genome.fa.s23.2.7.7.80.10.50.1000.101.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  101  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)
33398937--33398965	14	2.1	14	100	0	58	41	0	0	58	0.98
33399310--33399343	1	34.0	1	100	0	68	100	0	0	0	0.00
33402345--33402605	46	5.6	47	77	12	222	24	29	18	27	1.98
33402345--33402656	46	6.7	47	76	10	214	24	29	18	27	1.98
33409924--33409983	30	2.0	30	96	0	111	23	5	20	51	1.66
33410341--33410418	41	1.9	41	83	0	102	20	19	19	41	1.91
33412316--33412418	47	2.2	47	80	3	127	38	21	14	25	1.91
33416312--33416383	36	2.0	35	97	2	135	69	11	13	5	1.34
33417908--33417978	21	3.3	21	72	21	58	54	9	2	32	1.48
33419289--33419329	10	4.1	10	84	9	57	24	0	2	73	0.96
33419746--33419789	18	2.5	18	85	3	63	13	0	36	50	1.42
33423262--33423386	62	2.0	62	79	3	135	42	16	4	36	1.67
33424790--33424851	27	2.2	28	82	8	72	51	1	6	40	1.37
33440778--33440995	40	5.5	40	86	4	275	22	22	28	25	1.99
33442555--33442596	17	2.5	17	96	0	75	16	42	26	14	1.86
33444865--33444956	28	3.2	28	67	8	87	27	15	4	53	1.60
33444856--33444968	57	2.0	57	98	0	217	26	13	4	55	1.56
33449979--33450071	46	2.0	46	97	0	177	7	38	18	35	1.79
33453693--33453724	15	2.1	15	94	0	55	28	12	6	53	1.62
33454636--33454704	25	2.7	26	80	13	72	39	2	5	52	1.41
33455049--33455176	41	3.2	41	89	2	197	36	23	21	17	1.95
33455189--33455301	54	2.1	55	80	5	131	51	30	0	17	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33455181--33455311	54	2.7	46	76	18	129	51	29	0	18	1.52
33455263--33455303	22	1.9	22	90	5	66	46	36	0	17	1.48
33456685--33456718	13	2.6	13	90	9	52	35	35	0	29	1.58
33456844--33456873	14	2.1	14	100	0	60	26	36	0	36	1.57
33460985--33461038	6	8.7	6	76	15	56	20	1	3	74	1.07
33461848--33461905	21	2.8	21	75	12	57	44	31	5	18	1.72
33461889--33461947	28	2.1	27	84	9	75	45	28	3	22	1.68
33462171--33462204	18	1.9	18	88	5	52	50	0	0	50	1.00
33462469--33462501	7	4.9	7	85	7	50	45	0	0	54	0.99
33478190--33478414	40	5.6	40	82	3	263	24	21	27	26	1.99
33478194--33478384	83	2.3	80	87	2	256	23	21	28	26	1.99
33489419--33489645	39	5.8	39	90	5	327	23	28	22	25	1.99
33490252--33490566	158	2.0	155	96	2	587	41	22	8	27	1.82
33490808--33491118	156	2.0	156	98	0	595	36	25	16	21	1.93
33497848--33497977	44	2.9	45	86	3	158	29	22	17	30	1.97
33497870--33497982	44	2.6	44	88	0	172	29	27	15	28	1.96
33497937--33498984	132	7.9	132	93	0	1697	28	23	18	29	1.98
33498464--33498644	44	4.1	44	65	16	104	29	23	19	27	1.98
33500347--33500379	6	5.5	6	86	13	50	0	12	3	84	0.72
33500346--33500380	18	1.9	18	100	0	70	0	11	5	82	0.82
33501317--33501377	26	2.3	26	83	5	70	57	4	14	22	1.57
33504426--33504466	16	2.5	16	88	4	55	41	7	9	41	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33504685--33504729	22	2.0	22	83	12	56	51	2	6	40	1.41
33504755--33504804	11	4.2	12	73	12	50	52	0	14	34	1.42
33507793--33507888	46	2.1	45	83	9	115	25	17	20	36	1.94
33517446--33517505	22	2.7	22	73	2	66	30	20	15	35	1.93
33517446--33517513	22	3.0	22	73	6	64	30	19	14	35	1.92
33517565--33517604	22	2.0	21	85	14	57	40	20	12	27	1.88
33519850--33519973	43	2.9	42	87	4	142	37	27	16	18	1.92
33532927--33532971	23	2.0	23	86	8	65	68	6	4	20	1.29
33552430--33552467	8	4.8	8	81	12	51	34	0	0	65	0.93
33552432--33552482	24	2.1	24	82	7	59	31	0	3	64	1.11
33553638--33553688	20	2.7	19	80	19	63	35	0	1	62	1.06
33553641--33553686	19	2.3	20	88	7	67	36	0	2	60	1.09
33557770--33557826	20	2.9	20	81	2	71	57	7	0	35	1.26
33557813--33557855	18	2.4	18	81	11	52	51	2	4	41	1.35
33559841--33559889	25	2.0	25	100	0	98	20	32	22	24	1.98
33562334--33562619	69	4.1	69	81	1	340	21	22	24	32	1.98
33562312--33562619	138	2.2	138	83	1	402	21	22	24	32	1.98
33565803--33565846	18	2.4	19	84	7	63	45	36	13	4	1.64
33567113--33567151	9	4.3	10	81	18	50	33	10	0	56	1.33
33567113--33567151	18	2.2	18	90	9	62	33	10	0	56	1.33
33572565--33572605	20	2.0	20	90	9	66	58	7	2	31	1.38
33573549--33573607	24	2.5	24	77	0	64	13	28	20	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33573510--33573614	24	4.1	23	68	17	57	16	29	23	30	1.96
33574195--33574263	36	1.9	36	93	0	120	50	11	7	30	1.65
33583487--33584173	343	2.0	343	100	0	1374	30	14	18	36	1.91
33597339--33597364	9	2.9	9	100	0	52	11	0	76	11	1.01
33599133--33599255	49	2.6	47	85	5	158	26	30	18	24	1.98
33599322--33599489	46	3.6	46	79	9	146	22	26	20	30	1.98
33602198--33602532	168	2.0	167	98	0	643	25	19	20	34	1.96
33603861--33604043	39	4.7	39	90	0	276	29	26	22	21	1.99
33612283--33612489	53	3.8	53	76	4	209	37	17	24	20	1.94
33616516--33616568	26	2.1	25	82	3	61	16	18	22	41	1.90
33616849--33616934	28	3.0	28	86	3	118	27	29	15	27	1.96
33617145--33617180	16	2.2	16	90	0	54	8	22	16	52	1.70
33618256--33618291	16	2.2	17	90	5	56	13	2	27	55	1.52
33625394--33625514	42	2.9	42	80	4	145	33	16	23	26	1.96
33625685--33625714	15	1.9	16	93	6	53	33	0	26	40	1.57
33648177--33648354	27	6.6	27	83	3	205	26	15	28	29	1.96
33648178--33648333	82	1.9	81	88	3	233	26	15	28	29	1.96
33648174--33648354	82	2.2	81	83	2	229	27	15	27	29	1.96
33656239--33656416	27	6.6	27	83	3	205	26	15	28	29	1.96
33656240--33656395	82	1.9	81	88	3	233	26	15	28	29	1.96
33656236--33656416	82	2.2	81	83	2	229	27	15	27	29	1.96
33660701--33661076	191	1.9	195	87	4	546	35	14	18	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33663874--33663912	12	3.3	12	82	7	53	35	0	2	61	1.10
33665129--33665166	19	2.0	20	89	5	60	60	0	10	28	1.30
33665123--33665171	19	2.6	17	79	17	53	63	0	10	26	1.26
33672182--33672284	46	2.2	47	87	3	145	35	15	24	24	1.94
33672182--33672301	46	2.6	46	85	2	141	35	15	22	25	1.94
33675354--33675453	42	2.4	42	77	1	110	30	20	21	29	1.98
33679848--33680025	27	6.6	27	83	3	205	26	15	28	29	1.96
33679849--33680004	82	1.9	81	88	3	233	26	15	28	29	1.96
33679845--33680025	82	2.2	81	83	2	229	27	15	27	29	1.96
33687738--33688067	174	1.9	174	93	1	572	30	14	24	31	1.95
33692841--33692906	34	1.9	34	93	0	114	22	18	25	33	1.97
33693671--33693724	20	2.7	20	82	0	63	31	5	11	51	1.60
33693901--33693927	14	1.9	14	100	0	54	29	14	22	33	1.94
33698867--33698999	28	4.8	28	87	0	176	35	12	25	26	1.92
33708796--33708841	23	2.0	23	100	0	92	34	13	30	21	1.91
33709679--33709730	21	2.4	21	84	9	61	23	7	25	44	1.79
33712471--33713326	431	2.0	431	92	0	1426	36	21	19	21	1.95
33720032--33720085	20	2.7	20	94	2	90	38	25	22	12	1.90
33722739--33722809	22	3.5	22	71	25	84	60	7	5	26	1.45
33722749--33722809	18	3.3	18	68	4	59	60	8	4	26	1.45
33722739--33722812	37	2.0	37	97	0	139	62	6	5	25	1.42
33727412--33727979	286	2.0	287	91	1	935	38	18	11	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33739136--33739174	20	2.0	20	89	0	60	17	17	5	58	1.56
33739433--33739576	50	2.9	49	79	7	146	22	27	23	27	1.99
33743549--33743590	11	3.7	11	96	3	75	14	0	7	78	0.95
33743549--33743594	12	3.9	12	94	5	85	17	0	8	73	1.07
33743549--33743594	23	2.0	23	100	0	92	17	0	8	73	1.07
33757056--33757290	50	4.7	50	79	6	192	21	28	22	26	1.99
33757162--33757297	50	2.7	50	91	0	209	19	32	22	25	1.98
33757634--33757690	29	1.9	29	85	3	78	29	21	7	42	1.79
33764516--33764753	28	8.5	28	96	0	388	33	28	12	26	1.93
33772840--33772907	29	2.3	29	85	5	93	27	30	13	27	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