genome.fa.s10.2.7.7.80.10.50.1000.2.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   168   169   170   171   172   

This is table  2  of  172  ( 20562 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)
337009--337143	39	3.4	39	72	6	103	23	19	28	28	1.98
337266--337306	19	2.2	19	87	12	59	46	0	24	29	1.53
338633--338685	5	10.8	5	97	2	99	41	0	0	58	0.98
339224--339288	22	3.0	22	79	0	85	16	23	15	44	1.86
340604--340628	13	1.9	13	100	0	50	16	8	28	48	1.74
344801--344894	6	18.0	5	78	16	79	76	1	3	19	0.98
344802--344895	49	2.0	47	85	4	125	77	1	3	18	0.96
344832--344897	31	2.1	30	91	5	105	81	1	1	15	0.83
344834--344895	25	2.3	27	86	10	92	80	1	1	16	0.87
352891--352986	11	8.7	11	75	0	84	5	7	33	54	1.50
352867--352966	33	3.0	33	77	2	101	5	7	33	55	1.49
352885--353005	11	10.8	11	75	1	80	6	9	28	55	1.56
352867--352986	22	5.4	22	83	2	105	5	6	33	54	1.51
355327--355362	18	2.1	18	89	5	56	72	0	0	27	0.85
355645--355723	17	4.5	18	73	17	69	34	15	11	39	1.83
356073--356272	45	4.5	45	83	1	240	24	27	15	33	1.95
356073--356256	89	2.1	90	87	1	262	25	27	15	32	1.95
356289--356578	78	3.7	78	88	2	431	25	24	17	31	1.97
356289--356578	155	1.9	155	88	1	447	25	24	17	31	1.97
363304--363337	18	1.9	18	88	5	52	70	0	0	29	0.87
363593--363650	22	2.6	22	81	7	64	41	17	5	36	1.72
363629--363664	19	1.9	18	94	5	63	36	16	11	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
363632--363672	19	2.3	19	84	12	52	39	12	14	34	1.84
363750--363788	21	1.9	20	84	5	51	10	2	15	71	1.23
364250--364282	13	2.6	13	90	4	50	48	12	0	39	1.40
365598--365638	11	3.7	11	90	6	57	65	2	2	29	1.18
369382--369406	13	1.9	13	100	0	50	24	0	32	44	1.54
369675--369722	5	10.0	5	75	24	50	20	0	2	77	0.88
369673--369728	23	2.4	23	88	5	78	25	0	1	73	0.93
369680--369717	18	2.1	18	95	0	67	21	0	2	76	0.91
371839--371895	27	2.1	27	80	3	62	28	17	3	50	1.62
375425--375524	41	2.4	41	77	9	105	25	18	27	30	1.98
378945--378983	3	12.7	3	83	5	51	66	5	2	25	1.25
380136--380173	12	3.0	13	84	7	60	21	10	0	68	1.19
393309--393394	43	2.0	43	100	0	172	27	13	20	37	1.91
398680--398709	5	5.8	5	96	4	51	23	0	0	76	0.78
399001--399025	12	2.1	12	100	0	50	8	8	32	52	1.60
399072--399150	41	1.9	41	94	0	140	31	24	24	20	1.98
399136--399243	41	2.6	41	89	0	171	22	20	30	26	1.98
400130--400185	27	2.1	26	83	9	69	23	0	28	48	1.51
400389--400422	18	1.9	18	88	5	52	50	2	2	44	1.32
402085--402252	46	3.8	46	79	10	197	29	30	20	20	1.97
407742--407778	19	1.9	19	88	0	56	54	0	0	45	1.00
412393--412442	13	4.2	13	75	19	54	32	0	4	64	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412401--412442	22	2.0	20	86	9	57	28	0	2	69	1.01
418789--418959	79	2.2	79	86	8	233	26	21	26	24	1.99
418737--418959	39	5.7	40	86	6	253	26	22	26	24	2.00
418828--418992	79	2.1	79	82	8	194	27	20	27	24	1.99
426590--426671	39	2.1	39	90	0	128	23	32	23	20	1.98
438849--438873	12	2.1	12	100	0	50	8	20	40	32	1.81
440674--441068	27	14.7	26	79	8	321	38	19	10	31	1.85
440870--441123	27	9.4	27	76	9	117	38	20	9	31	1.85
441107--441274	27	6.2	27	87	0	237	35	16	20	27	1.94
441480--441574	25	3.8	25	97	0	172	26	26	22	25	2.00
441480--441587	25	4.4	25	89	8	127	28	24	22	25	1.99
441478--441587	50	2.2	50	81	9	154	28	23	21	26	1.99
441795--441877	29	2.8	30	78	14	91	32	15	24	27	1.95
442796--443005	104	2.0	104	97	0	393	26	14	30	28	1.95
443920--443982	27	2.3	27	80	0	72	34	17	20	26	1.95
443962--444024	27	2.3	28	78	8	67	15	17	25	41	1.89
444187--444308	25	4.8	25	87	4	172	27	25	20	27	1.99
444187--444308	52	2.4	51	90	2	192	27	25	20	27	1.99
444529--444611	29	2.8	29	80	14	98	28	19	26	25	1.98
446462--446830	27	13.6	27	79	5	354	40	20	8	30	1.82
446462--446873	27	15.2	27	78	7	273	39	20	8	31	1.82
446869--447037	27	6.3	27	87	0	203	36	17	18	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447017--447080	27	2.4	27	74	10	67	17	15	26	40	1.89
446867--447037	81	2.1	81	86	0	243	37	16	18	27	1.92
447242--447311	25	2.8	25	95	0	122	25	25	22	25	2.00
448187--448254	20	3.5	19	75	20	70	38	23	2	35	1.70
448211--448239	8	3.6	8	100	0	58	37	24	0	37	1.56
448387--448525	40	3.4	40	84	4	172	33	25	17	24	1.96
474005--474182	86	2.1	87	96	1	331	23	21	11	43	1.85
478449--478501	26	2.0	26	100	0	106	22	7	20	49	1.74
497451--497573	40	3.1	40	89	3	187	26	29	22	21	1.99
502192--502216	12	2.1	12	100	0	50	48	8	0	44	1.32
506475--506682	53	3.9	54	77	4	177	23	23	16	36	1.94
506661--506829	47	3.6	47	91	0	284	24	23	13	37	1.91
508730--508793	31	2.1	31	87	0	92	21	21	17	39	1.93
509007--509098	25	3.7	25	71	16	75	29	21	22	26	1.99
509049--509104	24	2.3	25	84	3	69	25	26	25	23	2.00
509239--509284	24	1.9	24	86	0	65	30	17	21	30	1.96
519745--519840	26	3.8	26	86	5	119	27	21	23	27	1.99
525356--525476	43	2.9	41	80	6	127	27	14	23	33	1.94
528810--529165	81	4.4	82	83	4	436	41	21	17	19	1.90
528810--529165	27	13.2	27	84	2	369	41	21	17	19	1.90
529311--529381	36	2.0	36	85	0	97	25	28	29	16	1.97
535071--535205	68	2.0	69	92	1	227	28	20	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536343--536820	242	2.0	241	95	0	857	32	10	23	33	1.89
536972--537457	242	2.0	242	100	0	972	34	16	21	27	1.95
537754--537877	40	3.1	40	88	2	178	24	20	27	27	1.99
544080--544177	42	2.3	43	85	1	144	27	17	21	33	1.96
544027--544197	43	4.0	43	74	10	143	25	16	25	32	1.96
549366--549520	27	5.7	27	91	3	229	31	29	12	26	1.93
549366--549542	55	3.2	55	88	0	246	32	29	12	25	1.92
552815--552972	43	3.7	43	80	8	178	27	16	24	31	1.96
555350--555452	40	2.6	40	93	0	170	33	27	15	23	1.95
564960--565006	21	2.2	22	81	7	53	21	10	6	61	1.50
566284--566317	17	2.0	17	94	0	59	17	38	20	23	1.93
570633--570662	14	2.1	15	93	6	53	33	0	16	50	1.46
573951--574072	65	1.9	65	89	0	190	24	18	21	35	1.96
574134--574198	26	2.6	25	88	9	96	23	16	18	41	1.90
593898--593988	27	3.4	27	74	11	80	31	26	14	27	1.95
595210--595430	39	5.6	40	83	6	238	25	21	27	25	1.99
595275--595463	79	2.4	79	82	6	206	26	21	26	25	1.99
595615--595701	27	3.0	30	70	10	99	22	11	22	42	1.86
600005--600089	26	3.4	24	80	12	73	25	23	23	27	2.00
600018--600088	25	2.8	26	85	8	92	25	23	26	23	2.00
600889--600953	27	2.4	27	82	5	78	21	24	18	35	1.96
600985--601220	27	8.7	27	82	3	186	32	8	18	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601070--601220	81	1.9	81	88	2	232	29	7	19	43	1.77
601837--602072	27	8.7	27	82	3	186	32	8	18	41	1.80
600383--602083	852	2.0	848	98	0	3305	30	20	15	33	1.94
601922--602072	81	1.9	81	88	2	232	29	7	19	43	1.77
602104--602301	81	2.4	81	88	1	281	39	7	23	29	1.82
602104--602301	27	7.3	27	84	2	236	39	7	23	29	1.82
612461--613974	757	2.0	757	99	0	2983	30	24	14	29	1.95
626536--626635	43	2.4	42	81	1	110	30	24	18	28	1.97
628268--628582	46	6.8	45	78	9	323	21	21	28	27	1.99
628265--628528	93	2.8	93	96	0	474	22	21	28	27	1.99

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   168   169   170   171   172