genome.fa.s23.2.7.7.80.10.50.1000.32.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  32  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)
9612685--9613111	143	3.0	143	83	4	391	29	18	22	29	1.97
9613287--9613317	16	1.9	16	100	0	62	12	29	25	32	1.93
9616032--9616103	37	1.9	37	88	5	110	34	1	1	62	1.13
9620342--9620398	29	2.0	29	92	0	96	52	5	10	31	1.58
9621025--9621063	3	12.7	3	89	5	60	66	2	2	28	1.18
9621064--9621179	59	2.0	60	94	1	207	60	10	15	13	1.59
9623055--9623234	44	4.1	44	81	2	200	25	20	22	32	1.97
9627512--9627614	46	2.2	48	84	3	138	34	13	24	27	1.93
9634910--9635012	48	2.2	46	87	3	143	35	14	24	25	1.93
9638693--9638731	19	2.0	20	85	5	53	46	5	20	28	1.72
9642457--9642495	3	12.7	3	89	5	60	66	2	2	28	1.18
9642540--9642587	22	2.1	23	81	11	55	72	2	8	16	1.18
9644941--9645030	40	2.2	40	84	0	117	31	10	21	37	1.86
9648115--9648201	38	2.4	35	83	11	97	36	0	19	43	1.51
9648142--9648212	19	3.7	19	67	16	56	35	0	22	42	1.54
9648129--9648206	38	2.0	40	90	7	124	34	0	25	39	1.56
9648593--9648618	7	3.7	7	100	0	52	57	11	0	30	1.34
9648750--9649259	126	4.0	126	86	2	655	37	16	17	28	1.92
9652429--9652519	29	3.2	29	87	1	130	26	15	29	28	1.96
9656950--9657084	48	2.8	47	85	4	173	54	6	8	31	1.56
9657222--9657267	22	2.1	22	91	0	74	39	0	15	45	1.46
9657222--9657259	11	3.5	11	100	0	76	34	0	18	47	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9661179--9661236	29	2.0	30	89	3	91	51	0	0	48	1.00
9661179--9661236	30	2.0	29	86	10	82	51	0	0	48	1.00
9661198--9661249	21	2.5	22	81	9	63	53	0	0	46	1.00
9661217--9661264	18	2.5	18	83	10	51	56	0	2	41	1.11
9662284--9662327	20	2.2	20	95	0	79	50	13	9	27	1.72
9662960--9663147	87	2.2	87	83	0	232	35	16	20	28	1.94
9666368--9666515	53	2.8	53	84	0	188	37	10	22	29	1.88
9666635--9666800	61	2.7	61	87	0	242	33	13	24	28	1.93
9675557--9675617	17	3.5	17	76	10	61	73	0	3	22	0.97
9675557--9675620	22	2.8	22	79	11	67	75	0	3	21	0.95
9676422--9676448	13	2.1	13	100	0	54	7	33	37	22	1.82
9681144--9681293	45	3.4	45	73	9	137	37	14	21	26	1.92
9682854--9683059	63	3.3	63	82	2	263	25	22	28	23	2.00
9687940--9687969	15	2.0	15	100	0	60	26	6	0	66	1.16
9687943--9687976	15	2.3	15	89	0	50	32	2	0	64	1.08
9688600--9688704	50	2.1	50	85	7	142	43	22	8	24	1.81
9691975--9692012	9	4.2	9	83	9	51	26	0	0	73	0.83
9694820--9694872	20	2.6	21	79	11	65	62	1	0	35	1.06
9695765--9695797	14	2.2	16	89	10	52	27	3	6	63	1.32
9696918--9696978	21	3.0	20	81	6	79	54	0	0	45	1.00
9698768--9698835	31	2.2	31	84	5	93	47	14	5	32	1.69
9701912--9702174	130	2.0	130	98	0	508	41	5	18	34	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9705238--9705313	40	1.9	40	86	0	107	21	13	31	34	1.91
9720289--9720321	13	2.6	13	90	4	50	39	0	12	48	1.40
9723282--9723341	30	2.0	30	93	0	102	40	6	25	28	1.80
9730318--9730845	263	2.0	263	100	0	1056	28	26	21	23	1.99
9733271--9733374	5	20.4	5	71	21	58	18	5	1	74	1.12
9733271--9733324	9	6.2	9	75	16	60	20	1	1	75	0.98
9733274--9733374	12	8.8	11	73	17	57	17	5	1	74	1.12
9733269--9733329	25	2.5	25	87	10	83	19	3	1	75	1.03
9735197--9735236	21	1.9	21	84	0	53	57	17	22	2	1.52
9737212--9737241	13	2.3	13	94	0	51	20	23	16	40	1.91
9739125--9739169	23	2.0	23	86	0	63	28	11	20	40	1.86
9739316--9739393	40	2.0	40	86	0	111	19	15	32	33	1.93
9742009--9742055	24	2.0	24	83	8	60	14	2	23	59	1.46
9753186--9753217	16	2.0	16	100	0	64	37	12	18	31	1.88
9757437--9757461	13	1.9	13	100	0	50	8	32	40	20	1.81
9767907--9767972	34	1.9	34	96	0	123	34	15	9	40	1.78
9773020--9773190	46	3.7	45	79	12	177	23	29	18	27	1.98
9773531--9773588	30	1.9	30	92	0	98	27	22	15	34	1.94
9775971--9776141	46	3.7	45	79	12	177	23	29	18	27	1.98
9776482--9776539	30	1.9	30	92	0	98	27	22	15	34	1.94
9783751--9783831	4	19.8	4	74	5	63	6	24	3	65	1.32
9789460--9789505	18	2.6	19	80	13	53	56	8	0	34	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9796529--9796572	17	2.6	17	89	7	63	43	9	0	47	1.35
9800940--9800974	16	2.2	17	90	10	56	0	28	0	71	0.86
9800940--9800978	15	2.6	16	88	8	55	0	28	0	71	0.86
9800987--9801016	15	1.9	16	93	6	53	16	13	3	66	1.37
9804790--9804867	37	2.1	38	95	2	140	20	20	15	43	1.88
9805658--9805732	36	2.1	36	89	0	114	37	2	18	41	1.65
9805790--9805968	71	2.5	70	83	3	216	24	21	22	31	1.98
9810301--9810668	35	10.5	35	84	0	434	31	25	12	30	1.93
9815158--9815520	35	10.6	34	81	5	351	31	24	13	30	1.93
9815160--9815520	70	5.3	70	82	5	398	31	24	13	30	1.93
9815161--9815520	105	3.5	105	84	4	441	31	25	13	30	1.93
9816338--9817081	372	2.0	372	100	0	1488	33	18	6	41	1.77
9821499--9821577	36	2.2	36	88	6	117	32	1	20	45	1.59
9821631--9821844	70	3.1	70	81	5	245	25	23	21	29	1.99
9824419--9824521	44	2.3	43	84	11	129	33	26	15	25	1.95
9832274--9832311	20	1.9	20	84	10	51	36	23	2	36	1.69
9848127--9848174	25	1.9	25	91	0	78	37	22	2	37	1.66
9848820--9848883	31	2.1	31	100	0	128	28	20	17	34	1.95
9849536--9849923	193	2.0	194	95	1	706	27	25	15	31	1.96
9850108--9850487	190	2.0	190	100	0	760	27	22	14	35	1.93
9854272--9854302	16	1.9	16	93	0	53	41	35	6	16	1.74
9856857--9856954	30	3.3	30	92	0	160	19	5	50	25	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9857474--9857518	21	2.1	21	87	0	63	28	31	8	31	1.88
9857588--9857793	87	2.4	87	83	4	236	35	19	15	30	1.92
9857731--9858202	103	4.9	97	78	12	404	39	17	16	26	1.91
9857988--9858023	14	2.6	14	95	0	63	58	5	11	25	1.54
9857832--9858115	92	3.1	92	83	6	371	39	16	15	27	1.90
9857633--9858202	286	2.0	282	83	6	722	39	17	16	26	1.90
9858151--9858500	75	4.7	75	86	5	471	33	21	15	30	1.94
9858151--9858567	148	2.7	147	83	8	496	32	21	15	29	1.94
9858670--9858714	13	3.4	13	87	6	72	68	6	11	13	1.37
9858498--9858858	100	3.7	101	86	6	450	37	20	18	24	1.94
9858683--9858858	90	2.0	87	87	3	253	36	21	18	23	1.95
9869258--9869375	58	2.0	58	98	0	227	47	16	10	26	1.78
9870674--9870733	25	2.4	26	80	8	79	56	1	5	36	1.31
9870763--9870808	25	1.9	23	91	8	74	63	0	2	34	1.07
9870782--9870813	15	2.1	15	94	0	55	71	0	0	28	0.86
9871283--9871381	30	3.3	30	88	0	162	19	6	48	26	1.72
9874791--9874821	16	1.9	16	93	0	53	41	35	6	16	1.74
9876788--9876852	21	3.2	20	68	27	57	50	7	24	16	1.71
9876775--9876853	39	2.0	39	92	4	133	54	6	25	13	1.63
9885389--9885608	46	4.7	46	80	8	187	23	30	18	27	1.98
9891140--9891176	19	1.9	19	100	0	74	27	21	13	37	1.91
9895759--9895813	23	2.4	22	84	9	65	27	0	5	67	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9896827--9896853	13	2.1	13	100	0	54	25	14	7	51	1.68
9897097--9897155	31	1.9	31	93	3	102	35	13	16	33	1.88
9903855--9903928	17	4.2	17	70	24	55	25	2	6	64	1.31
9904007--9904054	24	2.1	24	84	7	64	47	2	0	50	1.12
9907567--9907610	18	2.4	18	92	0	70	38	6	20	34	1.79
9915161--9915203	14	2.7	15	82	17	52	39	0	2	58	1.11
9923252--9923307	18	3.1	18	82	5	60	21	32	12	33	1.91
9938442--9938488	22	2.1	22	84	7	60	38	0	27	34	1.57
9940573--9940625	20	2.6	20	80	17	56	60	0	1	37	1.08
9940587--9940624	13	2.9	13	80	11	51	63	0	0	36	0.95

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