genome.fa.s10.2.7.7.80.10.50.1000.11.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  11  of  172  ( 20562 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)
3461178--3461241	3	21.3	3	100	0	128	67	0	32	0	0.91
3468059--3468088	14	2.1	14	93	0	51	23	0	43	33	1.54
3470274--3470304	4	7.8	4	92	0	53	19	0	3	77	0.90
3470887--3470920	9	3.8	9	96	0	59	58	0	0	41	0.98
3477204--3477263	20	2.9	19	75	20	59	50	1	3	45	1.28
3477902--3477931	15	2.0	15	93	0	51	50	0	0	50	1.00
3495446--3495675	113	2.0	113	98	0	442	18	23	13	44	1.85
3499097--3499155	30	2.0	30	96	0	109	25	5	11	57	1.54
3517864--3517938	38	2.0	38	97	0	141	21	32	28	18	1.97
3521739--3521776	20	2.0	19	90	10	60	76	0	0	23	0.79
3526626--3526739	25	4.6	25	71	14	83	19	28	20	31	1.97
3526747--3526821	25	3.0	25	78	3	89	24	29	18	28	1.98
3528356--3528471	25	4.8	25	64	17	66	37	20	25	17	1.94
3543098--3543152	20	2.8	19	78	10	58	34	3	3	58	1.33
3551905--3551956	3	16.7	3	80	4	50	25	0	0	75	0.81
3552244--3552268	8	3.1	8	100	0	50	36	0	0	64	0.94
3556721--3556752	16	1.9	17	93	6	57	40	0	21	37	1.54
3571809--3571855	21	2.2	22	92	3	78	21	19	38	21	1.94
3575019--3575065	21	2.2	22	92	3	78	21	19	38	21	1.94
3576138--3576173	18	2.1	17	94	5	63	36	8	11	44	1.70
3582949--3582985	16	2.3	16	100	0	74	21	29	5	43	1.75
3585334--3585375	22	1.9	22	90	0	66	35	2	11	50	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3589106--3589150	22	2.0	22	91	0	72	33	2	15	48	1.57
3596945--3596995	15	3.5	15	72	5	59	56	3	3	35	1.36
3596945--3597004	29	2.1	29	100	0	120	53	6	6	33	1.53
3605305--3605416	42	2.6	42	82	12	138	25	19	25	29	1.99
3605321--3605433	42	2.7	42	78	14	124	24	21	28	25	1.99
3606531--3606704	87	2.0	87	95	0	312	28	10	13	47	1.76
3615895--3615919	5	5.0	5	100	0	50	60	0	0	40	0.97
3619148--3619261	56	2.0	56	100	0	228	42	19	15	21	1.88
3620283--3620344	3	20.7	3	90	6	90	64	0	30	4	1.14
3620457--3620491	3	11.7	3	100	0	70	0	34	0	65	0.93
3626627--3626653	11	2.5	11	100	0	54	22	7	18	51	1.70
3628054--3628248	93	2.1	92	88	4	286	44	4	4	47	1.41
3628226--3628324	52	2.0	52	80	11	118	45	6	2	46	1.39
3628281--3628314	17	2.0	17	94	0	59	44	5	0	50	1.26
3628286--3628333	17	3.0	16	79	17	55	45	6	2	45	1.40
3628330--3628508	54	3.1	54	65	22	137	41	2	7	49	1.43
3628326--3628513	61	3.1	61	68	14	190	41	2	6	49	1.41
3628374--3628408	18	2.0	17	88	5	52	40	0	0	60	0.97
3628323--3628544	120	1.9	119	96	0	408	41	2	6	49	1.40
3628494--3628528	18	2.0	17	88	5	52	45	0	0	54	0.99
3628494--3628535	17	2.5	17	85	14	52	45	0	0	54	0.99
3628513--3628751	77	3.2	77	64	18	178	46	3	3	46	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3628482--3628752	143	1.9	147	93	4	478	46	2	3	46	1.34
3628637--3628671	18	2.0	17	88	5	52	45	0	0	54	0.99
3628833--3628927	45	2.1	44	88	1	136	32	27	5	34	1.79
3628906--3628938	16	2.1	16	94	0	57	30	36	0	33	1.58
3630249--3630301	21	2.5	21	78	0	61	33	35	5	24	1.79
3633462--3633524	17	3.5	17	71	12	63	49	14	3	33	1.59
3633456--3633527	37	1.9	37	97	0	135	47	16	2	33	1.61
3633460--3633544	37	2.3	37	88	8	120	48	15	3	32	1.62
3633656--3633732	38	2.0	38	94	0	136	18	2	25	53	1.57
3634107--3634152	20	2.3	20	88	7	67	50	15	6	28	1.69
3634868--3634900	14	2.3	15	89	5	50	30	3	33	33	1.73
3636417--3636865	147	3.1	147	79	3	370	25	15	22	35	1.94
3636530--3636865	146	2.3	147	83	3	399	26	16	22	35	1.94
3639133--3639298	13	12.5	13	72	8	120	40	9	4	45	1.55
3639134--3639288	80	1.9	79	79	7	170	41	8	4	45	1.54
3639157--3639307	54	2.8	54	92	1	250	41	9	3	45	1.55
3639637--3639902	16	15.9	16	70	17	152	45	20	2	31	1.63
3639660--3639906	9	28.8	9	74	14	209	45	20	2	31	1.63
3639631--3639917	25	11.1	25	76	11	240	45	20	2	31	1.64
3643813--3644903	544	2.0	544	99	0	2164	32	17	20	29	1.95
3646297--3646449	43	3.5	43	81	6	166	28	18	26	25	1.98
3647398--3647455	22	2.6	22	78	5	64	58	8	13	18	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3649028--3649095	24	2.8	25	77	20	74	22	11	4	61	1.47
3662812--3662857	16	2.9	16	76	0	56	43	4	26	26	1.73
3668097--3668224	63	2.0	62	82	5	150	19	17	25	37	1.93
3670015--3670070	26	2.2	26	90	6	87	41	25	21	12	1.88
3671500--3671565	24	2.7	26	73	20	70	65	3	4	27	1.27
3673215--3673482	87	3.1	87	88	1	369	25	23	21	30	1.99
3674701--3674738	7	5.4	7	87	9	51	13	18	0	68	1.21
3675089--3675123	6	5.8	6	90	9	54	0	20	0	80	0.72
3675176--3675279	6	16.8	6	76	13	61	13	7	9	69	1.37
3679128--3679157	15	2.0	15	100	0	60	33	6	33	26	1.83
3690653--3690817	41	4.1	39	78	10	161	29	20	24	25	1.99
3704799--3704847	25	2.0	25	95	0	89	20	14	26	38	1.91
3704806--3704860	25	2.2	25	86	0	74	25	16	21	36	1.94
3707247--3707305	29	2.0	30	93	3	102	27	0	6	66	1.17
3719016--3719072	29	1.9	30	86	10	82	12	29	38	19	1.88
3721327--3721390	32	2.1	31	88	5	94	37	4	10	46	1.60
3721883--3721921	17	2.4	17	91	4	62	43	0	7	48	1.31
3721988--3722058	34	2.1	33	85	12	92	49	1	1	47	1.18
3730113--3730162	25	2.0	25	88	7	75	40	6	12	42	1.67
3730300--3730391	37	2.5	37	79	13	100	54	5	3	36	1.40
3743290--3743369	35	2.3	35	84	4	99	21	23	26	28	1.99
3746636--3746826	63	3.0	63	99	0	373	32	10	15	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3752057--3752121	22	3.0	21	82	10	76	29	1	6	63	1.28
3752057--3752121	23	2.9	22	84	11	78	29	1	6	63	1.28
3752216--3752288	33	2.2	33	95	2	130	54	8	15	21	1.66
3767069--3767106	19	2.1	19	85	9	53	68	5	18	7	1.34
3770128--3770197	34	2.1	34	100	0	140	54	14	0	31	1.40
3782048--3782103	10	5.6	10	80	0	67	39	16	1	42	1.58
3782053--3782103	20	2.5	20	90	0	84	39	15	1	43	1.58
3791209--3791253	18	2.5	19	74	25	53	66	0	0	33	0.92
3791224--3791282	30	1.9	32	89	6	95	72	1	1	23	1.02
3800833--3801192	69	5.2	69	77	2	184	22	17	19	40	1.91
3800876--3801139	138	1.9	138	80	0	312	22	16	20	40	1.91
3828881--3828926	19	2.4	19	92	0	74	47	10	10	30	1.73
3831695--3831757	24	2.6	24	78	9	65	44	22	15	17	1.86
3833477--3833540	28	2.3	28	100	0	128	39	26	12	21	1.89
3834412--3834470	16	3.6	17	82	11	63	33	1	3	61	1.23
3834367--3834454	23	3.9	23	73	22	71	29	2	3	64	1.22
3834401--3834476	7	10.9	7	71	10	57	34	2	3	59	1.30
3834440--3834486	14	2.8	17	75	24	55	36	4	0	59	1.17
3843651--3843913	40	6.6	39	86	4	278	25	27	21	25	1.99
3843651--3843913	120	2.2	119	82	4	307	25	27	21	25	1.99
3843845--3843922	40	1.9	41	82	10	97	26	28	20	24	1.99
3849958--3850141	87	2.1	89	83	8	225	31	18	22	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3849836--3850615	220	3.6	219	90	2	1160	31	18	22	27	1.98
3850172--3850332	89	1.8	87	90	2	259	31	18	22	27	1.97
3850902--3850934	17	1.9	17	93	0	57	51	33	0	15	1.43
3851448--3851510	28	2.2	28	97	0	117	39	26	14	19	1.90
3851459--3851520	28	2.4	25	86	10	81	37	24	17	20	1.94
3852371--3852449	14	5.4	14	77	14	79	32	1	3	62	1.21
3852337--3852424	23	3.9	22	75	20	83	28	1	3	67	1.14
3852371--3852455	7	11.7	7	73	12	64	32	1	3	62	1.20
3852372--3852453	29	2.8	29	79	5	85	32	1	3	62	1.21
3852405--3852469	29	2.2	29	83	8	78	33	3	1	61	1.21

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