genome.fa.s23.2.7.7.80.10.50.1000.40.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  40  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)
12199213--12199561	147	2.4	147	95	1	612	39	21	14	24	1.91
12199621--12199648	14	2.0	14	100	0	56	57	7	21	14	1.61
12199540--12199724	89	2.1	88	83	7	239	37	18	17	25	1.93
12199636--12200089	73	6.2	73	97	0	827	33	23	16	26	1.96
12199636--12200672	146	6.9	146	86	8	1177	34	23	16	25	1.95
12200070--12200104	14	2.5	15	86	13	56	60	5	14	20	1.54
12199997--12200179	89	2.1	86	84	7	235	37	20	16	25	1.93
12199924--12200251	162	2.0	159	88	2	485	34	22	16	26	1.95
12200124--12200323	73	2.8	71	84	2	256	33	21	14	31	1.93
12200124--12200680	72	7.5	72	78	10	271	35	22	15	26	1.94
12199860--12201631	235	7.7	230	75	17	1075	36	20	14	28	1.93
12200329--12200672	72	4.8	72	98	0	661	36	24	15	23	1.94
12200870--12201336	93	5.0	93	97	1	837	41	18	12	28	1.86
12201244--12201617	77	4.9	75	85	7	486	33	19	15	31	1.93
12201245--12201635	149	2.6	150	85	4	522	35	18	15	30	1.92
12201635--12201810	71	2.5	70	84	5	205	33	22	14	28	1.94
12211474--12211603	43	3.0	43	83	0	170	36	24	14	24	1.93
12214638--12214938	150	2.0	150	99	0	593	29	17	28	24	1.97
12216847--12216887	21	2.0	21	90	0	64	29	21	29	19	1.98
12225349--12225393	22	2.0	22	95	0	81	35	8	28	26	1.87
12228299--12228354	24	2.3	24	78	6	69	50	0	5	44	1.25
12231889--12231932	22	2.0	21	83	12	54	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12231925--12231975	22	2.3	22	79	0	57	50	3	3	41	1.39
12233723--12233774	23	2.3	23	79	0	59	21	3	11	63	1.43
12237511--12237576	22	3.0	21	78	20	57	40	0	1	57	1.08
12237532--12237578	22	2.1	23	88	11	71	46	0	2	51	1.13
12248874--12248902	14	2.1	14	100	0	58	6	34	6	51	1.55
12256154--12256182	14	2.0	15	93	6	51	27	6	6	58	1.50
12256511--12256553	19	2.3	19	84	15	63	60	2	4	32	1.30
12256519--12256560	19	2.2	19	83	8	50	61	2	2	33	1.21
12257611--12257635	7	3.6	7	100	0	50	60	0	0	40	0.97
12263790--12263814	4	6.2	4	100	0	50	28	24	24	24	2.00
12264730--12264798	24	2.7	25	77	6	77	39	0	2	57	1.13
12267805--12267899	45	2.1	45	92	0	154	34	20	12	32	1.90
12268260--12268298	18	2.2	17	86	4	51	30	7	2	58	1.39
12270286--12270323	15	2.7	15	84	15	55	71	0	0	28	0.87
12270570--12270613	22	2.0	22	86	4	61	61	4	6	27	1.41
12273694--12273727	18	1.9	17	88	5	50	76	0	20	2	0.92
12274376--12274409	8	4.4	8	88	7	52	88	0	11	0	0.52
12274376--12274409	15	2.3	15	90	10	52	88	0	11	0	0.52
12277946--12277993	24	2.0	24	84	8	62	60	0	2	37	1.09
12277961--12277999	20	1.9	21	85	15	55	56	0	2	41	1.13
12278990--12279032	18	2.4	17	85	14	52	51	0	4	44	1.22
12280127--12281128	154	6.5	154	95	0	1734	29	21	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12289220--12289326	53	2.0	53	96	0	196	37	14	19	28	1.91
12297113--12297139	13	2.1	13	100	0	54	55	7	0	37	1.28
12297280--12297328	25	1.9	26	91	4	82	32	6	20	40	1.77
12300091--12300120	11	2.6	12	94	5	53	86	0	13	0	0.57
12300091--12300120	6	5.2	6	92	8	53	86	0	13	0	0.57
12302552--12302612	29	2.1	28	84	3	77	32	13	14	39	1.85
12302855--12303109	124	2.1	124	91	1	413	29	16	22	31	1.96
12306327--12307477	51	22.2	48	88	8	1216	30	0	21	47	1.53
12306327--12307482	79	14.9	77	86	11	1356	30	0	21	47	1.53
12306530--12307407	28	34.3	21	77	19	316	30	0	21	48	1.50
12306327--12307434	102	10.7	102	90	7	1593	30	0	21	47	1.53
12309836--12309868	3	11.0	3	93	0	57	63	0	36	0	0.95
12313443--12313559	60	2.0	59	81	8	139	42	6	12	37	1.70
12314377--12314535	82	1.9	82	82	2	194	25	14	27	32	1.94
12314734--12314782	24	2.0	24	96	0	89	36	8	6	48	1.58
12323813--12323856	13	3.2	13	81	15	52	59	15	2	22	1.48
12329328--12329417	45	2.0	44	89	8	139	60	5	2	32	1.32
12330043--12330069	14	1.9	14	100	0	54	66	0	0	33	0.92
12329997--12330081	35	2.4	34	74	3	89	58	4	2	34	1.31
12330420--12330444	11	2.3	11	100	0	50	56	0	0	44	0.99
12335635--12335696	30	2.1	31	84	6	83	22	6	12	58	1.58
12342381--12342414	16	2.2	15	89	5	50	55	14	0	29	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12345324--12345353	9	3.2	9	95	4	51	60	0	0	40	0.97
12345314--12345364	24	2.2	22	89	6	75	60	0	1	37	1.08
12345317--12345375	24	2.4	25	80	11	68	59	1	1	37	1.18
12355759--12355804	19	2.4	19	82	17	60	52	8	0	39	1.33
12368757--12368872	45	2.6	46	89	6	168	34	12	22	30	1.92
12368811--12368938	62	2.0	64	91	5	208	33	11	26	28	1.91
12368873--12368979	46	2.4	45	90	4	164	33	14	26	26	1.94
12368766--12368979	107	2.0	107	90	3	342	34	13	24	28	1.93
12370819--12371024	46	4.5	46	93	1	337	28	20	15	35	1.93
12379063--12379155	31	3.1	30	68	22	79	54	15	7	22	1.65
12380377--12380404	14	2.0	14	100	0	56	7	7	0	85	0.73
12384548--12384585	20	1.9	20	84	10	51	21	0	2	76	0.91
12385134--12385164	16	1.9	16	93	0	53	35	6	3	54	1.42
12396483--12396576	24	3.9	24	92	0	152	37	31	11	19	1.88
12396443--12396576	48	2.8	48	84	0	160	35	29	11	22	1.90
12399602--12399683	36	2.3	36	87	4	112	41	37	8	12	1.73
12405865--12406031	46	3.6	48	79	6	200	29	19	28	23	1.98
12413224--12413322	36	2.8	36	85	1	137	39	37	11	12	1.78
12415350--12415380	11	2.8	11	100	0	62	35	25	0	38	1.56
12418612--12418789	27	6.6	27	77	6	137	30	28	15	25	1.96
12418612--12418789	54	3.3	54	78	7	164	30	28	15	25	1.96
12419995--12420104	1	110.0	1	97	0	202	0	0	0	98	0.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12420880--12420958	33	2.4	32	79	6	86	26	22	13	36	1.92
12420901--12421095	105	1.9	102	82	5	248	27	22	15	34	1.95
12422742--12422909	46	3.6	46	81	8	157	26	17	30	25	1.97
12422836--12422954	45	2.7	45	89	3	170	26	16	29	26	1.97
12425072--12425154	41	2.0	41	92	0	139	34	15	16	32	1.91
12430431--12430507	33	2.3	32	80	10	84	27	22	16	33	1.95
12430428--12430616	105	1.8	105	82	4	247	28	23	14	33	1.94
12440955--12441011	26	2.1	28	90	6	91	19	19	1	59	1.46
12445284--12445341	27	2.1	27	93	0	98	50	1	24	24	1.59
12448278--12448342	27	2.4	27	80	14	64	40	4	0	55	1.21
12448378--12448419	13	2.9	14	80	13	50	52	0	2	45	1.13
12448437--12448507	15	4.6	15	72	16	56	49	0	1	49	1.09
12448453--12448489	19	1.9	19	88	0	56	48	0	0	51	1.00
12448969--12448999	14	2.3	14	94	5	55	45	9	0	45	1.36
12449668--12449715	22	2.2	22	81	7	53	35	2	14	47	1.56
12460894--12461001	34	3.2	34	88	2	157	31	24	18	25	1.97
12466356--12466729	186	2.0	186	92	1	615	30	18	13	37	1.89
12469721--12470005	67	4.2	68	79	8	246	24	19	15	40	1.91
12471639--12471676	3	12.7	3	100	0	76	31	0	0	68	0.90
12471881--12471930	21	2.3	21	83	13	57	58	6	0	36	1.23
12476914--12477066	76	2.0	76	94	2	272	32	21	17	28	1.96
12478861--12478925	3	23.0	3	72	17	50	61	4	0	33	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12478860--12478920	30	2.0	31	87	3	88	59	4	0	36	1.19
12483928--12483956	11	2.7	11	94	5	51	17	0	17	65	1.27
12486072--12486180	20	5.4	20	74	4	112	30	22	33	13	1.93
12486072--12486194	40	3.1	40	83	4	151	30	21	32	15	1.94
12486072--12486216	40	3.6	40	81	7	118	33	20	31	15	1.93
12490819--12490858	13	3.1	13	85	0	53	20	30	32	17	1.95
12491414--12491448	17	2.1	17	100	0	70	28	22	25	22	1.99
12502472--12502498	13	2.1	13	100	0	54	14	37	33	14	1.88
12503122--12503250	49	2.6	50	78	6	138	31	17	27	24	1.97
12503019--12503287	142	1.9	138	81	6	315	28	16	27	26	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