	1.96
16614879--16615056	27	6.6	27	77	6	146	25	15	28	30	1.96
16614880--16615035	82	1.9	81	81	6	190	25	16	28	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16625891--16625915	11	2.3	11	100	0	50	72	20	8	0	1.10
16631488--16631629	49	2.9	49	88	0	194	29	33	15	21	1.94
16637724--16637782	17	3.5	17	77	15	68	40	0	0	59	0.97
16637726--16637785	22	2.9	21	79	16	63	43	0	0	56	0.99
16637724--16637784	5	12.6	5	75	25	60	40	0	0	59	0.98
16637960--16637988	15	1.9	15	100	0	58	82	6	10	0	0.83
16658517--16658559	22	1.9	23	90	4	70	34	16	39	9	1.80
16660571--16660640	6	11.8	6	79	14	67	18	1	0	80	0.80
16660576--16660660	5	16.8	5	79	18	88	21	1	0	77	0.83
16660576--16660660	36	2.4	37	88	7	122	21	1	0	77	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