genome.fa.s23.2.7.7.80.10.50.1000.94.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  94  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)
31152335--31152489	28	5.6	27	72	18	97	25	18	30	25	1.97
31152539--31152637	32	3.1	32	88	0	126	38	10	21	30	1.86
31157366--31157473	25	4.4	25	88	5	141	27	22	22	27	1.99
31163879--31163986	25	4.4	25	85	6	132	28	22	22	26	1.99
31171939--31171979	22	1.9	22	95	5	75	21	29	39	9	1.86
31172958--31172983	9	2.9	9	100	0	52	57	23	0	19	1.40
31182634--31182750	46	2.5	46	84	6	148	23	31	17	27	1.97
31187827--31187859	14	2.4	14	85	5	50	57	0	9	33	1.30
31198212--31198279	32	2.1	32	94	0	118	32	19	8	39	1.82
31198731--31198788	30	1.9	30	92	0	98	55	15	3	25	1.56
31200480--31200517	16	2.4	16	86	8	51	21	2	2	73	1.07
31200774--31200831	19	3.2	19	61	14	50	39	27	3	29	1.73
31200773--31200840	35	1.9	35	100	0	136	41	26	4	27	1.75
31206069--31206109	16	2.6	16	100	0	82	31	12	4	51	1.60
31207795--31207835	20	2.0	21	85	4	57	70	9	7	12	1.33
31207963--31208009	22	2.2	21	85	11	60	44	0	8	46	1.33
31207963--31208006	23	2.0	22	86	4	61	45	0	9	45	1.35
31209383--31209437	26	2.1	26	93	0	92	18	3	5	72	1.18
31211319--31211367	26	1.9	25	84	12	64	36	0	4	59	1.17
31213665--31213708	5	8.8	5	100	0	88	81	0	0	18	0.68
31220994--31221152	43	3.7	43	77	13	148	33	21	14	30	1.93
31223145--31223289	42	3.4	43	82	5	170	24	15	24	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31224545--31224590	23	2.0	23	95	0	83	45	2	26	26	1.65
31228769--31228806	18	2.2	17	86	9	51	21	7	2	68	1.28
31235488--31235683	48	4.0	48	87	4	286	27	20	26	26	1.99
31236638--31236677	20	2.0	20	95	0	71	10	17	40	32	1.83
31237441--31237497	6	9.8	6	82	3	64	19	0	3	77	0.92
31241445--31241488	15	2.9	15	84	15	56	25	2	0	72	0.96
31250219--31250244	12	2.2	12	100	0	52	23	38	26	11	1.89
31255409--31255469	6	11.6	5	76	20	54	19	1	1	77	0.95
31255409--31255451	9	4.3	9	78	21	50	20	2	0	76	0.89
31255416--31255468	22	2.4	22	87	6	72	20	1	1	75	0.99
31255409--31255462	16	3.5	15	80	14	65	20	1	1	75	0.98
31258046--31258200	42	3.6	43	80	6	127	30	25	18	26	1.98
31261626--31261670	23	1.9	24	86	4	65	24	48	2	24	1.62
31271660--31271817	43	3.7	42	77	12	142	25	18	25	31	1.98
31272546--31272588	11	4.1	10	80	11	50	16	2	27	53	1.55
31279534--31279562	6	5.0	6	91	8	51	34	17	17	31	1.93
31281387--31281414	4	7.0	4	100	0	56	25	0	25	50	1.50
31286440--31286536	41	2.4	41	94	0	167	26	26	22	23	2.00
31290254--31290291	17	2.4	17	86	8	53	23	5	5	65	1.34
31294066--31294190	40	3.2	40	72	13	118	32	22	20	24	1.98
31294078--31294234	76	2.1	76	85	2	208	34	19	21	25	1.96
31298349--31298392	16	2.7	15	80	13	52	75	4	11	9	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31298358--31298392	16	2.1	17	89	5	54	77	5	11	5	1.12
31302657--31302780	63	2.0	63	98	0	239	56	4	10	28	1.53
31304423--31304839	177	2.4	176	87	2	593	29	21	19	29	1.98
31304775--31304882	43	2.5	43	81	3	117	30	22	18	28	1.97
31304952--31305078	64	2.0	64	95	0	227	36	15	18	29	1.92
31311016--31311098	40	2.1	40	95	0	148	15	21	16	45	1.85
31316970--31317013	17	2.5	17	81	3	52	65	2	2	29	1.16
31322525--31322570	19	2.4	19	85	3	56	41	2	13	43	1.55
31326166--31326233	30	2.3	31	80	12	79	22	32	25	20	1.98
31336303--31336343	17	2.4	17	100	0	82	43	12	12	31	1.79
31336303--31336353	17	3.0	17	91	5	68	47	11	11	29	1.76
31341167--31341350	40	4.6	41	81	12	208	25	22	27	25	2.00
31341167--31341350	79	2.3	81	82	11	222	25	22	27	25	2.00
31341219--31341383	79	2.1	79	82	8	194	26	21	27	24	1.99
31349173--31349350	27	6.6	27	83	3	205	26	15	28	29	1.96
31349174--31349329	82	1.9	81	88	3	233	26	15	28	29	1.96
31349170--31349350	82	2.2	81	83	2	229	27	15	27	29	1.96
31349780--31349871	46	2.0	46	100	0	184	23	26	13	36	1.91
31355691--31355729	18	2.2	18	95	0	69	48	5	15	30	1.66
31364163--31364265	22	4.5	22	87	6	143	25	25	19	30	1.98
31364163--31364265	46	2.3	44	88	5	143	25	25	19	30	1.98
31364469--31364549	20	4.0	20	79	7	83	33	4	19	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31364484--31364560	40	1.9	40	86	2	109	32	6	19	41	1.77
31364484--31364582	40	2.5	40	77	12	96	33	6	19	41	1.76
31367766--31367819	20	2.7	20	94	0	90	12	24	37	25	1.91
31369659--31369882	40	5.6	40	87	3	290	24	22	26	26	2.00
31369658--31369882	81	2.8	80	89	2	319	24	22	27	26	2.00
31375811--31375856	24	1.9	24	86	8	67	39	4	15	41	1.67
31379609--31379779	43	4.0	43	76	12	154	28	15	24	30	1.96
31382692--31383057	47	7.7	47	95	1	515	31	8	31	28	1.87
31386837--31387047	40	5.3	40	85	2	248	28	28	20	22	1.99
31389095--31389169	38	2.0	38	86	5	107	30	18	26	24	1.98
31389223--31389586	40	9.1	40	89	0	532	24	21	27	26	1.99
31392920--31393129	47	4.4	47	87	7	291	33	8	30	27	1.87
31393027--31393101	22	3.3	22	65	17	62	32	10	30	26	1.90
31392925--31393129	96	2.2	95	88	3	315	32	8	30	27	1.87
31396213--31396329	6	19.0	6	68	18	62	48	14	17	18	1.81
31396234--31396309	31	2.5	31	86	0	107	47	14	18	19	1.83
31396945--31397165	27	8.2	27	84	3	203	26	20	18	34	1.95
31396946--31397165	54	4.1	54	82	4	255	26	20	17	35	1.95
31396946--31397165	81	2.7	81	82	1	253	26	20	17	35	1.95
31400110--31400176	21	3.2	21	61	23	50	40	26	7	25	1.82
31400099--31400179	42	1.9	42	100	0	162	39	24	8	27	1.84
31400106--31400174	18	3.2	23	61	23	58	39	27	7	26	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31400312--31400429	34	3.6	34	69	23	117	27	18	11	42	1.84
31400328--31400422	30	3.1	30	67	24	88	25	21	12	41	1.88
31401900--31401995	49	2.0	49	100	0	192	37	12	23	26	1.91
31401982--31402171	82	2.4	81	90	4	298	37	14	21	25	1.92
31402123--31402324	28	7.6	27	73	13	170	37	14	23	23	1.92
31402133--31402283	24	6.0	24	74	11	140	40	15	22	21	1.91
31402124--31402309	52	3.6	52	90	0	273	38	15	23	22	1.92
31402343--31402518	51	3.5	51	87	0	244	31	11	25	31	1.92
31402343--31402547	51	4.0	50	82	6	234	31	12	25	30	1.93
31403175--31403208	18	1.9	17	88	5	50	52	11	11	23	1.70
31403196--31403559	6	60.3	6	76	15	324	48	14	17	20	1.80
31403196--31403559	30	12.9	30	76	17	363	48	14	17	20	1.80
31403217--31403541	85	3.9	85	93	4	515	48	13	17	20	1.81
31403677--31403742	27	2.5	26	85	7	87	37	22	22	16	1.93
31403677--31403750	27	2.8	27	78	13	82	36	21	24	17	1.95
31403701--31403758	27	2.1	27	84	6	73	36	27	20	15	1.93
31403915--31403973	22	2.7	22	81	0	64	32	22	25	20	1.98
31404061--31404143	27	3.1	26	87	5	112	37	21	21	19	1.94
31404342--31404537	27	7.3	27	84	0	230	25	19	19	35	1.96
31404344--31404537	81	2.4	81	86	0	262	25	20	18	35	1.95
31404542--31404970	27	15.9	27	88	0	581	41	9	22	27	1.84
31404975--31405069	27	3.5	27	81	5	111	28	7	22	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31407307--31407335	12	2.4	12	100	0	58	27	6	6	58	1.50
31412303--31412401	49	2.0	49	100	0	198	36	10	25	28	1.88
31412456--31412580	24	4.8	27	80	12	154	38	13	22	25	1.91
31412445--31412580	52	2.6	52	91	2	220	36	13	23	25	1.92
31412445--31412595	28	5.7	27	80	13	179	35	13	24	26	1.92
31412614--31412818	51	4.0	51	90	1	286	31	14	23	30	1.94
31422911--31423157	55	4.6	54	79	7	222	35	17	25	21	1.95
31422914--31423159	108	2.3	110	80	9	305	34	17	25	21	1.95
31424723--31424886	43	3.9	42	84	5	197	31	25	15	27	1.96
31424723--31424879	86	1.8	85	85	6	219	30	25	16	27	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