genome.fa.s23.2.7.7.80.10.50.1000.35.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  35  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)
10629890--10629922	12	2.6	13	85	9	50	9	45	0	45	1.35
10630990--10631054	28	2.3	28	89	0	94	33	26	9	30	1.88
10631160--10631249	27	3.2	28	78	7	103	20	24	23	32	1.98
10631170--10631260	27	3.2	28	79	4	85	21	26	19	31	1.98
10631160--10631274	55	2.1	56	80	8	128	19	24	21	34	1.96
10631713--10631751	19	2.1	19	85	0	51	15	5	7	71	1.26
10633825--10633977	52	2.9	52	83	4	200	30	27	17	24	1.97
10638236--10638266	16	1.9	16	100	0	62	35	25	0	38	1.56
10638510--10638820	55	5.7	55	79	6	312	22	24	17	35	1.96
10638510--10638820	110	2.8	110	94	1	529	22	24	17	35	1.96
10638508--10638819	165	1.9	161	82	6	387	23	24	17	34	1.96
10644275--10644392	52	2.2	52	83	4	157	30	28	16	24	1.96
10646023--10646135	41	2.7	43	80	14	121	28	28	19	23	1.98
10652622--10653066	49	8.9	49	79	6	446	26	17	24	31	1.97
10652621--10653070	150	3.0	150	98	0	864	26	17	25	31	1.97
10655620--10655658	15	2.5	15	91	4	60	15	12	15	56	1.68
10661627--10661700	30	2.4	31	90	4	123	29	25	18	25	1.98
10661724--10661815	42	2.2	42	94	0	157	40	21	10	27	1.87
10661960--10662108	26	5.8	26	89	0	221	26	21	23	28	1.99
10662158--10662213	11	5.5	11	71	16	57	32	19	10	37	1.86
10662158--10662233	40	1.9	38	84	10	100	34	18	9	38	1.83
10662158--10662214	20	2.8	20	97	0	105	33	19	10	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10662915--10662992	27	2.9	28	79	9	81	23	23	19	34	1.96
10663133--10663340	80	2.6	81	83	2	231	28	8	22	40	1.83
10663023--10663345	27	12.0	27	77	7	217	30	8	20	39	1.83
10663333--10663568	27	8.7	27	87	0	292	41	10	20	27	1.85
10663304--10663581	81	3.4	81	81	3	299	39	9	20	30	1.84
10667232--10667339	26	4.2	26	91	0	180	32	6	24	37	1.81
10673694--10673801	26	4.2	26	93	0	189	32	7	24	36	1.83
10677816--10677840	13	1.9	13	100	0	50	48	8	0	44	1.32
10679162--10679203	20	2.2	19	83	12	50	61	2	19	16	1.44
10679635--10679665	16	2.0	16	93	6	55	29	0	19	51	1.47
10694165--10694307	77	1.9	77	85	2	198	34	25	18	20	1.96
10696754--10696807	27	2.0	27	96	0	99	62	3	9	24	1.41
10701958--10701999	6	7.0	6	94	0	75	64	0	19	16	1.30
10701958--10702007	18	2.7	18	90	3	82	62	0	22	16	1.33
10705369--10705529	43	3.8	42	76	10	132	31	24	18	25	1.97
10706625--10706662	13	2.9	13	88	0	58	44	23	2	28	1.67
10713088--10713182	44	2.2	41	85	9	129	33	24	16	25	1.96
10715690--10715753	30	2.1	30	94	0	110	31	17	15	35	1.91
10718762--10718806	19	2.4	19	88	0	63	42	22	6	28	1.79
10719776--10719810	15	2.2	16	95	5	63	31	22	17	28	1.96
10724468--10724511	20	2.2	20	87	4	61	52	18	27	2	1.57
10742782--10742959	27	6.6	27	84	3	205	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10742803--10742958	82	1.9	81	88	3	233	29	28	15	26	1.96
10746296--10746473	27	6.6	27	81	6	171	29	28	15	27	1.96
10750099--10750224	34	3.7	34	78	1	110	28	23	19	27	1.99
10750215--10750271	18	3.2	18	85	9	89	40	17	19	22	1.91
10757184--10757242	23	2.6	23	79	15	61	44	15	5	35	1.68
10757819--10757951	54	2.5	54	100	0	266	35	22	15	26	1.94
10760021--10760114	43	2.2	43	86	1	127	35	25	13	25	1.93
10760002--10760114	42	2.7	42	81	1	127	34	25	14	25	1.94
10764275--10764450	48	3.7	48	90	1	257	18	17	27	35	1.94
10776524--10776553	12	2.5	12	100	0	60	53	26	0	20	1.46
10778831--10778860	12	2.5	12	100	0	60	53	26	0	20	1.46
10788139--10788184	15	3.2	15	76	17	53	34	10	0	54	1.36
10790047--10790219	43	4.0	43	77	11	176	21	17	27	33	1.96
10794840--10794917	40	2.0	39	94	2	138	19	21	33	25	1.97
10794849--10794933	40	2.2	40	82	6	102	22	24	31	21	1.98
10795166--10795215	25	2.0	24	84	3	64	26	12	34	28	1.92
10795203--10795362	29	5.5	29	63	11	94	23	19	26	30	1.98
10795232--10795389	29	5.4	29	62	8	79	22	18	29	29	1.97
10795200--10795426	58	3.9	58	90	0	366	22	19	29	29	1.98
10799007--10799163	78	2.0	78	82	7	194	21	21	25	31	1.98
10799007--10799163	38	4.0	38	85	5	172	21	21	25	31	1.98
10801847--10801928	43	1.9	43	97	0	155	45	12	8	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10801847--10801918	23	3.3	23	64	18	62	43	12	8	36	1.73
10806334--10806446	43	2.7	43	78	12	135	29	24	18	27	1.98
10810365--10810398	16	2.1	16	88	0	50	50	14	17	17	1.79
10813199--10813239	21	2.0	21	90	0	64	29	21	29	19	1.98
10815145--10815178	16	2.1	16	88	0	50	50	14	17	17	1.79
10823234--10823266	7	4.7	7	92	0	57	30	0	0	69	0.88
10825994--10826033	20	2.0	20	100	0	80	40	30	5	25	1.77
10833288--10833330	20	2.3	18	84	8	50	58	2	11	27	1.46
10839456--10839548	29	3.2	29	75	13	109	16	34	0	49	1.46
10839727--10840016	143	2.0	145	87	2	424	33	6	17	42	1.75
10846985--10847020	17	2.1	17	94	0	63	36	19	2	41	1.66
10848037--10848071	17	2.0	18	88	5	54	65	5	0	28	1.15
10849459--10849709	95	2.7	95	85	0	333	35	23	17	23	1.95
10854435--10854465	6	5.2	6	100	0	62	83	0	0	16	0.64
10856601--10856654	20	2.7	20	91	0	90	24	31	24	20	1.98
10865619--10865663	23	2.0	23	86	0	63	33	13	24	28	1.93
10865642--10865712	28	2.5	28	83	0	97	39	19	18	22	1.92
10866132--10866276	47	3.1	47	95	1	263	27	11	28	32	1.92
10870561--10870606	21	2.2	21	92	0	74	32	32	19	15	1.93
10872524--10872560	15	2.5	15	91	8	58	54	0	0	45	1.00
10875707--10875877	93	1.8	93	96	0	315	28	29	21	21	1.98
10875699--10875874	46	3.8	46	80	12	225	28	28	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10877934--10878200	27	9.9	26	82	4	214	31	25	14	28	1.95
10877945--10878200	54	4.7	53	80	6	248	32	26	14	26	1.95
10880862--10880894	16	2.1	16	88	5	50	48	0	45	6	1.27
10880943--10880971	14	2.0	15	93	6	51	41	0	48	10	1.37
10882565--10882651	27	3.2	27	72	18	81	21	21	20	35	1.96
10882565--10882640	29	2.8	29	78	15	90	23	21	19	35	1.96
10889842--10889938	26	3.8	26	93	1	153	27	22	22	26	1.99
10889988--10890062	20	3.8	20	93	6	120	36	18	9	36	1.83
10889988--10890043	11	5.5	11	75	16	66	33	19	10	35	1.87
10889988--10890061	9	7.5	10	74	17	66	35	18	9	36	1.84
10898079--10898145	26	2.6	25	79	6	71	31	23	19	25	1.98
10898195--10898261	20	3.3	20	91	4	109	34	17	10	37	1.85
10898195--10898250	11	5.5	11	71	16	57	33	17	10	37	1.85
10898297--10898344	25	1.9	25	86	0	69	27	18	22	31	1.97
10931859--10931907	22	2.2	23	82	10	57	26	18	0	55	1.43
10932311--10932342	12	2.6	12	95	5	55	9	9	0	81	0.88
10941986--10942032	23	2.1	23	84	11	62	29	0	14	55	1.40
10944493--10944550	20	2.9	21	74	7	57	58	3	1	36	1.25
10947604--10947644	19	2.0	21	86	9	59	46	2	2	48	1.28
10954291--10954342	26	2.0	26	100	0	104	46	11	7	34	1.69
10954928--10955066	55	2.5	55	78	0	152	12	27	30	28	1.93
10965720--10965780	30	2.0	30	90	0	95	31	24	8	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10969749--10970011	46	5.7	46	90	2	368	23	23	14	39	1.91
10972424--10972483	30	2.0	30	93	0	102	38	6	25	30	1.81
10972905--10973257	46	7.7	46	100	0	706	21	22	28	28	1.99
10973926--10974042	59	2.0	58	96	1	216	50	11	12	24	1.74
10976382--10976517	51	2.7	51	81	0	173	39	6	11	42	1.66
10976425--10976498	17	4.4	17	68	19	55	39	6	10	43	1.66
10978200--10978489	96	3.0	96	92	0	454	35	17	33	12	1.88
10979396--10979531	51	2.7	51	80	0	164	39	6	11	41	1.68
10983968--10984027	30	2.0	30	93	0	102	38	6	25	30	1.81
10984953--10985035	42	2.0	42	97	0	157	31	15	20	32	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