genome.fa.s10.2.7.7.80.10.50.1000.115.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  115  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)
38438383--38438471	7	12.6	7	73	2	61	21	1	30	47	1.58
38438486--38438549	21	3.0	21	76	19	69	21	0	42	35	1.54
38438404--38438549	7	20.9	7	70	13	50	21	0	35	41	1.59
38438657--38438698	16	2.5	17	92	7	68	54	0	0	45	0.99
38438891--38438931	21	1.9	22	90	5	66	24	0	36	39	1.56
38439295--38439339	22	2.0	22	91	8	74	68	4	0	26	1.08
38439342--38439426	39	2.2	39	85	4	109	37	18	22	21	1.94
38440219--38440300	38	2.2	38	86	4	112	20	15	8	54	1.67
38444460--38444547	43	2.0	43	91	0	140	23	17	31	27	1.97
38446290--38446349	12	5.3	11	75	13	50	66	1	0	31	1.01
38446516--38446586	25	2.7	26	76	10	74	56	4	1	38	1.28
38446818--38446853	18	1.9	19	88	5	56	16	0	30	52	1.44
38452546--38452626	42	1.9	42	97	0	153	32	11	13	43	1.79
38456382--38456429	24	2.0	24	84	8	62	20	47	6	25	1.73
38459573--38459614	20	2.1	20	100	0	84	38	9	23	28	1.86
38461647--38461742	48	1.9	50	85	6	133	43	2	3	51	1.29
38461679--38461728	11	4.7	11	74	18	52	44	2	2	52	1.24
38465881--38466281	200	2.0	200	95	0	714	35	10	23	30	1.88
38470162--38470223	27	2.3	27	80	5	63	27	4	16	51	1.64
38470328--38470385	30	1.9	30	92	0	98	31	10	17	41	1.83
38470322--38470373	24	2.2	24	85	0	68	32	11	15	40	1.83
38471082--38471127	12	3.8	12	79	0	56	30	4	17	47	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38473136--38473180	20	2.2	21	77	18	51	42	2	6	48	1.41
38474523--38474570	22	2.2	22	92	0	78	33	8	10	47	1.68
38477562--38477644	43	1.9	43	90	0	130	31	24	19	25	1.98
38478396--38478425	13	2.2	14	94	5	53	53	10	0	36	1.35
38482624--38482759	40	3.4	40	83	4	184	24	20	22	33	1.97
38487838--38487867	6	5.0	6	91	0	51	16	16	63	3	1.44
38493265--38493304	20	2.0	20	85	9	55	72	0	0	27	0.85
38496067--38496096	10	3.0	10	100	0	60	70	20	0	10	1.16
38499960--38499996	14	2.6	14	86	4	56	21	2	16	59	1.49
38501774--38501818	7	5.8	8	86	7	58	55	0	0	44	0.99
38501774--38501808	7	4.9	7	96	3	61	57	0	0	42	0.99
38501774--38501818	14	2.9	15	87	12	65	55	0	0	44	0.99
38503938--38503976	19	2.1	18	85	9	51	48	2	7	41	1.45
38506318--38506357	6	6.7	6	94	0	71	17	50	0	32	1.47
38510879--38510978	33	3.0	33	88	0	137	29	34	30	7	1.84
38510943--38511117	42	4.2	42	78	6	167	37	31	21	9	1.86
38510943--38511117	84	2.1	83	82	8	203	37	31	21	9	1.86
38512341--38512377	16	2.3	16	86	13	58	40	2	0	56	1.13
38512401--38512444	22	2.0	22	86	0	61	47	0	0	52	1.00
38512661--38512697	16	2.3	16	86	13	58	40	2	0	56	1.13
38512721--38512764	22	2.0	22	86	0	61	47	0	0	52	1.00
38512226--38512865	320	2.0	320	100	0	1280	47	3	3	45	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38515642--38515681	16	2.4	17	91	4	64	50	2	0	47	1.14
38518353--38518385	15	2.3	15	89	5	50	42	0	3	54	1.15
38526255--38526309	15	3.7	15	75	7	58	18	1	30	49	1.58
38526256--38526371	53	2.2	52	81	4	142	18	1	29	50	1.57
38526368--38526521	41	3.8	41	85	5	181	19	23	22	34	1.97
38530542--38530591	26	1.9	26	83	0	64	52	2	2	44	1.24
38530845--38530888	23	1.9	23	90	9	72	29	40	13	15	1.86
38532368--38532397	15	2.0	15	93	0	51	66	10	6	16	1.41
38534576--38534724	76	2.0	76	98	0	289	38	14	18	29	1.89
38538002--38538047	23	2.0	23	95	0	83	10	30	23	34	1.89
38549912--38550120	88	2.4	86	80	7	240	36	22	21	19	1.95
38549969--38550123	44	3.6	43	73	6	123	38	22	19	20	1.94
38550240--38550391	44	3.5	44	81	8	143	35	19	23	21	1.96
38550278--38550391	43	2.6	44	88	1	158	35	21	21	22	1.96
38550224--38550476	87	2.9	87	75	8	210	35	19	22	22	1.96
38550585--38550695	43	2.5	44	75	4	109	37	19	17	25	1.93
38553161--38553410	77	3.2	77	100	0	500	30	14	20	36	1.91
38558888--38558968	41	2.0	41	97	0	153	34	30	9	24	1.88
38560661--38560702	19	2.2	19	83	8	50	35	0	4	59	1.19
38560763--38560790	14	2.0	14	100	0	56	28	14	7	50	1.69
38561465--38561497	16	2.1	16	100	0	66	51	18	6	24	1.68
38565756--38565865	43	2.6	42	82	2	139	29	13	25	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38568601--38568656	8	7.0	8	84	8	62	35	0	1	62	1.06
38568610--38568656	3	17.0	3	79	16	57	38	0	0	61	0.96
38570841--38570918	39	2.0	39	100	0	156	33	12	23	30	1.92
38574965--38575018	26	2.1	26	96	0	99	27	12	22	37	1.91
38574991--38575075	35	2.4	35	82	7	102	29	12	23	34	1.92
38576383--38576414	14	2.3	14	94	0	55	46	21	9	21	1.79
38576922--38576954	17	1.9	17	93	0	57	27	9	9	54	1.62
38579259--38579301	15	2.8	15	80	16	52	34	0	4	60	1.17
38579390--38579436	21	2.2	22	84	3	60	12	0	12	74	1.07
38580025--38580281	128	2.0	128	94	0	451	30	18	18	32	1.95
38580847--38581048	6	32.7	6	81	7	199	20	5	13	59	1.55
38583393--38583424	8	4.0	8	91	0	55	46	25	25	3	1.67
38583671--38583729	28	2.1	28	90	0	91	37	23	6	32	1.81
38585839--38586060	67	3.3	66	91	1	336	23	7	18	50	1.72
38586014--38586088	26	2.8	26	84	8	80	29	8	16	46	1.75
38585941--38586188	95	2.6	94	88	5	353	25	7	18	48	1.73
38588242--38588274	17	1.9	17	88	11	50	42	18	0	39	1.50
38588293--38588344	10	5.2	10	90	0	77	28	19	0	51	1.47
38588293--38588341	15	3.3	15	91	0	80	28	20	0	51	1.48
38588293--38588344	5	10.4	5	89	0	68	28	19	0	51	1.47
38589569--38589630	27	2.3	26	78	8	70	51	11	0	37	1.38
38591187--38591243	15	3.7	15	80	17	64	77	0	1	21	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38591192--38591246	11	4.8	11	80	14	67	76	0	1	21	0.88
38591192--38591243	21	2.2	25	87	12	76	76	0	1	21	0.87
38597461--38597522	27	2.3	26	78	8	70	51	11	0	37	1.38
38598646--38598697	21	2.5	21	77	0	59	38	36	11	13	1.81
38599752--38599794	12	3.5	12	80	3	50	2	27	0	69	1.00
38601560--38601594	16	2.2	16	95	5	63	25	5	22	45	1.74
38602883--38602928	24	2.0	24	87	12	69	30	4	0	65	1.12
38602887--38602939	25	2.3	22	78	12	61	28	1	0	69	0.99
38602946--38602994	24	2.0	24	88	4	71	51	4	0	44	1.20
38602953--38602998	23	2.0	24	95	4	85	45	4	0	50	1.21
38602953--38602998	24	2.0	23	91	8	76	45	4	0	50	1.21
38606747--38606774	3	9.3	3	100	0	56	64	0	0	35	0.94
38607718--38607814	47	2.1	47	90	0	149	22	23	25	27	2.00
38607725--38607827	47	2.2	46	82	6	125	23	28	23	25	2.00
38614134--38614210	29	2.6	28	74	10	64	55	2	7	33	1.42
38626847--38626931	24	3.7	23	73	16	70	47	1	2	49	1.22
38626889--38626966	21	3.6	21	71	20	63	48	2	1	47	1.23
38627476--38627500	9	2.8	9	100	0	50	32	0	0	68	0.90
38630106--38630144	18	2.2	17	86	13	53	33	0	20	46	1.51
38630370--38630467	23	4.3	23	89	2	153	21	21	25	31	1.98
38630372--38630460	45	2.0	45	93	0	151	20	22	25	31	1.98
38633110--38633169	30	2.0	30	100	0	120	53	13	10	23	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38633750--38633794	6	7.3	6	80	5	54	22	2	0	75	0.91
38639328--38639356	5	5.8	5	100	0	58	79	0	0	20	0.74
38640568--38640618	22	2.2	22	86	10	66	41	1	0	56	1.10
38643223--38643253	14	2.2	14	94	0	53	35	6	16	41	1.74
38643237--38643278	19	2.2	20	95	4	77	28	9	11	50	1.70
38643363--38643402	20	2.0	20	100	0	80	50	0	0	50	1.00
38643357--38643402	20	2.4	18	83	13	65	47	2	0	50	1.13
38645962--38645987	6	4.3	6	100	0	52	0	53	30	15	1.42
38646460--38646498	14	2.8	14	88	7	53	41	7	17	33	1.79
38646482--38646523	19	2.2	20	95	4	77	30	9	9	50	1.67

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