genome.fa.s23.2.7.7.80.10.50.1000.2.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_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  2  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)
286281--287500	420	2.9	417	83	5	1467	33	18	17	30	1.94
288282--288312	15	2.1	15	100	0	62	22	32	6	38	1.80
291674--291703	15	2.0	15	93	0	51	23	46	6	23	1.75
292445--292483	18	2.3	18	86	8	55	43	12	5	38	1.65
292640--292670	15	2.1	15	100	0	62	22	32	6	38	1.80
295133--295170	20	1.9	20	100	0	76	50	0	0	50	1.00
297632--297686	6	9.2	6	95	0	92	36	0	63	0	0.95
298110--298165	17	3.1	17	76	20	60	62	1	3	32	1.23
298105--298165	18	3.3	18	80	13	70	62	1	3	32	1.21
298449--298504	24	2.4	23	80	19	64	67	1	17	12	1.30
299000--299058	29	2.0	29	100	0	118	30	3	13	52	1.57
303720--303755	11	3.2	11	88	4	54	50	0	50	0	1.00
303892--303929	16	2.3	17	86	4	51	13	0	7	78	0.94
304473--304528	21	2.7	21	89	10	80	58	0	1	39	1.08
304570--304611	21	2.0	22	90	4	68	71	0	2	26	0.98
304580--304636	18	3.1	18	75	12	53	73	0	10	15	1.09
304615--304659	10	4.5	10	81	18	58	80	0	11	8	0.92
310034--310153	51	2.4	51	94	0	213	30	21	13	35	1.92
310155--310202	24	2.0	24	95	0	87	31	14	8	45	1.74
310654--310774	61	2.0	61	98	0	233	29	23	3	42	1.70
310649--310754	32	3.4	32	67	22	98	27	25	1	45	1.64
311497--311655	79	2.0	79	98	0	309	23	22	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315547--315795	50	4.8	50	85	4	284	20	29	24	26	1.99
315546--315795	100	2.4	104	88	6	357	20	29	24	26	1.99
315890--315921	13	2.5	13	94	0	55	56	12	0	31	1.37
316133--316190	30	1.9	30	89	0	89	31	24	3	41	1.71
319704--319744	17	2.4	17	91	0	64	36	12	2	48	1.54
320502--320556	28	2.0	28	88	0	83	21	27	23	27	1.99
322872--322931	19	3.0	20	83	14	70	66	3	3	26	1.23
322969--323015	8	5.6	8	85	7	58	51	0	2	46	1.13
327630--327810	91	2.0	91	97	0	344	32	20	15	30	1.94
330374--330417	19	2.2	20	92	8	81	47	15	0	36	1.46
335585--335678	49	1.9	49	95	0	170	22	25	9	42	1.83
341749--341774	6	4.3	6	100	0	52	19	0	0	80	0.71
343039--343084	23	2.0	23	100	0	92	43	13	21	21	1.86
343062--343496	192	2.3	192	93	0	735	31	17	20	31	1.95
344786--344847	22	2.8	22	92	4	99	24	56	6	12	1.60
344952--344993	21	2.0	22	90	4	68	7	0	30	61	1.22
345323--345405	3	28.3	3	73	20	54	28	3	1	66	1.16
345608--345664	17	3.1	19	78	14	66	31	0	7	61	1.23
359091--359319	44	5.1	44	75	5	174	26	17	26	29	1.98
359090--359289	88	2.3	89	77	4	208	25	18	25	32	1.97
359255--359559	136	2.3	135	95	1	540	26	21	22	28	1.99
359698--359868	40	4.2	40	76	7	137	32	19	20	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359722--359873	40	3.8	40	81	3	196	30	21	20	26	1.98
359720--359889	82	2.1	83	88	1	261	34	21	18	25	1.96
359721--359889	40	4.1	42	77	6	157	33	21	18	26	1.96
360417--360485	18	3.7	18	78	14	77	31	2	1	63	1.18
360687--360743	17	3.1	19	78	14	66	31	0	7	61	1.23
360828--360857	12	2.5	12	94	0	51	46	6	0	46	1.29
364473--364543	29	2.5	28	75	11	72	56	4	5	33	1.42
366015--366041	13	2.1	13	100	0	54	18	29	14	37	1.91
387150--387179	15	2.0	15	93	0	51	40	10	3	46	1.54
394286--394342	30	1.9	30	89	7	89	45	12	0	42	1.41
394394--394418	12	2.1	12	100	0	50	44	8	0	48	1.32
395516--395566	22	2.2	24	86	10	79	45	7	0	47	1.32
396730--396760	16	1.9	16	100	0	62	51	0	3	45	1.17
398165--398205	17	2.5	17	84	11	50	68	2	0	29	1.03
408210--408256	23	2.0	23	95	0	85	29	14	12	42	1.83
410152--410251	50	2.0	50	94	3	175	32	13	11	44	1.78
415472--415520	24	2.0	24	100	0	98	34	16	8	40	1.78
425997--426248	131	1.9	132	80	4	294	35	18	18	26	1.94
426041--426281	131	1.8	131	80	5	290	34	18	19	27	1.95
427273--427328	28	2.0	28	100	0	112	46	17	10	25	1.80
427280--427342	28	2.3	28	86	2	74	50	14	11	23	1.74
429637--429668	13	2.4	14	85	15	50	62	6	6	25	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429655--429690	17	2.1	18	89	5	56	52	2	2	41	1.30
430481--430701	107	2.1	107	85	2	293	37	12	18	31	1.88
452877--452910	12	2.7	13	90	4	52	44	47	0	8	1.34
452873--452917	13	3.5	13	81	6	56	40	46	0	13	1.43
453389--453502	15	7.9	14	72	17	65	27	8	0	63	1.30
453418--453502	44	1.9	44	84	13	113	28	9	0	62	1.26
453377--453496	29	4.1	29	69	16	88	27	7	1	63	1.31
453573--453600	6	4.7	6	100	0	56	17	0	0	82	0.68
453611--453703	24	3.9	23	68	13	62	30	7	3	59	1.41
453611--453738	25	5.2	24	68	13	80	30	7	3	58	1.43
455595--455646	15	3.2	15	73	19	50	44	0	1	53	1.11
455709--455764	22	2.6	22	83	5	62	51	0	0	48	1.00
459340--459400	31	1.9	32	90	3	97	37	4	8	49	1.54
465635--465666	15	2.1	15	94	0	55	31	3	12	53	1.54
468643--468689	22	2.1	22	100	0	94	17	36	23	23	1.95
472544--472590	3	15.7	3	81	16	53	25	2	2	70	1.10
473893--473936	19	2.3	20	84	7	56	27	20	11	40	1.86
480211--480457	88	2.8	88	90	2	390	25	21	25	27	1.99
480212--480438	44	5.2	44	63	15	110	25	21	25	27	1.99
484568--484618	19	2.9	17	83	11	66	37	17	7	37	1.79
486316--486402	43	2.0	43	86	0	120	22	22	0	54	1.46
486336--486374	15	2.6	14	80	11	51	23	23	0	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515883--515933	22	2.2	24	79	10	61	43	0	13	43	1.44
516065--516177	47	2.4	47	83	0	154	30	11	21	36	1.89
533786--533839	5	11.0	5	77	18	60	77	1	0	20	0.86
533780--533836	19	2.9	19	77	12	62	75	1	0	22	0.90
533785--533831	24	2.0	24	87	8	69	76	2	0	21	0.89
538798--538869	3	23.7	3	74	13	58	29	4	1	65	1.20
539245--539279	3	11.7	3	100	0	70	34	0	0	65	0.93
539030--539514	235	2.1	235	99	0	961	30	9	4	55	1.51
539480--539519	3	13.3	3	100	0	80	32	0	0	67	0.91
539657--539713	9	6.2	10	84	15	63	28	1	0	70	0.98
539657--539709	3	16.3	3	85	14	54	28	1	0	69	0.99
539657--539706	13	3.8	13	78	21	59	28	2	0	70	0.99
543479--543553	37	2.0	37	94	0	132	34	16	18	30	1.93
553385--553459	18	4.2	18	94	0	132	32	17	24	26	1.97
555993--557286	643	2.0	643	99	0	2579	33	18	13	34	1.90
565867--565950	26	3.2	26	94	0	150	36	23	4	34	1.76
568109--568142	13	2.5	13	95	4	59	52	17	0	29	1.45
575291--575337	13	3.3	14	82	11	60	53	0	0	46	1.00
579645--579695	19	2.4	22	81	15	63	56	0	0	43	0.99
596738--596777	4	10.0	4	100	0	80	25	0	25	50	1.50
596784--596813	15	2.0	15	93	0	51	10	20	3	66	1.35
597802--597869	34	2.0	34	100	0	136	32	5	23	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604530--604559	13	2.2	14	94	5	53	26	0	16	56	1.40
606713--606768	17	3.4	17	76	16	55	33	1	0	64	1.04
606724--606772	18	2.5	20	78	21	59	36	0	0	63	0.95
614325--614349	13	1.9	13	100	0	50	16	4	16	64	1.44
620409--620474	31	2.1	31	88	0	96	37	10	9	42	1.71
623308--623374	27	2.6	28	81	13	81	56	0	0	43	0.99
623319--623374	26	2.1	27	87	6	80	60	0	0	39	0.97
627667--627714	24	2.0	24	100	0	96	16	12	29	41	1.85
628266--628319	27	2.0	28	89	7	85	37	16	7	38	1.77
630490--630607	53	2.2	53	86	0	164	32	13	8	45	1.74

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