genome.fa.s23.2.7.7.80.10.50.1000.104.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  104  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)
34638646--34638817	46	3.7	46	79	7	152	23	29	21	26	1.99
34638606--34638817	94	2.3	92	79	8	209	24	30	20	25	1.99
34645563--34645762	51	3.9	51	91	1	294	29	25	15	30	1.95
34645786--34645879	28	3.5	28	81	11	124	26	24	13	35	1.93
34657085--34657246	84	1.9	84	83	5	211	24	18	27	29	1.98
34657085--34657244	43	3.8	42	78	7	171	24	18	28	28	1.98
34659770--34659917	51	2.9	50	85	7	199	31	21	15	31	1.94
34659941--34660059	52	2.3	52	88	0	184	26	26	14	32	1.94
34659941--34660056	24	4.4	27	77	15	127	26	26	13	32	1.94
34661171--34661406	118	2.0	118	95	1	429	21	16	17	44	1.87
34662402--34662510	40	2.7	40	85	5	157	22	23	28	24	2.00
34662402--34662529	40	3.2	40	82	6	152	24	23	28	23	1.99
34674838--34675059	40	5.6	41	78	9	230	25	23	27	23	2.00
34677994--34678024	16	1.9	16	93	0	53	38	12	6	41	1.69
34689133--34689266	43	3.2	43	80	6	148	32	25	17	25	1.97
34689128--34689287	43	3.8	41	79	5	115	31	25	16	25	1.97
34689128--34689287	84	1.9	84	80	2	187	31	25	16	25	1.97
34689805--34689857	28	1.9	27	85	11	72	26	20	1	50	1.58
34690095--34690145	25	2.0	25	100	0	102	11	23	7	56	1.61
34692667--34692729	26	2.4	26	86	0	81	38	4	31	25	1.77
34695330--34695364	17	2.1	17	100	0	70	48	0	17	34	1.47
34696616--34699185	519	5.0	519	99	0	5029	51	10	14	23	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34699207--34699336	27	4.8	27	89	0	170	28	21	10	40	1.85
34699315--34699589	27	10.2	27	79	6	211	40	21	9	29	1.84
34699193--34699675	54	8.9	54	75	5	256	37	20	9	32	1.85
34699329--34699561	81	2.9	80	88	1	315	41	21	9	28	1.83
34699329--34699590	81	3.2	81	84	6	293	40	20	9	29	1.83
34699692--34699793	27	3.8	28	83	8	104	37	21	20	20	1.95
34700436--34700541	26	4.2	26	86	3	155	28	19	22	29	1.98
34701561--34701998	27	16.2	27	80	2	486	26	18	18	36	1.94
34701558--34701998	54	8.2	53	85	3	542	26	19	18	36	1.94
34701992--34702322	27	12.3	26	78	6	200	28	8	22	40	1.83
34702021--34702322	54	5.6	53	83	3	293	28	8	21	41	1.83
34702090--34702327	81	3.0	80	80	3	262	27	8	22	41	1.82
34702034--34702341	108	2.9	106	84	4	345	28	9	21	40	1.84
34704655--34704802	44	3.4	44	74	7	138	30	18	23	27	1.98
34709052--34709081	8	3.8	8	100	0	60	40	0	0	60	0.97
34709052--34709090	8	4.8	9	93	6	50	43	0	0	56	0.99
34709129--34709174	23	2.0	23	83	8	58	45	4	10	39	1.59
34710183--34710299	40	2.9	39	83	3	135	38	11	17	33	1.85
34726166--34726250	40	2.1	40	86	4	118	34	20	20	25	1.96
34740151--34740528	99	3.9	99	86	2	505	35	7	18	37	1.80
34741980--34742023	14	2.9	15	83	6	54	47	0	0	52	1.00
34744659--34744825	82	2.0	83	88	1	246	41	10	10	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34749032--34749058	5	5.4	5	100	0	54	18	40	22	18	1.91
34754704--34754750	18	2.6	18	83	9	60	63	2	0	34	1.06
34754720--34754752	8	3.7	9	88	12	50	60	0	0	39	0.97
34754855--34754880	8	3.2	8	100	0	52	42	0	0	57	0.98
34761208--34761241	16	2.1	17	88	5	52	67	0	2	29	1.05
34761315--34761401	27	3.4	25	82	9	95	33	0	1	65	1.00
34761325--34761404	34	2.3	33	87	6	106	33	0	0	66	0.92
34764435--34764567	47	2.8	47	98	0	257	27	18	23	30	1.98
34769481--34769701	46	4.8	46	79	7	232	29	19	28	23	1.98
34769572--34769742	48	3.6	48	77	6	186	31	17	26	23	1.97
34769481--34769746	46	5.7	46	81	4	221	30	18	27	24	1.98
34769481--34769746	94	2.8	93	79	9	274	30	18	27	24	1.98
34770942--34771006	28	2.3	28	91	0	103	16	20	44	18	1.87
34773975--34774046	30	2.3	31	81	11	76	54	8	2	34	1.45
34774748--34774859	56	2.0	56	96	0	206	50	8	11	30	1.68
34776182--34776220	20	2.0	20	94	0	69	30	10	7	51	1.64
34776241--34776288	20	2.3	20	82	3	60	52	4	12	31	1.58
34779246--34779423	27	6.6	27	83	3	205	26	15	28	29	1.96
34779247--34779402	82	1.9	81	88	3	233	26	15	28	29	1.96
34779243--34779423	82	2.2	81	83	2	229	27	15	27	29	1.96
34780801--34780841	21	2.0	21	85	0	55	26	2	19	51	1.59
34790065--34790089	6	4.2	6	100	0	50	32	16	36	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34795700--34795746	16	2.9	16	75	9	51	34	12	12	40	1.82
34800114--34800174	30	2.0	30	83	0	77	31	22	8	37	1.84
34803071--34803131	30	2.0	30	83	0	77	31	22	8	37	1.84
34812271--34812308	19	2.0	19	100	0	76	57	10	0	31	1.32
34816124--34816220	39	2.5	39	84	1	115	47	10	6	36	1.63
34819552--34819610	26	2.2	26	81	3	73	38	25	6	28	1.81
34819718--34819804	27	3.2	28	90	6	135	19	22	21	35	1.96
34822282--34822311	6	5.0	6	91	0	51	46	16	16	20	1.84
34824103--34824150	20	2.4	20	89	0	78	25	29	29	16	1.97
34825016--34825051	17	2.1	17	89	0	54	47	8	8	36	1.64
34827799--34827863	34	1.9	34	96	0	121	33	6	32	27	1.82
34831010--34831039	14	2.1	15	93	6	53	36	6	30	26	1.82
34868942--34869029	46	1.9	46	97	0	167	22	26	14	36	1.93
34871039--34871075	20	1.9	20	88	5	58	51	8	0	40	1.32
34872485--34872820	172	2.0	172	87	1	485	23	12	16	47	1.80
34874001--34874089	20	4.2	20	76	16	65	47	20	17	14	1.83
34875838--34875893	25	2.2	25	84	6	69	35	23	19	21	1.96
34884009--34884044	18	2.0	18	88	0	54	25	22	13	38	1.91
34886928--34886963	18	2.0	18	88	0	54	25	22	13	38	1.91
34890156--34890548	50	7.8	50	79	3	430	27	18	24	29	1.98
34890157--34890548	101	3.9	100	80	4	380	27	18	23	29	1.98
34890155--34890548	151	2.6	151	91	0	635	27	18	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34890725--34890756	16	2.0	16	93	0	55	46	0	18	34	1.49
34893940--34893965	13	2.0	13	100	0	52	30	0	15	53	1.42
34897194--34897268	6	11.7	6	84	9	78	14	4	4	77	1.06
34897193--34897224	7	4.7	7	92	7	57	12	0	0	87	0.54
34897171--34897268	45	2.2	45	82	10	112	12	6	4	77	1.09
34903791--34903877	23	3.8	23	75	11	72	26	19	17	36	1.94
34903791--34903924	45	2.9	44	80	11	119	28	20	15	35	1.94
34903813--34903928	23	5.1	23	81	10	130	28	20	14	36	1.92
34913994--34914217	40	5.6	40	93	2	380	25	28	22	23	1.99
34913994--34914217	79	2.8	80	93	2	389	25	28	22	23	1.99
34913994--34914217	119	1.9	120	93	2	389	25	28	22	23	1.99
34920817--34920914	49	2.0	49	97	0	187	25	24	4	45	1.70
34924042--34924176	23	5.8	24	75	15	115	24	23	17	34	1.95
34924042--34924176	45	2.9	44	79	13	137	24	23	17	34	1.95
34928655--34928791	40	3.4	40	85	3	168	49	6	24	19	1.72
34932486--34932525	21	1.9	21	89	0	62	57	10	10	22	1.61
34936326--34936430	35	3.0	35	91	1	165	18	14	29	38	1.90
34938237--34938273	18	2.1	18	89	0	56	51	13	8	27	1.69
34938491--34938530	20	2.0	20	90	0	62	25	27	0	47	1.52
34939558--34939590	15	2.1	17	88	11	52	27	3	0	69	1.03
34939712--34939751	7	5.7	7	87	0	62	12	5	0	82	0.82
34940748--34940777	16	1.9	15	93	6	51	70	0	23	6	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34952580--34952616	19	1.9	19	88	0	56	67	16	2	13	1.34
34957174--34957244	37	1.9	37	88	0	106	32	29	8	29	1.87
34957654--34957702	20	2.5	20	86	0	62	48	16	10	24	1.76
34960107--34960320	53	4.0	52	83	6	259	23	26	16	33	1.96
34960107--34960300	107	1.8	105	88	2	298	24	26	17	31	1.97
34963372--34963549	27	6.6	27	83	3	205	26	15	28	29	1.96
34963373--34963528	82	1.9	81	88	3	233	26	15	28	29	1.96
34963369--34963549	82	2.2	81	83	2	229	27	15	27	29	1.96
34971584--34971733	55	2.8	54	80	4	149	26	15	29	28	1.96
34971556--34971733	27	6.6	27	77	6	146	25	15	28	30	1.96

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