genome.fa.s20.2.7.7.80.10.50.1000.122.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  122  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)
40434506--40434581	34	2.2	34	86	4	100	32	23	21	22	1.98
40439792--40439868	38	2.0	38	100	0	154	40	10	7	41	1.68
40441170--40441268	28	3.5	28	84	2	135	20	9	8	62	1.50
40441170--40441286	28	4.1	27	76	10	101	21	11	6	60	1.53
40441170--40441286	57	2.1	57	85	3	155	21	11	6	60	1.53
40441817--40442031	90	2.4	90	88	2	335	20	19	21	38	1.94
40441835--40442031	45	4.4	45	78	6	213	20	19	21	38	1.94
40442616--40442656	20	2.0	20	100	0	82	41	24	4	29	1.75
40445302--40445509	46	4.4	46	79	8	163	25	29	18	26	1.98
40449078--40449193	29	4.0	29	81	1	144	28	30	14	26	1.95
40449405--40449455	24	2.1	24	96	0	93	13	23	13	49	1.78
40450125--40450149	4	6.2	4	100	0	50	76	0	0	24	0.80
40462364--40462421	28	2.0	28	83	9	73	17	41	18	22	1.90
40463426--40463542	46	2.5	46	84	6	139	24	29	17	28	1.98
40465877--40466008	46	2.8	47	84	8	164	25	29	15	28	1.96
40465829--40466003	92	1.9	94	85	11	245	25	29	17	28	1.98
40465879--40466050	46	3.7	47	82	7	158	26	29	15	29	1.96
40473006--40473085	29	2.8	28	85	7	108	27	33	15	23	1.94
40473006--40473085	28	2.8	28	85	7	108	27	33	15	23	1.94
40476008--40476054	21	2.2	21	85	7	60	57	12	4	25	1.54
40478549--40478633	40	2.1	41	86	6	120	51	4	23	20	1.65
40478546--40478676	41	3.2	41	80	4	131	49	6	23	20	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40486355--40486404	15	3.3	15	82	0	73	36	2	12	50	1.51
40491658--40491780	55	2.2	56	82	2	142	17	30	26	26	1.97
40502022--40502060	16	2.4	16	83	12	53	35	2	15	46	1.60
40503451--40503532	25	3.3	25	91	1	130	59	2	21	15	1.48
40503501--40503641	40	3.5	40	85	0	183	52	6	22	18	1.68
40503771--40503810	21	1.9	21	89	0	62	37	5	12	45	1.64
40505696--40505898	49	4.2	48	78	9	180	30	19	26	23	1.98
40505696--40505872	98	1.8	98	82	4	232	29	20	26	23	1.98
40507113--40507151	21	1.9	20	85	15	53	17	41	25	15	1.89
40508738--40508771	7	4.9	7	88	0	50	32	35	0	32	1.58
40509137--40509498	89	4.1	89	99	0	708	43	20	6	29	1.76
40518014--40518066	28	2.0	27	85	7	72	18	13	32	35	1.90
40518030--40518133	28	3.7	28	79	7	104	25	15	32	26	1.95
40520343--40520403	27	2.3	27	78	10	65	47	4	1	45	1.34
40523229--40523276	24	2.0	25	84	12	64	58	4	4	33	1.36
40524276--40524832	301	1.9	301	94	1	1001	38	17	13	30	1.88
40524940--40524965	12	2.2	12	100	0	52	7	15	30	46	1.74
40524996--40525277	41	6.9	41	83	4	286	34	20	24	21	1.97
40525273--40525322	18	2.8	18	76	14	50	52	28	2	18	1.56
40525582--40525623	22	2.0	21	85	4	57	21	0	38	40	1.53
40525581--40525613	15	2.3	15	89	5	50	21	0	30	48	1.50
40525646--40525683	15	2.6	15	83	4	51	28	0	28	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40525649--40525692	22	2.0	22	86	0	61	34	0	29	36	1.58
40525920--40525985	22	3.0	22	70	14	57	25	1	25	46	1.61
40528867--40528899	6	5.0	7	85	14	52	45	9	0	45	1.35
40528864--40528899	13	2.8	13	100	0	72	44	8	0	47	1.33
40530458--40530607	43	3.5	43	83	8	162	25	13	27	34	1.93
40530698--40530756	22	2.7	22	91	0	100	45	20	15	18	1.85
40530948--40531044	49	2.0	49	93	0	167	24	25	17	31	1.97
40536977--40537018	20	2.0	20	86	4	57	42	14	4	38	1.66
40537542--40537575	11	3.1	11	86	0	50	14	8	11	64	1.49
40537666--40537708	22	2.0	22	85	0	59	27	4	18	48	1.68
40537799--40537843	20	2.2	20	92	0	72	44	0	8	46	1.34
40540296--40540400	28	3.7	28	83	9	133	23	34	15	26	1.94
40540296--40540412	28	4.1	28	82	10	123	25	32	13	28	1.94
40540490--40540540	9	5.4	9	81	9	66	11	39	21	27	1.88
40540481--40540536	19	3.0	19	89	2	78	14	39	19	26	1.90
40540490--40540545	19	2.9	19	89	0	85	12	37	19	30	1.89
40545475--40545508	11	3.1	11	86	0	50	14	8	11	64	1.49
40545715--40545763	24	2.0	25	84	11	66	57	0	34	8	1.29
40554819--40554895	40	1.9	40	89	0	118	15	12	33	37	1.86
40561677--40561762	42	2.0	42	100	0	172	39	18	6	34	1.78
40562309--40562364	26	2.2	26	96	0	103	30	7	25	37	1.82
40563852--40563904	26	2.0	26	82	7	63	37	20	15	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40565504--40565534	12	2.6	12	94	0	53	9	22	51	16	1.73
40569440--40569495	26	2.2	26	93	0	94	30	7	26	35	1.83
40572820--40572943	48	2.6	48	84	2	160	27	31	17	23	1.97
40579698--40579807	26	4.2	26	94	0	184	33	5	24	36	1.79
40581427--40581539	27	4.2	27	80	3	111	18	23	21	36	1.95
40582658--40582763	49	2.2	49	89	3	160	26	19	26	27	1.99
40583554--40583875	170	1.9	170	85	3	452	38	10	14	36	1.81
40585485--40585539	27	2.0	27	96	0	101	40	14	5	40	1.69
40585729--40585754	12	2.2	12	100	0	52	19	7	15	57	1.62
40586006--40586040	18	1.9	18	88	0	52	25	8	14	51	1.70
40587267--40587292	12	2.2	12	100	0	52	7	15	30	46	1.74
40587339--40587475	41	3.4	41	93	1	231	30	22	27	18	1.98
40587566--40587666	7	14.1	7	74	8	60	17	2	37	41	1.65
40588281--40588312	16	2.0	16	93	0	55	75	3	0	21	0.95
40590249--40590293	22	2.0	22	95	0	81	51	15	0	33	1.44
40594025--40594069	22	2.0	22	86	0	63	48	13	2	35	1.54
40596030--40596082	27	2.0	27	82	14	65	28	5	3	62	1.35
40596096--40596234	43	3.2	43	92	0	215	22	23	30	23	1.99
40598404--40598544	39	3.6	39	90	0	219	45	19	3	31	1.68
40600306--40600664	46	7.7	46	79	13	396	22	20	27	29	1.98
40600303--40600659	93	3.8	93	98	0	671	22	20	28	28	1.98
40600888--40600925	19	2.0	20	85	15	53	36	0	23	39	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40601120--40601713	296	2.0	296	99	0	1170	37	9	18	34	1.84
40607276--40607324	23	2.1	23	100	0	98	22	38	4	34	1.73
40608748--40608805	22	2.6	21	78	10	71	31	6	18	43	1.77
40611180--40611221	21	2.0	21	100	0	84	33	28	9	28	1.88
40622040--40622127	44	2.0	44	97	0	167	39	12	27	20	1.88
40625881--40625924	6	7.3	6	100	0	88	18	18	0	63	1.31
40648356--40648427	24	3.0	24	100	0	144	33	4	0	62	1.14
40648775--40648806	13	2.5	13	89	0	55	40	6	18	34	1.76
40649854--40649892	17	2.4	17	91	4	62	46	2	5	46	1.38
40650737--40650847	55	2.0	55	98	0	213	46	13	10	28	1.77
40652278--40652412	68	2.0	69	86	7	195	40	5	5	48	1.50
40668119--40668151	14	2.3	15	94	5	59	24	0	18	57	1.40
40668141--40668204	23	2.7	23	95	2	110	12	0	31	56	1.37
40668306--40668438	29	4.6	29	88	0	178	39	6	21	33	1.79
40668619--40668716	19	5.2	19	92	7	164	37	10	16	35	1.82
40673765--40674065	75	4.0	75	99	0	593	32	10	15	41	1.82
40678686--40678915	46	5.0	46	87	2	291	20	22	15	41	1.89
40691714--40691744	8	3.9	8	95	0	53	41	25	9	22	1.84
40692931--40693005	38	2.0	38	91	0	123	38	10	6	44	1.66
40693302--40693368	33	2.0	33	97	0	125	29	16	14	38	1.89
40696486--40696547	31	2.0	31	93	0	106	14	19	32	33	1.92
40698423--40698456	12	2.8	12	95	0	59	0	23	44	32	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40698991--40699043	24	2.1	26	86	6	74	64	5	0	30	1.17
40700055--40700911	90	9.5	90	99	0	1696	28	24	15	31	1.96
40702959--40703003	17	2.5	19	82	7	58	66	2	2	28	1.15
40702986--40703012	14	1.9	14	100	0	54	77	0	0	22	0.76
40703064--40703122	16	3.5	16	76	13	55	64	3	1	30	1.20
40705031--40705082	27	1.9	27	84	7	70	25	5	30	38	1.79
40711965--40712001	18	2.2	17	90	9	58	37	0	0	62	0.96
40711976--40712017	21	2.0	21	86	13	61	33	2	2	61	1.21
40720763--40720789	3	9.0	3	100	0	54	66	0	33	0	0.92
40723065--40723126	30	2.1	29	82	8	72	46	3	0	50	1.17

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