genome.fa.s4.2.7.7.80.10.50.1000.13.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  13  of  235  ( 28198 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)
3553662--3553773	28	4.0	28	80	0	125	28	13	27	30	1.94
3559927--3560286	46	7.8	46	93	1	542	21	23	15	40	1.91
3562216--3562256	20	2.0	21	90	4	66	0	24	0	75	0.80
3566900--3566992	40	2.3	40	86	0	123	23	18	25	32	1.97
3567882--3567910	15	1.9	15	100	0	58	13	20	31	34	1.92
3569882--3569928	22	2.1	22	88	0	67	46	8	6	38	1.60
3575510--3575540	14	2.2	14	100	0	62	25	16	12	45	1.83
3581728--3581767	8	5.0	8	90	0	53	50	0	40	10	1.36
3585765--3585813	25	2.0	25	84	11	66	40	2	6	51	1.38
3587233--3587269	18	2.1	18	89	0	56	54	13	5	27	1.61
3587388--3587523	53	2.6	53	80	8	127	24	25	0	50	1.55
3590510--3590552	21	2.0	21	95	0	77	27	0	37	34	1.57
3590533--3590565	16	2.1	16	94	0	57	33	0	36	30	1.58
3590544--3590638	45	2.1	44	88	1	136	34	5	27	32	1.79
3590800--3590834	18	2.0	17	88	5	52	54	0	0	45	0.99
3590758--3590830	27	2.7	27	76	8	76	52	2	0	45	1.15
3590719--3590990	144	1.9	147	94	3	487	46	3	2	47	1.34
3590944--3590978	18	2.0	17	88	5	52	54	0	0	45	0.99
3605610--3605662	27	2.0	27	100	0	106	43	11	11	33	1.76
3607006--3607115	56	2.0	56	94	0	193	42	14	9	33	1.77
3611646--3611694	20	2.7	18	77	22	57	51	4	2	42	1.32
3615074--3615125	16	3.1	16	71	15	50	23	7	25	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3620473--3620502	14	2.2	13	94	5	51	53	13	0	33	1.40
3623008--3623067	30	2.0	30	83	6	77	30	25	8	36	1.85
3625114--3625152	15	2.5	15	91	4	60	56	15	12	15	1.68
3632575--3632651	38	2.0	38	87	0	109	14	22	28	35	1.93
3634187--3634250	32	2.0	32	96	0	119	37	14	10	37	1.81
3635618--3635647	14	2.2	13	94	5	51	53	13	0	33	1.40
3636076--3636102	14	1.9	14	100	0	54	62	7	7	22	1.46
3639375--3639450	35	2.2	35	82	0	89	30	7	18	43	1.78
3640151--3640187	15	2.4	16	86	9	58	29	13	13	43	1.82
3640159--3640190	15	2.1	15	100	0	64	31	15	15	37	1.89
3641930--3641975	20	2.3	21	85	10	62	63	2	6	28	1.31
3648675--3648864	38	5.2	38	73	12	166	15	18	30	35	1.92
3651354--3651588	43	5.5	43	72	11	189	28	26	20	25	1.99
3651342--3651589	85	2.9	85	89	2	365	28	27	19	24	1.99
3652716--3652748	17	2.0	17	94	5	59	36	15	0	48	1.45
3653034--3653307	46	6.0	46	92	0	379	20	24	14	40	1.90
3662386--3662626	43	5.7	42	72	11	161	27	24	20	27	1.99
3662448--3662629	85	2.1	85	89	2	276	29	23	20	26	1.99
3665204--3665480	49	5.9	47	73	10	217	23	30	19	27	1.98
3665800--3665857	30	1.9	30	96	0	107	25	25	15	32	1.95
3682877--3683003	55	2.3	55	84	4	166	29	29	18	22	1.97
3686509--3686729	49	4.7	47	75	9	155	22	28	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3689195--3689238	18	2.4	18	88	0	61	25	6	4	63	1.38
3689509--3689555	20	2.3	21	78	10	53	36	2	17	44	1.60
3691556--3691652	38	2.6	38	86	0	131	14	15	32	37	1.88
3691620--3691669	22	2.3	22	92	0	82	10	16	34	40	1.81
3695960--3696122	43	3.8	41	77	6	155	33	24	17	25	1.96
3702224--3702262	2	20.5	2	89	10	64	46	0	0	53	1.00
3702448--3702525	36	2.2	36	97	0	147	41	2	1	55	1.22
3705491--3705551	31	2.0	31	90	0	95	32	6	9	50	1.61
3707417--3707446	15	2.0	15	93	0	51	16	43	20	20	1.88
3708030--3708057	6	4.7	6	100	0	56	85	0	14	0	0.59
3709309--3709397	40	2.2	40	82	7	101	52	1	6	39	1.35
3709309--3709357	20	2.5	20	76	6	55	55	2	6	36	1.37
3711329--3711368	21	2.0	21	85	5	55	32	22	12	32	1.91
3714116--3714291	46	3.8	46	80	12	225	21	21	28	28	1.98
3714113--3714283	93	1.8	93	96	0	315	21	21	29	28	1.98
3717231--3717299	15	4.6	15	83	0	84	11	17	13	57	1.64
3717222--3717309	30	3.0	30	81	8	99	10	17	15	56	1.66
3719696--3719871	46	3.8	45	81	10	212	21	21	29	28	1.98
3719692--3719863	93	1.8	93	94	0	308	20	21	30	27	1.98
3722416--3722534	57	2.1	58	90	1	186	52	4	3	39	1.37
3727377--3727635	46	5.6	46	89	1	349	22	23	13	40	1.89
3727517--3727588	21	3.2	21	64	21	56	26	25	9	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3727377--3727635	138	1.9	138	87	1	385	22	23	13	40	1.89
3734212--3734295	42	2.0	42	97	0	159	25	26	0	48	1.51
3734219--3734287	20	3.3	21	62	22	54	21	28	0	49	1.50
3734488--3734524	13	2.8	14	80	16	51	29	13	0	56	1.37
3736824--3737034	46	4.6	46	85	2	255	20	25	11	42	1.86
3752241--3752648	39	10.1	40	63	24	126	40	5	4	49	1.46
3752202--3752645	122	3.7	122	96	1	790	40	5	4	49	1.46
3758877--3758911	17	2.1	17	100	0	70	22	11	37	28	1.89
3765207--3765275	35	2.0	35	91	0	111	37	14	8	39	1.77
3765988--3766032	22	2.0	22	100	0	90	40	0	0	60	0.97
3772443--3772819	182	2.1	182	88	1	551	29	9	20	40	1.83
3777430--3777462	16	2.0	17	88	5	50	15	33	12	39	1.84
3777550--3777576	14	1.9	14	100	0	54	55	0	7	37	1.28
3777688--3777715	2	14.0	2	100	0	56	0	50	0	50	1.00
3778774--3778818	23	2.0	22	83	12	56	60	0	0	40	0.97
3779076--3779118	22	2.0	22	90	9	70	27	0	9	62	1.25
3779077--3779125	22	2.2	22	85	7	64	30	0	8	61	1.25
3779062--3779119	22	2.8	20	76	19	64	31	1	6	60	1.33
3782051--3782092	16	2.6	16	88	3	57	26	2	2	69	1.13
3782077--3782122	23	2.0	24	91	4	76	41	0	2	56	1.11
3782096--3782161	20	3.6	18	75	16	64	34	1	3	60	1.21
3782068--3782133	20	3.3	20	78	17	75	34	0	3	62	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3782844--3782901	31	1.9	31	86	6	84	44	13	10	31	1.78
3783307--3783396	28	3.1	29	69	16	69	36	12	3	47	1.57
3783697--3783748	9	5.8	9	90	0	77	38	26	9	25	1.86
3785989--3786374	200	1.9	200	86	1	549	32	15	11	40	1.82
3793595--3793660	34	1.9	34	100	0	132	36	3	13	46	1.59
3794353--3794399	13	3.8	12	76	18	51	36	0	2	61	1.08
3794341--3794399	25	2.4	25	91	0	91	37	1	1	59	1.18
3795640--3795873	40	5.9	40	82	2	274	17	29	17	35	1.94
3795694--3795873	20	9.1	20	64	10	55	16	29	18	35	1.93
3795638--3795906	119	2.3	119	83	5	330	17	28	17	35	1.93
3795642--3795906	79	3.3	78	78	5	271	17	29	17	35	1.93
3803699--3803961	40	6.6	40	88	3	325	24	20	27	26	1.99
3803738--3803996	80	3.3	80	85	3	256	25	20	27	25	1.99
3811651--3811913	40	6.6	40	88	3	325	24	20	27	26	1.99
3811690--3811948	80	3.3	80	85	3	256	25	20	27	25	1.99
3819485--3819598	37	3.0	37	76	15	99	62	8	6	22	1.47
3821119--3821160	14	3.0	14	89	0	66	11	0	11	76	1.03
3821123--3821169	14	3.4	14	85	14	62	6	0	14	78	0.93
3825687--3825855	39	4.3	39	87	4	234	29	23	17	28	1.97
3825687--3825855	78	2.2	79	89	3	261	29	23	17	28	1.97
3832263--3832297	16	2.1	17	89	5	54	82	2	8	5	0.91
3832557--3832596	19	2.1	19	95	0	71	15	0	32	52	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3834656--3834830	49	3.5	49	85	3	242	24	18	26	30	1.98
3834649--3834843	49	3.9	49	82	2	237	25	18	27	29	1.98
3834651--3834837	100	1.9	100	95	0	338	24	19	26	29	1.98
3836371--3836494	64	1.9	64	88	0	185	35	12	16	34	1.88
3837673--3837727	14	4.2	13	84	11	76	0	16	0	83	0.64
3837678--3837725	22	2.2	22	88	7	71	0	16	0	83	0.65
3837673--3837725	8	6.5	8	79	16	56	0	16	0	83	0.66
3840167--3840214	19	2.5	19	93	0	78	45	14	20	18	1.85
3844442--3844480	19	2.1	18	90	4	60	17	0	33	48	1.48
3845391--3845493	46	2.2	48	87	3	147	34	14	24	26	1.94

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235