genome.fa.s10.2.7.7.80.10.50.1000.30.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  30  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)
9343034--9343077	18	2.4	18	96	3	79	38	22	6	31	1.81
9346965--9347035	31	2.3	31	78	4	81	40	8	11	39	1.71
9352611--9352670	28	2.2	26	77	11	66	28	23	11	36	1.90
9352625--9352687	28	2.2	28	91	0	99	30	25	11	33	1.90
9356265--9356309	17	2.7	17	96	3	83	60	0	0	40	0.97
9356279--9356319	13	3.2	13	80	16	50	60	0	0	39	0.96
9356265--9356322	8	6.7	9	84	13	77	58	0	0	41	0.98
9356911--9357135	114	2.0	114	90	0	360	28	14	27	29	1.95
9357648--9357724	18	4.1	18	74	12	73	20	22	15	41	1.90
9357666--9357722	22	2.4	24	80	11	64	21	19	14	45	1.85
9359089--9359264	46	3.8	46	79	12	207	21	21	28	28	1.98
9359086--9359257	93	1.8	93	94	0	308	21	21	29	27	1.99
9368231--9368268	20	1.9	20	84	10	51	52	13	2	31	1.54
9373693--9373984	26	11.2	26	98	0	539	35	23	6	33	1.82
9377490--9377560	37	1.9	37	91	0	115	23	19	29	26	1.98
9378658--9378715	30	1.9	31	96	3	109	37	3	17	41	1.66
9378658--9378723	30	2.2	31	91	2	107	34	4	16	43	1.68
9378844--9379035	40	4.8	40	92	0	303	23	21	29	25	1.99
9381049--9381153	53	2.0	53	98	0	201	23	11	27	37	1.89
9382311--9382419	51	2.1	51	84	3	148	38	11	25	24	1.88
9383021--9383315	47	6.1	47	84	7	356	31	12	29	26	1.93
9383021--9383315	100	3.0	98	90	3	454	31	12	29	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9383043--9383315	147	1.8	149	87	3	406	31	12	29	26	1.93
9383289--9383379	46	2.0	46	84	0	119	32	9	31	25	1.89
9383524--9384372	37	22.9	37	99	0	1662	21	18	32	26	1.97
9385192--9385222	16	1.9	16	93	0	53	25	0	41	32	1.56
9385235--9385367	7	17.9	7	67	14	52	19	1	30	48	1.58
9385295--9385374	15	5.2	15	72	10	63	21	0	30	48	1.50
9386820--9386884	32	2.0	32	100	0	130	21	18	12	47	1.81
9388416--9388559	9	16.6	9	71	9	77	47	16	0	35	1.52
9388426--9388493	33	2.1	33	91	0	109	52	13	1	32	1.49
9388400--9388559	85	1.9	88	86	4	236	47	15	0	36	1.51
9390205--9390312	26	4.2	26	93	0	189	32	7	24	36	1.83
9400772--9400800	14	2.0	15	93	6	51	68	6	13	10	1.37
9401659--9401709	20	2.5	20	83	0	57	19	39	21	19	1.93
9407236--9407284	23	2.1	23	85	7	64	18	6	30	44	1.74
9411641--9411681	21	1.9	22	90	5	66	39	19	9	31	1.84
9417051--9417110	10	6.0	10	84	11	79	68	1	8	21	1.25
9424017--9424246	76	3.0	75	84	3	282	34	18	20	26	1.96
9423964--9424246	152	1.9	152	81	3	354	35	18	19	25	1.95
9428050--9428474	144	3.0	144	90	1	629	30	15	24	28	1.96
9431513--9431625	40	2.8	41	83	6	149	35	24	22	17	1.95
9431513--9431645	40	3.3	41	81	5	110	34	24	22	18	1.96
9431987--9432036	18	2.7	18	84	9	66	46	4	2	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9432455--9432486	15	2.1	15	94	0	55	59	0	9	31	1.29
9432458--9432525	24	2.8	23	76	10	64	57	0	4	38	1.19
9438951--9439007	18	3.2	18	89	0	87	33	17	22	26	1.96
9439659--9439698	20	2.0	20	95	0	71	17	20	17	45	1.86
9440383--9440506	62	2.0	62	98	0	239	27	20	14	37	1.91
9443089--9443216	9	13.6	9	75	9	112	45	22	0	31	1.58
9443107--9443183	39	2.0	39	97	0	145	44	23	0	32	1.54
9443102--9443214	57	2.0	57	85	0	154	44	24	0	30	1.60
9447107--9447144	14	2.7	14	84	8	51	31	7	7	52	1.59
9449047--9449128	31	2.5	33	80	7	96	14	2	19	63	1.41
9449205--9449368	43	3.8	43	93	2	276	23	31	20	25	1.98
9450015--9450136	55	2.2	56	85	4	167	40	18	9	31	1.83
9457578--9457614	9	4.2	9	86	6	58	2	18	0	78	0.87
9457578--9457614	13	2.8	13	84	15	58	2	18	0	78	0.87
9458217--9458257	16	2.6	16	85	11	50	9	17	0	73	1.09
9458918--9458987	21	3.3	21	70	18	63	21	35	17	25	1.95
9459258--9459354	48	2.0	48	91	0	158	21	13	17	47	1.82
9466336--9466417	42	2.0	42	82	4	103	15	31	28	24	1.96
9467588--9467630	19	2.4	18	88	7	61	65	4	20	9	1.40
9469040--9469087	25	2.0	24	84	12	62	60	2	2	35	1.20
9487426--9487454	13	2.2	13	100	0	58	58	0	0	41	0.98
9487429--9487458	7	4.4	7	91	8	53	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9491576--9491618	13	3.3	13	90	0	59	55	20	11	11	1.66
9491614--9491678	29	2.2	29	81	5	69	49	21	21	7	1.74
9491777--9491832	28	2.0	28	96	0	103	42	8	14	33	1.77
9493478--9493542	3	21.7	3	75	12	62	38	1	0	60	1.07
9493476--9493542	21	3.3	20	79	12	84	40	1	0	58	1.07
9493474--9493531	18	3.1	18	80	9	71	41	1	0	56	1.09
9493621--9493659	19	2.1	18	85	4	51	35	0	2	61	1.10
9493638--9493746	12	9.3	12	66	25	56	32	3	4	59	1.35
9493718--9493757	21	1.9	21	85	10	55	27	5	2	65	1.27
9493920--9493991	25	2.8	26	76	4	83	36	8	6	48	1.60
9493919--9494013	26	3.8	26	76	12	85	34	6	6	52	1.52
9493968--9494028	20	2.9	21	80	9	79	34	4	4	55	1.43
9493984--9494105	26	5.0	24	72	15	99	34	2	6	56	1.38
9494041--9494120	24	3.7	22	75	12	69	36	2	6	55	1.39
9497268--9497362	45	2.1	44	84	1	118	33	5	26	34	1.79
9497524--9497558	18	2.0	17	88	5	52	54	0	0	45	0.99
9497482--9497554	27	2.7	27	76	8	76	52	2	0	45	1.15
9499014--9499262	71	3.5	71	100	0	498	34	15	17	32	1.91
9501590--9501746	72	2.2	72	82	2	190	32	12	25	29	1.93
9512923--9513157	94	2.4	98	83	6	275	25	17	25	31	1.97
9512980--9513186	47	4.4	46	84	3	227	27	16	23	31	1.96
9513308--9513393	42	2.0	42	95	0	154	40	9	23	26	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9520687--9520854	41	3.9	43	73	12	123	29	26	16	26	1.97
9523884--9523945	18	3.4	18	76	12	65	64	3	3	29	1.25
9523876--9523945	36	2.0	34	83	10	88	64	2	2	30	1.22
9527749--9527917	72	2.3	71	78	7	180	31	11	24	31	1.91
9528722--9528752	15	2.1	15	93	0	53	35	3	6	54	1.42
9529424--9529463	18	2.2	19	86	8	57	65	12	2	20	1.38
9530239--9530297	31	2.0	30	83	6	75	50	10	1	37	1.46
9537304--9537390	43	2.0	43	97	0	165	19	31	2	47	1.62
9537320--9537412	43	2.1	43	84	5	116	19	30	3	47	1.65
9537575--9537608	18	1.9	17	88	5	50	29	0	0	70	0.87
9537580--9537621	18	2.3	18	84	12	50	33	2	0	64	1.07
9545906--9546010	53	2.0	53	83	1	131	21	14	9	54	1.68
9546510--9546852	131	2.6	131	84	1	463	27	21	24	26	1.99
9546779--9546894	44	2.6	43	80	8	126	24	19	25	30	1.98
9547978--9548033	25	2.2	24	82	17	62	69	14	12	3	1.31
9548088--9548137	19	2.7	18	78	9	55	36	2	14	48	1.55
9548157--9548241	43	2.0	43	92	0	143	28	7	14	50	1.68
9551657--9551743	43	2.0	43	90	0	138	31	18	20	29	1.96
9551841--9552016	46	3.8	45	77	11	178	21	21	29	27	1.98
9551837--9552009	93	1.9	93	91	2	285	21	21	30	26	1.99
9555648--9555695	19	2.6	19	83	3	62	33	2	16	47	1.58
9558281--9558334	15	3.3	17	80	16	53	35	0	5	59	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9558489--9558562	27	3.0	25	71	19	66	33	4	1	60	1.24
9558670--9558710	4	9.5	4	87	12	55	26	2	0	70	0.99
9562293--9562342	25	2.0	25	100	0	100	52	8	28	12	1.66
9567986--9568015	9	3.3	9	100	0	60	56	0	0	43	0.99
9568667--9568694	6	4.7	6	100	0	56	0	35	0	64	0.94
9568917--9569013	31	3.1	30	86	5	140	38	6	13	42	1.69
9569036--9569100	34	1.9	34	96	0	121	55	16	4	23	1.60
9571660--9572444	2	392.5	2	99	0	1561	50	49	0	0	1.01
9579621--9579670	10	5.0	10	81	13	59	72	2	8	18	1.19
9580430--9580539	41	2.8	40	70	12	93	29	27	17	26	1.97

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