genome.fa.s23.2.7.7.80.10.50.1000.116.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  116  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)
38709521--38709764	126	1.9	126	94	0	425	29	16	15	38	1.89
38714825--38714874	22	2.3	21	80	12	57	48	2	10	40	1.48
38715218--38715252	17	2.0	18	88	5	54	37	0	0	62	0.95
38716232--38716292	23	2.6	22	80	14	70	34	0	1	63	1.04
38717068--38717095	11	2.5	11	100	0	56	57	7	0	35	1.26
38726230--38726280	3	17.0	3	92	8	86	0	33	0	66	0.92
38726502--38726563	22	2.6	22	82	17	72	62	0	0	37	0.95
38747396--38747459	31	2.1	31	85	5	85	45	20	12	21	1.84
38754782--38754834	17	3.2	17	73	24	51	32	0	1	66	1.03
38754790--38754833	12	3.8	12	82	8	56	34	0	2	63	1.07
38754773--38754840	32	2.1	32	84	10	86	29	2	1	66	1.15
38754874--38754976	11	8.6	11	70	27	52	36	3	0	58	1.23
38754897--38754976	23	3.3	23	71	28	67	38	3	0	57	1.17
38754971--38755010	18	2.2	19	86	13	57	22	7	5	65	1.38
38755267--38755310	23	2.0	22	82	13	54	27	6	2	63	1.31
38755400--38755448	24	2.0	26	84	8	66	32	6	4	57	1.42
38756895--38756951	30	1.9	30	85	0	78	7	28	0	64	1.19
38765182--38765216	18	1.9	18	100	0	70	71	0	28	0	0.86
38765185--38765220	4	8.5	4	88	11	54	75	0	25	0	0.81
38767808--38767951	24	6.0	24	68	11	80	20	22	17	39	1.92
38769137--38769312	85	2.1	85	89	4	266	24	32	22	21	1.98
38771316--38771341	13	2.0	13	100	0	52	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38771743--38771783	20	2.0	21	85	4	57	75	0	12	12	1.05
38773212--38773248	13	2.8	13	91	4	56	27	0	21	51	1.48
38778877--38778902	13	2.0	13	100	0	52	53	0	0	46	1.00
38779157--38779193	3	12.0	3	94	5	65	32	2	0	64	1.07
38780778--38780814	13	2.8	13	91	4	56	27	0	21	51	1.48
38781304--38781364	20	3.0	20	82	0	77	18	31	34	16	1.93
38782880--38782976	33	2.9	33	81	6	117	22	14	42	20	1.88
38785372--38785443	16	4.4	16	66	22	51	65	12	0	22	1.26
38785511--38785550	16	2.5	16	91	0	62	37	7	17	37	1.78
38785537--38785623	44	1.9	46	88	9	135	29	4	27	37	1.77
38785705--38785755	26	2.0	25	84	3	66	43	0	3	52	1.19
38785793--38785830	15	2.5	15	86	0	58	55	0	0	44	0.99
38785718--38785854	58	2.4	57	82	4	159	48	2	1	46	1.26
38800531--38800569	17	2.3	17	95	0	69	23	5	12	58	1.54
38804201--38804241	21	2.0	21	90	0	64	17	12	17	53	1.72
38804733--38804769	17	2.2	17	100	0	74	70	10	0	18	1.16
38804877--38804901	12	2.1	12	100	0	50	64	20	0	16	1.30
38806114--38806183	28	2.5	28	86	2	88	50	5	14	30	1.66
38806146--38806874	125	6.0	125	74	13	653	37	15	16	31	1.90
38806350--38806539	102	1.9	103	85	1	265	35	14	14	34	1.87
38806148--38806801	352	1.9	353	87	3	967	38	14	15	31	1.89
38806726--38807027	154	2.0	155	91	0	498	32	17	17	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38806877--38807152	126	2.2	126	88	0	408	34	16	17	31	1.93
38806740--38807066	154	2.1	154	84	3	417	35	15	17	31	1.91
38807772--38807821	24	2.1	24	88	7	75	50	14	16	20	1.78
38810734--38810777	18	2.4	18	88	0	61	45	9	27	18	1.79
38810830--38810927	30	3.3	30	79	0	115	11	14	42	31	1.80
38811424--38811449	7	3.7	7	100	0	52	57	15	0	26	1.38
38816338--38816385	24	2.0	24	95	0	87	4	14	8	72	1.23
38823894--38823933	20	2.0	21	90	9	66	47	0	2	50	1.14
38828382--38828499	42	2.8	42	80	2	121	30	23	16	29	1.96
38835512--38835642	35	3.8	35	75	10	101	43	21	8	26	1.81
38838678--38838712	16	2.2	16	100	0	70	34	11	0	54	1.37
38841695--38841762	10	6.7	10	72	24	54	17	1	2	77	0.96
38841707--38841765	22	2.8	21	73	21	52	18	1	3	76	1.02
38841920--38841964	21	2.2	21	84	7	58	2	11	15	71	1.24
38845342--38845402	25	2.4	25	78	10	70	29	19	19	31	1.97
38864526--38864629	49	2.1	49	94	0	181	43	7	19	29	1.79
38871301--38871433	51	2.6	51	78	0	149	41	12	6	39	1.69
38872322--38872515	96	2.0	96	86	0	271	12	32	17	37	1.88
38872494--38872579	43	2.0	43	97	0	163	29	38	11	20	1.88
38874790--38874863	29	2.5	29	78	14	80	45	14	13	25	1.82
38886385--38886420	11	3.3	11	88	0	54	69	11	0	19	1.18
38886498--38886554	30	1.9	30	96	0	105	33	19	19	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38891135--38891334	102	2.0	101	88	3	294	36	10	19	34	1.86
38898797--38898829	16	2.0	17	88	5	50	3	21	3	72	1.11
38901017--38901121	19	5.5	18	71	16	68	16	23	22	37	1.94
38901019--38901119	39	2.6	39	91	0	166	14	24	21	38	1.92
38902750--38902806	24	2.3	26	82	14	77	22	10	3	63	1.42
38902751--38902816	12	5.6	11	77	12	60	22	10	3	63	1.40
38902787--38902822	11	3.2	11	92	4	54	25	11	0	63	1.27
38902764--38902823	12	4.8	12	76	15	59	23	10	1	65	1.32
38903193--38903491	125	2.4	125	85	2	375	27	15	19	38	1.91
38907810--38907859	17	2.7	20	78	18	70	10	0	44	46	1.37
38912449--38912498	17	2.7	20	78	18	70	10	0	44	46	1.37
38915932--38915956	13	1.9	13	100	0	50	48	0	28	24	1.52
38917648--38917674	3	9.0	3	100	0	54	33	0	0	66	0.92
38919028--38919186	52	3.0	52	79	4	194	28	26	18	25	1.98
38926643--38926672	6	5.0	6	95	0	51	80	3	16	0	0.85
38933098--38933192	44	2.2	44	90	0	145	30	15	18	34	1.93
38933311--38933415	54	1.9	54	84	3	140	34	15	18	32	1.92
38933371--38933637	96	2.9	94	79	7	240	30	17	22	28	1.97
38938354--38938501	76	1.9	76	87	0	215	39	12	18	29	1.88
38940634--38940707	34	2.2	34	85	0	94	28	6	28	36	1.82
38947617--38947657	16	2.5	16	84	4	55	78	4	9	7	1.10
38950843--38950894	23	2.2	24	77	16	56	32	3	5	57	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38967041--38967086	18	2.8	18	84	15	64	0	30	41	28	1.56
38976778--38977014	90	2.6	91	78	7	239	34	12	9	43	1.75
38978147--38978195	21	2.3	22	85	3	64	44	12	2	40	1.53
38979405--38979458	20	2.7	20	91	0	90	14	33	31	20	1.93
38985186--38985250	34	2.0	34	84	6	89	30	26	16	26	1.97
38985577--38985655	26	2.9	26	67	10	68	27	10	17	44	1.81
38988657--38988720	30	2.1	30	88	5	94	25	32	17	25	1.96
38992598--38992650	26	2.0	26	82	7	63	26	15	20	37	1.92
38997038--38997194	43	3.7	42	78	7	131	31	23	17	26	1.97
38999213--38999247	18	2.0	17	88	5	52	22	0	2	74	0.95
39004136--39004291	43	3.7	40	80	10	159	25	18	26	30	1.98
39011753--39011908	43	3.6	43	78	10	131	24	17	26	32	1.97
39015618--39015654	15	2.5	15	91	4	58	59	8	0	32	1.27
39020491--39020606	45	2.6	45	88	6	159	25	29	23	22	1.99
39028666--39028788	35	3.5	35	85	2	167	39	27	12	20	1.88
39031024--39031160	60	2.3	59	80	11	145	26	24	19	29	1.98
39032515--39032568	28	1.9	28	85	7	74	66	1	20	11	1.32
39033574--39033617	19	2.4	18	85	7	54	40	9	0	50	1.34
39036499--39036555	28	2.0	29	83	6	73	40	0	10	49	1.37
39038220--39038276	28	2.0	28	100	0	114	40	10	17	31	1.84
39044765--39044826	26	2.4	26	94	0	106	38	3	8	50	1.48
39050211--39050276	28	2.4	28	78	0	78	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39057764--39057845	9	8.9	9	69	18	53	28	3	6	62	1.36
39057758--39057866	58	1.9	55	83	5	137	31	2	5	60	1.34
39057837--39057881	21	2.1	21	92	8	74	37	0	4	57	1.19
39057828--39057918	30	3.0	30	90	3	139	38	0	5	56	1.23
39058287--39058420	67	2.0	67	98	0	259	43	18	7	30	1.78
39059022--39059097	30	2.5	31	81	12	88	63	2	0	34	1.09
39061402--39061509	44	2.4	44	84	3	135	30	22	13	33	1.93
39063486--39063581	24	4.0	23	69	10	59	38	16	20	23	1.93
39063529--39063584	24	2.3	25	81	6	69	42	17	16	23	1.88
39072770--39072802	17	1.9	17	93	0	57	30	18	30	21	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