genome.fa.s10.2.7.7.80.10.50.1000.166.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  166  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)
54336264--54336301	19	1.9	19	89	5	58	28	0	7	63	1.23
54336259--54336304	19	2.4	18	82	10	56	28	0	6	65	1.17
54352283--54352307	8	3.1	8	100	0	50	88	0	12	0	0.53
54352648--54352689	16	2.5	17	85	14	61	7	0	38	54	1.28
54352830--54353051	108	2.0	110	89	5	342	40	14	14	29	1.86
54354585--54354632	22	2.2	22	100	0	96	37	16	20	25	1.93
54365291--54365325	17	2.0	18	88	5	54	40	2	0	57	1.14
54366246--54366512	132	2.0	132	85	2	358	36	19	17	27	1.94
54367333--54367382	22	2.3	22	89	6	75	56	0	2	42	1.11
54367332--54367382	20	2.5	21	78	15	63	56	0	1	41	1.10
54367573--54367620	19	2.6	18	75	12	53	64	0	0	35	0.94
54368940--54369533	137	4.3	137	90	1	897	27	20	19	32	1.97
54368985--54369534	45	12.2	44	69	12	287	27	20	19	32	1.97
54377036--54377125	46	2.0	46	93	4	155	11	33	14	41	1.81
54381114--54381380	132	2.0	132	86	2	367	35	19	17	26	1.94
54382197--54382246	22	2.3	22	89	6	75	56	0	2	42	1.11
54382196--54382246	20	2.5	21	78	15	63	56	0	1	41	1.10
54386978--54387055	21	3.8	21	79	3	88	43	19	21	15	1.87
54394938--54394964	7	3.9	7	100	0	54	29	11	14	44	1.80
54398251--54398299	23	2.1	23	96	0	89	16	14	14	55	1.70
54400999--54401031	13	2.4	14	85	10	50	51	0	15	33	1.43
54411287--54411327	21	2.0	21	81	18	50	31	19	26	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54424395--54425356	137	7.0	137	99	0	1870	40	17	10	31	1.83
54429121--54429149	15	1.9	15	100	0	58	41	0	0	58	0.98
54429334--54429425	30	3.1	30	80	3	105	28	19	18	33	1.95
54430209--54430257	20	2.5	20	87	12	66	36	2	2	59	1.21
54432865--54432922	21	2.7	21	76	10	55	10	12	0	77	0.99
54432880--54432911	7	4.6	7	100	0	64	0	12	0	87	0.54
54434003--54434041	10	3.8	10	83	6	51	25	7	0	66	1.18
54434759--54434792	18	1.9	18	94	5	61	26	11	5	55	1.58
54437615--54437662	23	2.1	23	84	3	62	50	4	14	31	1.62
54437665--54437713	18	2.6	18	87	6	62	28	2	2	67	1.13
54438101--54438243	67	2.1	67	81	2	171	24	23	17	34	1.96
54441390--54441471	23	3.4	24	79	17	89	43	1	1	53	1.16
54441390--54441491	24	4.2	23	77	16	91	43	0	1	53	1.18
54444700--54444899	52	3.9	52	77	10	173	24	16	28	30	1.96
54444767--54444879	53	2.3	48	82	10	122	28	16	25	29	1.97
54449959--54450006	25	1.9	25	86	0	69	72	8	6	12	1.26
54452966--54453006	20	2.0	20	95	0	73	21	41	26	9	1.84
54458405--54458446	13	3.2	13	89	3	57	78	0	9	11	0.96
54458471--54458501	16	1.9	16	93	0	53	74	0	25	0	0.82
54461269--54461436	47	3.6	47	93	1	284	23	18	29	28	1.98
54466092--54466142	4	12.8	4	100	0	102	50	25	0	23	1.49
54468333--54468401	33	2.1	33	86	5	95	37	8	21	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54481438--54481563	39	3.3	38	85	3	171	23	23	20	32	1.98
54482595--54482627	9	3.7	9	91	0	57	24	12	24	39	1.89
54482593--54482627	18	1.9	18	100	0	70	28	11	22	37	1.89
54482679--54482715	9	4.1	9	89	0	56	48	10	10	29	1.72
54498189--54498244	17	3.2	17	89	5	76	71	1	7	19	1.18
54498176--54498259	35	2.5	33	76	16	82	71	2	5	20	1.18
54498776--54498819	22	2.0	22	86	0	61	52	0	0	47	1.00
54498845--54498885	15	2.8	15	79	17	50	53	0	0	46	1.00
54498845--54498879	15	2.2	16	90	10	54	60	0	0	40	0.97
54498912--54498968	15	3.5	15	71	17	51	49	1	1	47	1.22
54504410--54504516	33	3.3	32	81	6	117	33	23	11	31	1.90
54509233--54509337	54	1.9	54	98	0	201	23	26	17	32	1.96
54513256--54513322	32	2.1	32	97	0	125	34	7	14	43	1.74
54520024--54520096	36	2.0	36	100	0	146	47	5	16	30	1.69
54520965--54521011	25	2.0	23	83	8	58	63	10	0	25	1.26
54521089--54521142	23	2.5	23	82	8	60	61	7	0	31	1.24
54521090--54521245	24	6.3	25	69	10	81	57	3	7	32	1.44
54521315--54521396	14	5.5	15	71	25	68	63	0	8	28	1.23
54521315--54521395	17	4.5	19	72	21	61	64	0	7	28	1.20
54521315--54521392	23	3.3	24	76	21	67	64	0	7	28	1.21
54521325--54521398	29	2.5	29	85	10	96	62	0	9	28	1.26
54521324--54521407	29	2.9	27	77	15	87	61	0	9	28	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54525185--54525241	22	2.5	24	75	13	66	59	0	3	36	1.14
54528077--54528119	16	2.7	15	75	10	50	58	6	9	25	1.54
54540333--54540398	33	2.0	33	94	2	116	53	33	3	10	1.51
54543936--54544012	20	3.9	20	73	19	63	40	3	7	48	1.51
54543926--54543985	18	3.2	17	75	20	57	38	5	6	50	1.51
54560584--54560644	29	2.0	31	84	12	83	49	13	0	37	1.42
54564469--54564529	20	3.0	20	73	17	54	42	0	1	55	1.09
54583409--54583465	30	1.9	30	92	0	96	38	10	26	24	1.88
54585038--54585252	71	3.0	71	100	0	430	26	9	25	39	1.86
54588203--54588271	34	2.0	34	83	8	86	23	0	4	72	1.02
54589585--54589647	32	2.0	32	96	0	117	38	12	1	47	1.51
54591890--54592016	42	3.0	42	86	6	170	29	26	13	29	1.94
54592076--54592222	31	4.7	31	88	3	224	27	27	19	26	1.99
54592200--54592328	50	2.5	51	88	5	190	25	21	16	36	1.94
54608033--54608116	27	3.1	27	70	23	77	36	0	2	60	1.10
54608861--54608892	16	2.0	16	100	0	64	37	0	0	62	0.95
54610085--54610134	24	2.1	24	85	7	66	0	48	0	52	1.00
54610090--54610124	18	2.0	18	88	5	54	0	48	0	51	1.00
54619570--54619633	30	2.1	30	100	0	128	26	18	14	40	1.89
54629684--54629720	13	2.8	13	95	0	65	37	45	0	16	1.47
54629695--54629765	30	2.4	30	87	0	97	32	46	0	21	1.51
54629746--54629793	24	2.0	24	95	0	87	25	47	4	22	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54630657--54630890	126	1.9	126	87	0	351	28	15	16	39	1.89
54632213--54632259	19	2.5	19	86	6	60	25	25	10	38	1.88
54634584--54634618	18	1.9	18	88	0	52	82	5	11	0	0.82
54634584--54634625	17	2.4	18	84	4	50	83	4	11	0	0.79
54635869--54635915	25	2.0	25	83	8	62	27	14	4	53	1.60
54645981--54646708	85	8.6	85	93	2	1232	27	23	28	20	1.99
54646749--54647026	133	2.1	135	86	4	384	30	20	20	28	1.98
54647791--54647840	26	1.9	26	91	0	82	24	30	16	30	1.96
54648298--54648526	126	1.8	126	92	0	386	36	17	17	28	1.93
54648997--54649086	45	2.0	45	93	0	153	42	12	8	36	1.74
54649167--54649236	29	2.4	30	87	2	97	21	0	45	32	1.52
54649190--54649247	13	4.2	13	77	16	62	17	0	44	37	1.49
54649551--54649592	13	3.1	14	80	13	52	61	4	0	33	1.17
54651358--54651409	27	2.0	27	84	3	70	46	1	5	46	1.38
54651358--54651411	26	2.1	26	82	6	65	44	1	5	48	1.37
54675748--54675811	30	2.1	30	83	11	78	43	4	1	50	1.32
54679339--54679380	15	2.9	15	82	10	52	47	0	0	52	1.00
54679348--54679629	60	4.7	59	66	16	170	43	2	4	50	1.35
54679454--54679488	18	2.0	17	88	5	52	45	0	0	54	0.99
54679287--54679629	119	2.9	120	92	3	584	43	2	5	49	1.37
54679573--54679607	18	2.0	17	88	5	52	45	0	0	54	0.99
54679561--54679835	147	1.9	149	96	1	509	47	2	3	46	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54679720--54679754	18	2.0	17	88	5	52	45	0	0	54	0.99
54679916--54680010	45	2.1	44	84	1	118	33	25	5	35	1.78
54680007--54680042	16	2.2	16	100	0	72	38	36	0	25	1.56
54680211--54680278	30	2.4	27	82	9	73	44	2	2	50	1.32
54681030--54681072	21	2.0	23	86	9	63	46	6	6	39	1.58
54682153--54682491	32	10.6	32	97	1	635	16	8	22	52	1.70
54682889--54682936	25	1.9	25	95	0	87	29	10	31	29	1.90
54683522--54683830	54	5.7	54	94	1	528	36	17	15	30	1.91
54683518--54683830	109	2.9	109	93	0	547	36	17	15	30	1.92
54683522--54683830	163	1.9	163	94	1	548	36	17	15	30	1.91

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