genome.fa.s23.2.7.7.80.10.50.1000.11.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  11  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)
3585635--3585714	12	6.4	12	71	21	58	62	1	2	33	1.16
3585628--3585729	51	2.0	51	94	0	177	60	0	3	34	1.21
3585753--3585883	65	2.0	65	92	2	219	31	12	13	41	1.83
3592835--3593000	81	2.0	81	97	0	314	33	13	16	36	1.88
3596171--3596205	15	2.2	16	90	5	54	22	0	17	60	1.37
3600115--3600453	61	5.2	67	68	24	224	43	3	2	50	1.34
3600165--3600334	32	5.3	31	64	27	81	43	2	2	51	1.27
3600155--3600351	60	3.2	60	71	20	204	43	2	3	50	1.31
3600175--3600372	57	3.2	58	71	21	195	43	3	3	50	1.33
3600216--3600419	68	3.1	68	71	21	234	44	3	2	49	1.34
3600144--3600453	128	2.4	128	96	0	568	43	3	2	50	1.33
3601299--3601328	15	1.9	16	93	6	53	33	0	0	66	0.92
3602257--3602293	18	2.1	18	100	0	74	54	5	0	40	1.24
3602257--3602304	18	2.7	18	90	6	62	54	8	0	37	1.31
3602886--3602947	25	2.6	25	75	10	67	48	0	4	46	1.23
3603028--3603057	14	2.1	14	93	0	51	80	0	20	0	0.72
3605046--3605072	13	2.1	13	100	0	54	44	0	14	40	1.46
3610413--3610500	31	2.8	32	80	3	97	39	13	7	38	1.74
3615443--3615499	28	2.1	28	87	6	82	52	1	8	36	1.43
3615615--3615657	19	2.2	21	88	12	65	55	0	9	34	1.32
3615691--3615757	24	3.0	21	77	18	55	50	5	8	34	1.58
3615984--3616039	26	2.2	26	83	6	69	64	3	10	21	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3622325--3622356	16	2.0	16	93	0	55	0	15	0	84	0.63
3625722--3625774	23	2.2	24	80	3	63	66	0	0	33	0.92
3632846--3632896	18	2.8	18	85	11	77	60	1	0	37	1.08
3632846--3632898	17	3.1	16	86	13	70	62	1	0	35	1.06
3633778--3633815	19	2.0	19	90	10	60	65	0	0	34	0.93
3636674--3636719	18	2.6	18	100	0	92	43	6	28	21	1.77
3641412--3642584	145	8.1	145	88	5	1541	27	5	7	59	1.49
3641999--3642055	30	1.9	29	89	3	87	21	3	7	68	1.29
3641408--3642584	570	2.0	578	88	5	1738	27	5	7	59	1.48
3642739--3642769	11	2.8	11	100	0	62	74	0	0	25	0.82
3642969--3643031	27	2.4	26	81	7	65	38	14	0	47	1.44
3643118--3643142	11	2.3	11	100	0	50	0	36	0	64	0.94
3645736--3645770	17	2.0	18	88	5	54	42	0	0	57	0.99
3648122--3648164	20	2.1	21	86	4	61	72	0	13	13	1.13
3651104--3651143	7	5.7	7	87	0	62	42	30	0	27	1.56
3651108--3651179	14	5.1	14	68	6	56	37	27	4	30	1.76
3651104--3651155	21	2.5	21	83	0	59	42	30	1	25	1.66
3652283--3652333	18	2.9	17	78	16	59	50	0	0	49	1.00
3656912--3657007	34	2.9	33	78	3	111	28	15	15	40	1.88
3669300--3669455	44	3.6	42	79	9	154	26	22	21	30	1.99
3669426--3669519	46	2.0	46	83	0	116	27	25	18	28	1.98
3695248--3695435	64	2.9	64	100	0	376	40	7	10	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3696298--3696366	34	2.0	34	94	0	120	52	7	10	30	1.62
3703132--3703491	135	2.7	136	84	3	462	26	23	20	29	1.99
3707206--3707257	25	2.1	25	100	0	104	34	13	23	28	1.92
3710753--3710797	21	2.1	21	91	0	72	15	24	22	37	1.93
3716487--3716515	14	2.0	15	93	6	51	51	0	6	41	1.28
3725446--3725533	43	2.0	43	95	0	158	45	12	13	28	1.80
3727020--3727748	363	2.0	363	96	0	1352	42	17	12	27	1.85
3735268--3735311	22	2.0	22	100	0	88	50	31	0	18	1.47
3737967--3738357	132	3.0	131	83	5	461	28	18	17	35	1.93
3749607--3749911	133	2.3	133	82	1	351	30	19	23	27	1.98
3752707--3752731	13	1.9	13	100	0	50	20	0	0	80	0.72
3757577--3757966	132	3.0	132	84	4	459	29	19	16	33	1.94
3761859--3762065	63	3.3	61	81	6	227	23	26	24	26	2.00
3761851--3762077	126	1.8	126	84	3	314	22	26	24	25	2.00
3767461--3767512	24	2.2	24	89	0	77	55	9	1	32	1.43
3768894--3768945	24	2.2	24	89	0	77	55	9	1	32	1.43
3769799--3769840	19	2.3	18	87	4	57	35	2	4	57	1.33
3770944--3770993	23	2.1	24	82	10	59	34	2	0	64	1.05
3775685--3775748	33	1.9	33	81	6	76	57	1	1	39	1.17
3780445--3780537	18	5.2	18	93	0	159	26	24	17	31	1.97
3780445--3780537	36	2.6	36	98	0	177	26	24	17	31	1.97
3787706--3787859	60	2.6	60	88	2	220	44	4	9	41	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3788649--3788687	16	2.3	17	82	8	53	74	5	7	12	1.20
3789315--3789369	21	2.8	19	79	15	58	52	0	0	47	1.00
3789315--3789377	22	3.0	20	82	13	65	55	0	0	44	0.99
3789524--3789573	24	2.3	22	83	16	68	54	10	0	36	1.34
3794901--3794950	17	3.0	17	82	8	50	28	0	2	70	0.99
3794859--3794953	28	3.3	27	72	16	75	32	0	1	66	0.99
3796775--3796834	31	1.9	31	86	6	86	63	0	0	36	0.95
3796765--3796831	23	2.9	22	84	8	80	64	0	0	35	0.94
3796770--3796834	8	8.1	8	71	11	53	64	0	0	35	0.94
3806017--3806088	18	3.9	18	72	3	63	59	0	2	37	1.12
3808806--3808873	30	2.3	30	84	5	84	47	5	19	27	1.72
3810862--3811032	54	3.2	54	99	0	333	28	18	21	31	1.97
3811067--3811202	46	3.0	46	87	2	184	38	14	24	22	1.92
3823090--3823270	43	4.2	43	89	0	272	26	19	31	22	1.98
3823322--3823404	31	2.6	31	80	3	85	61	19	3	15	1.48
3831745--3831924	60	3.0	61	95	2	326	56	18	6	18	1.63
3832844--3832964	38	3.4	38	63	19	96	23	19	23	33	1.97
3832836--3832971	69	2.0	69	95	0	245	27	17	23	31	1.97
3834341--3834390	25	2.0	25	84	11	66	40	26	4	30	1.74
3834604--3834959	41	8.4	41	83	9	437	17	19	26	35	1.94
3834639--3834743	53	2.0	54	90	1	167	15	19	25	40	1.90
3834693--3834990	123	2.4	123	86	2	368	18	20	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3840495--3840637	21	7.3	20	68	17	95	32	5	1	60	1.29
3840497--3840668	37	4.5	38	68	20	117	31	5	1	61	1.29
3840496--3840672	58	3.1	58	100	0	354	32	5	1	60	1.28
3845436--3845469	3	11.7	3	93	6	61	70	0	0	29	0.87
3846732--3846772	19	2.2	19	86	4	57	56	4	7	31	1.48
3848882--3848932	20	2.6	20	93	3	86	78	5	5	9	1.08
3851356--3851391	17	2.2	16	90	5	54	58	0	0	41	0.98
3851500--3851565	33	2.0	33	84	0	87	48	1	6	43	1.36
3857267--3857293	6	4.5	6	100	0	54	18	66	0	14	1.25
3857415--3857668	72	3.5	72	84	5	357	35	35	5	23	1.78
3859951--3859994	19	2.3	19	96	0	79	4	0	29	65	1.12
3865556--3865670	44	2.6	44	85	2	149	35	13	22	27	1.92
3865556--3865689	46	3.0	45	82	4	153	35	14	23	26	1.93
3872930--3873044	44	2.6	44	85	2	149	35	13	22	27	1.92
3872930--3873063	46	3.0	45	82	4	153	35	14	23	26	1.93
3877601--3877720	3	40.3	3	70	11	77	30	9	1	59	1.38
3877604--3877720	12	9.8	12	73	12	89	29	9	1	58	1.39
3878041--3878093	3	16.7	3	77	11	52	35	1	3	58	1.27
3880348--3880387	21	1.9	21	85	10	55	30	15	20	35	1.93
3891348--3891383	17	2.1	17	90	10	56	0	8	2	88	0.59
3891351--3891383	12	2.8	12	90	4	50	0	6	3	90	0.52
3891351--3891377	11	2.5	11	100	0	54	0	7	0	92	0.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3895297--3895335	16	2.4	16	83	8	53	64	0	0	35	0.94
3904334--3904380	25	1.9	24	91	4	76	25	6	2	65	1.27
3904584--3904608	13	1.9	13	100	0	50	24	0	4	72	1.02
3914708--3914755	25	1.9	25	83	8	62	62	4	2	31	1.26
3915511--3915582	37	2.0	37	81	5	85	59	4	0	36	1.17
3916398--3916442	19	2.4	19	88	3	65	48	0	4	46	1.22
3921480--3921520	14	2.6	17	77	14	52	31	4	14	48	1.65
3926231--3926258	10	2.8	10	100	0	56	42	0	0	57	0.99
3926778--3926811	17	2.0	17	88	11	52	29	0	0	70	0.87
3936773--3937368	297	2.0	297	99	0	1183	31	17	10	40	1.84

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