genome.fa.s23.2.7.7.80.10.50.1000.123.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  123  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)
41117355--41117383	15	2.0	15	93	6	51	41	0	0	58	0.98
41118338--41118394	29	2.0	29	96	0	105	68	1	7	22	1.23
41118491--41118532	14	2.8	15	85	10	59	71	0	0	28	0.86
41118492--41118541	20	2.6	19	87	9	66	70	0	0	30	0.88
41120453--41120698	51	5.0	51	73	10	199	32	17	15	34	1.91
41120428--41120698	95	2.8	95	82	5	310	31	18	16	34	1.93
41139412--41139567	78	2.0	78	98	0	303	33	21	14	29	1.93
41140388--41140441	7	7.4	7	80	15	65	25	0	3	70	1.04
41141191--41141220	10	3.0	10	90	0	51	56	0	0	43	0.99
41142906--41142936	7	4.4	7	100	0	62	38	0	45	16	1.47
41145194--41145220	6	4.5	6	100	0	54	0	18	48	33	1.49
41152297--41152409	6	18.3	6	69	18	63	49	13	16	20	1.79
41152355--41152409	25	2.2	25	96	0	101	47	10	20	21	1.80
41152306--41152406	37	2.7	37	80	4	114	49	12	17	19	1.79
41152650--41152781	27	4.9	27	84	0	147	41	6	18	32	1.77
41152650--41152789	54	2.6	54	82	0	181	41	6	20	32	1.77
41152784--41152943	27	6.0	26	80	4	149	31	11	20	36	1.88
41152791--41152942	81	1.9	81	80	5	182	31	10	19	38	1.86
41155159--41155227	30	2.3	30	87	5	95	34	10	4	50	1.56
41155181--41155230	17	3.2	17	67	21	54	32	8	4	56	1.47
41155174--41155230	30	1.9	30	100	0	114	33	7	3	56	1.43
41155749--41155819	15	4.7	15	70	6	54	64	5	1	28	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41156244--41156276	12	2.8	12	82	17	50	27	6	0	66	1.15
41158713--41158743	3	10.3	3	100	0	62	67	0	32	0	0.91
41160174--41160323	39	3.8	39	80	6	142	36	22	20	22	1.96
41160293--41160619	113	2.9	114	83	1	406	25	21	23	30	1.99
41160519--41160656	73	1.9	72	86	4	197	28	21	19	30	1.98
41160519--41160680	73	2.2	73	81	4	184	25	19	22	32	1.97
41161088--41161261	7	25.1	7	66	15	51	17	4	39	39	1.68
41161111--41161163	21	2.6	21	84	3	72	13	3	43	39	1.62
41161126--41161182	27	2.1	27	100	0	114	10	3	47	38	1.55
41161709--41161854	75	1.9	74	82	5	177	30	13	21	34	1.92
41163843--41163959	55	2.1	55	100	0	234	45	13	22	18	1.85
41164644--41164714	21	3.4	21	80	0	79	33	18	45	2	1.64
41164938--41164971	14	2.4	14	95	0	59	17	8	20	52	1.71
41165038--41165411	42	8.9	41	82	4	192	27	20	20	31	1.98
41165038--41165200	40	3.9	40	79	7	146	31	20	20	26	1.98
41165127--41165455	42	7.8	42	89	3	484	24	21	20	33	1.97
41165040--41165455	84	5.0	83	87	3	503	26	20	20	31	1.98
41165040--41165455	126	3.3	126	85	4	509	26	20	20	31	1.98
41169066--41170516	728	2.0	728	99	0	2884	38	17	11	32	1.86
41177583--41177658	34	2.2	34	85	0	98	22	25	25	27	2.00
41181542--41181598	25	2.3	25	81	0	69	45	7	15	31	1.73
41195771--41195838	26	2.6	26	88	0	91	17	23	17	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41197356--41197480	47	2.7	47	79	0	133	24	14	27	33	1.94
41200947--41201003	28	2.0	28	93	0	96	24	14	17	43	1.86
41205845--41205882	19	2.0	19	89	0	58	28	0	2	68	1.03
41206163--41206196	18	1.9	18	88	5	52	61	2	0	35	1.11
41207582--41207611	12	2.5	12	94	0	51	26	46	23	3	1.68
41215850--41215895	12	4.0	12	81	16	53	63	2	0	34	1.07
41215856--41215895	21	1.9	21	89	0	62	65	2	0	32	1.06
41216618--41216655	20	1.9	20	88	0	58	57	5	0	36	1.21
41228541--41228583	19	2.2	20	80	12	54	65	2	2	30	1.18
41231418--41231455	19	2.0	20	89	5	60	52	0	2	44	1.14
41235778--41235819	22	2.0	22	85	4	59	57	2	0	40	1.12
41235786--41235823	15	2.4	16	82	13	51	55	0	0	44	0.99
41236870--41236929	18	3.4	17	86	9	75	18	18	25	38	1.93
41236879--41236932	18	3.0	18	94	0	90	16	24	22	37	1.94
41238971--41239039	34	2.0	34	97	0	129	15	20	7	56	1.63
41238977--41239033	16	3.4	16	68	17	53	15	21	5	57	1.57
41238985--41239039	17	3.2	17	69	19	51	14	20	7	58	1.60
41239046--41239086	20	2.0	20	85	0	55	34	7	26	31	1.84
41240270--41240310	20	2.0	21	85	4	57	0	17	2	80	0.82
41241336--41241412	40	1.9	40	86	5	111	15	15	33	35	1.89
41249398--41249444	25	1.9	24	87	12	69	44	2	21	31	1.64
41251579--41251703	44	2.9	43	77	10	105	19	16	29	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41263155--41263193	20	2.0	20	94	0	69	7	51	20	20	1.72
41263466--41263522	29	1.9	30	85	3	80	17	3	22	56	1.56
41276159--41276263	43	2.4	43	85	3	140	33	27	15	23	1.95
41283007--41283032	13	2.0	13	100	0	52	15	0	7	76	0.99
41283663--41283716	20	2.7	20	91	2	90	44	16	5	33	1.71
41283733--41283883	18	7.9	18	69	15	97	39	15	9	34	1.81
41284001--41284119	53	2.2	53	86	2	168	45	21	15	16	1.85
41286376--41286639	40	6.6	40	87	6	349	25	22	27	24	2.00
41286376--41286672	159	1.9	159	82	6	379	26	22	26	24	2.00
41288475--41288530	16	3.5	16	78	4	60	25	0	5	69	1.09
41295406--41295433	14	2.0	14	100	0	56	28	28	35	7	1.84
41298902--41299086	40	4.7	40	81	5	178	27	28	20	24	1.99
41298869--41299086	40	5.5	39	77	7	165	25	27	20	25	1.99
41305476--41305738	40	6.6	39	86	4	278	25	27	21	25	1.99
41305476--41305738	120	2.2	119	82	4	307	25	27	21	25	1.99
41305670--41305747	40	1.9	41	82	10	97	26	28	20	24	1.99
41307346--41307390	22	2.0	22	100	0	90	40	4	24	31	1.75
41308301--41308368	29	2.2	32	79	10	79	48	2	14	33	1.59
41308586--41308649	24	2.5	25	73	19	69	40	0	3	56	1.15
41310533--41310886	46	7.7	46	86	1	471	42	13	22	21	1.88
41310753--41310823	21	3.2	21	67	21	63	43	8	23	23	1.81
41310543--41310871	182	1.8	182	89	0	523	42	13	23	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41324964--41324998	16	2.2	16	89	0	52	42	0	0	57	0.99
41325014--41325059	13	3.1	15	84	9	51	50	4	0	45	1.21
41325087--41325144	15	3.6	15	72	17	53	50	1	3	44	1.29
41334078--41334142	25	2.9	23	80	15	66	64	9	1	24	1.31
41334104--41334142	19	2.0	20	90	5	62	69	10	2	17	1.28
41334115--41334153	19	2.1	19	85	0	51	74	7	5	12	1.20
41334741--41334772	11	2.9	11	95	0	55	34	3	0	62	1.11
41342134--41342170	19	1.9	19	94	0	65	45	5	8	40	1.56
41343203--41343230	10	2.8	10	100	0	56	0	10	0	89	0.49
41348087--41348137	22	2.2	22	86	6	66	49	17	1	31	1.58
41356759--41356798	21	2.0	21	90	5	64	27	15	0	57	1.38
41358346--41358411	29	2.3	29	84	10	98	31	30	12	25	1.92
41358564--41358712	50	3.0	48	74	11	122	60	3	0	35	1.18
41358606--41358672	28	2.4	29	80	7	77	61	2	1	34	1.20
41358606--41358683	29	2.8	28	77	14	72	61	2	1	34	1.18
41358639--41358714	20	3.8	21	77	16	72	59	3	1	35	1.24
41358627--41358730	29	3.7	27	73	18	79	58	3	0	36	1.23
41358662--41358741	20	4.3	17	75	18	63	58	5	0	36	1.20
41358775--41358839	29	2.2	28	78	10	69	60	12	1	26	1.41
41358763--41358827	20	3.3	19	78	4	58	61	7	1	29	1.33
41362182--41362231	19	2.6	19	77	3	55	30	4	2	64	1.23
41362890--41362919	15	2.0	15	100	0	60	53	0	46	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41365834--41365879	23	2.0	23	91	0	74	13	17	26	43	1.85
41365936--41365970	18	1.9	18	88	0	52	68	0	2	28	1.04
41366014--41366061	20	2.5	18	81	15	60	50	0	6	43	1.27
41366020--41366061	20	2.0	21	95	4	77	54	0	4	40	1.21
41379237--41379288	15	3.4	15	75	15	52	32	1	0	65	1.04
41399594--41399684	47	1.9	47	95	0	164	37	10	25	26	1.89
41400212--41400264	27	1.9	28	92	3	90	32	3	20	43	1.70
41403186--41403368	79	2.3	81	83	7	223	24	27	22	24	2.00
41403165--41403368	40	5.1	40	81	8	229	24	27	22	25	2.00
41404498--41404617	56	2.1	56	98	0	231	22	23	9	45	1.81

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