genome.fa.s23.2.7.7.80.10.50.1000.21.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  21  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)
6317930--6317979	15	3.5	15	82	15	61	42	12	24	22	1.87
6321849--6321932	10	8.6	10	74	17	61	72	1	2	23	1.03
6321866--6321898	6	5.7	6	85	7	50	84	0	3	12	0.72
6321867--6321899	17	1.9	17	100	0	66	84	0	3	12	0.72
6321867--6321908	18	2.4	18	88	11	61	80	2	4	11	0.95
6323789--6323823	18	1.9	18	88	11	54	45	5	31	17	1.71
6324874--6324919	24	1.9	24	100	0	92	17	8	36	36	1.81
6329461--6329502	21	2.0	21	100	0	84	33	0	0	66	0.92
6329977--6330017	18	2.3	18	86	0	55	36	17	7	39	1.77
6335032--6335064	9	3.7	9	95	0	57	57	27	9	6	1.53
6337372--6337456	22	3.9	22	75	15	86	0	12	5	81	0.87
6337371--6337464	39	2.5	37	80	16	104	0	11	6	81	0.85
6337371--6337455	5	16.8	5	75	13	59	0	12	5	81	0.87
6340112--6340144	15	2.1	16	88	5	50	45	15	21	18	1.85
6342186--6342241	25	2.3	25	87	3	78	58	5	5	30	1.42
6342513--6342584	26	2.7	27	82	6	85	59	1	8	30	1.35
6342860--6342893	17	2.0	17	88	0	50	61	0	5	32	1.20
6347524--6347636	56	2.0	56	96	0	208	29	21	21	28	1.98
6354914--6354974	26	2.3	27	77	8	63	18	3	9	68	1.31
6360386--6360423	18	2.1	18	90	5	58	42	0	2	55	1.14
6363377--6363439	33	2.0	29	85	11	81	61	4	1	31	1.26
6363765--6363819	21	2.5	22	85	8	67	36	40	7	16	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6367527--6367568	21	2.0	22	90	4	68	28	2	47	21	1.63
6367527--6367568	11	4.0	10	87	3	57	28	2	47	21	1.63
6371292--6371345	11	5.0	11	88	2	74	29	3	46	20	1.68
6376668--6376704	19	1.9	19	100	0	74	18	16	5	59	1.55
6378025--6378061	19	1.9	19	100	0	74	18	16	5	59	1.55
6379379--6379407	14	2.1	14	93	6	51	34	0	6	58	1.25
6400818--6400862	17	2.7	16	76	10	54	51	0	2	46	1.13
6407223--6407256	16	2.1	16	94	0	59	29	20	17	32	1.96
6408618--6408673	15	3.6	16	83	7	71	57	8	8	25	1.58
6415773--6415804	5	6.6	5	96	3	57	18	0	0	81	0.70
6422568--6422599	5	6.6	5	92	7	57	18	0	0	81	0.70
6422568--6422598	9	3.3	9	91	8	53	19	0	0	80	0.71
6425734--6425774	21	2.0	21	90	0	64	29	21	29	19	1.98
6432441--6432473	17	2.0	17	88	5	50	36	15	3	45	1.61
6432759--6433262	46	11.0	46	96	0	857	22	24	14	38	1.92
6446180--6446227	22	2.0	24	84	11	64	50	2	8	39	1.44
6448085--6448117	16	2.0	17	88	5	50	51	3	12	33	1.54
6451168--6451220	18	2.9	19	75	8	56	66	1	1	30	1.13
6451470--6451540	16	4.2	17	75	18	60	63	1	2	32	1.18
6456718--6456788	28	2.5	30	79	9	85	39	15	14	30	1.87
6456739--6456837	28	3.5	29	75	9	87	37	19	9	34	1.83
6464006--6464083	32	2.4	32	89	0	111	16	35	24	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6479986--6480024	16	2.5	16	83	4	53	58	0	0	41	0.98
6479986--6480042	20	2.8	20	79	10	62	56	0	0	43	0.99
6486749--6486783	15	2.3	15	90	0	52	51	0	11	37	1.38
6486923--6486976	24	2.2	24	90	6	83	55	12	3	27	1.54
6493858--6494116	129	2.0	128	93	0	437	41	12	12	33	1.81
6500059--6500112	25	2.2	24	84	12	74	18	24	18	38	1.93
6500068--6500133	23	2.7	25	81	6	73	21	22	18	37	1.94
6504082--6504110	15	2.0	15	93	6	51	48	6	3	41	1.47
6509163--6509207	11	3.9	11	80	11	54	35	0	2	62	1.08
6509159--6509213	24	2.3	25	78	12	71	34	0	5	60	1.20
6511020--6511246	46	4.9	46	82	4	260	42	13	22	21	1.87
6516188--6516316	32	4.0	32	87	3	152	31	10	22	35	1.89
6519501--6519667	43	3.9	43	76	8	153	31	22	14	31	1.93
6521447--6521481	16	2.2	16	90	5	54	17	0	20	62	1.32
6521856--6521893	19	2.0	19	94	0	67	44	15	13	26	1.83
6522179--6522241	25	2.5	26	82	10	76	23	11	6	58	1.55
6522295--6522336	21	2.0	22	85	4	59	26	2	16	54	1.54
6528071--6528141	28	2.6	28	88	2	108	28	12	2	56	1.50
6529126--6529163	19	2.0	20	89	5	60	52	10	36	0	1.36
6529149--6529191	14	3.0	14	79	3	50	62	2	34	0	1.08
6529217--6529282	27	2.4	27	89	0	105	16	36	30	16	1.91
6529327--6529360	18	1.9	18	88	5	52	8	2	5	82	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6530022--6530052	15	2.1	15	100	0	62	38	19	9	32	1.84
6531462--6531495	17	1.9	18	94	5	61	64	0	23	11	1.26
6538997--6539024	13	2.2	13	100	0	56	35	0	35	28	1.58
6543746--6543786	20	2.1	20	86	4	57	41	0	0	58	0.98
6543745--6543787	19	2.3	19	80	8	52	44	0	0	55	0.99
6549350--6549506	73	2.2	72	90	1	242	24	15	22	37	1.93
6549777--6549933	73	2.2	72	90	1	242	24	15	22	37	1.93
6549105--6549959	427	2.0	427	99	0	1692	30	14	15	38	1.88
6549947--6550168	81	2.9	77	81	6	272	29	17	21	31	1.96
6549789--6550168	160	2.4	154	88	3	553	27	16	21	33	1.95
6550103--6550316	89	2.4	89	81	5	247	28	14	20	37	1.91
6550103--6550412	88	3.5	87	76	8	263	28	14	20	37	1.91
6552145--6552189	15	2.8	16	80	10	56	33	0	6	60	1.23
6552428--6552507	23	3.4	23	70	17	58	31	7	6	55	1.53
6552414--6552493	23	3.5	22	73	14	56	32	5	6	56	1.46
6552625--6552676	22	2.5	19	74	14	50	34	3	5	55	1.42
6552797--6552836	11	3.7	11	87	12	57	37	0	5	57	1.21
6553008--6553110	23	4.4	23	72	18	70	31	8	5	54	1.55
6552210--6554042	580	3.1	579	90	5	2770	31	9	5	53	1.55
6552477--6554262	580	3.0	597	91	4	2832	31	10	4	52	1.57
6553805--6553856	22	2.5	19	74	14	50	34	3	5	55	1.42
6553977--6554016	11	3.7	11	87	12	57	37	0	5	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6563397--6563447	16	3.2	16	88	0	75	47	5	21	25	1.73
6587864--6587919	18	3.1	17	75	14	51	60	3	3	32	1.31
6588164--6588192	14	2.1	14	100	0	58	51	0	0	48	1.00
6588173--6588216	19	2.2	20	84	4	54	54	4	2	38	1.33
6590611--6590694	18	4.6	18	68	11	55	67	2	0	29	1.03
6590605--6590680	18	4.0	20	73	11	70	63	3	0	32	1.13
6590649--6590691	20	2.2	20	82	0	50	72	0	0	27	0.85
6590648--6590717	30	2.3	29	83	9	79	65	1	0	32	1.01
6592938--6593162	125	1.8	125	89	1	353	42	9	10	37	1.72
6595407--6596501	156	7.0	156	90	0	1638	38	15	15	30	1.89
6595407--6599095	312	12.0	312	86	3	4861	38	14	15	30	1.88
6595407--6598939	468	7.6	469	86	3	4321	38	14	15	30	1.88
6596515--6598939	156	15.6	156	89	2	3405	38	14	15	31	1.88
6598812--6599076	137	1.9	137	88	1	397	38	14	16	30	1.88
6604482--6604515	17	2.0	17	88	0	50	47	0	0	52	1.00
6606431--6606570	34	4.0	34	79	9	138	36	20	15	27	1.93
6606495--6606568	38	1.9	38	97	0	139	37	20	13	28	1.90
6611319--6611629	157	2.0	157	96	0	577	47	4	3	44	1.40
6611759--6611826	16	4.2	16	92	0	109	38	32	0	29	1.58
6614912--6614960	22	2.3	21	89	3	71	69	14	2	14	1.28
6615893--6615919	14	1.9	14	100	0	54	25	0	0	74	0.83
6617073--6617106	7	4.9	7	88	0	50	55	8	2	32	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6620534--6620572	16	2.4	16	82	0	51	43	7	2	46	1.46
6622591--6622625	15	2.2	16	90	5	54	62	0	0	37	0.95
6625948--6625987	17	2.5	17	80	11	50	35	0	5	60	1.19
6626431--6626492	18	3.3	18	75	24	58	29	1	3	66	1.17
6627303--6627391	10	8.6	9	70	24	52	61	4	1	32	1.23
6627304--6627393	20	4.8	18	73	20	62	60	4	1	34	1.24
6627341--6627381	20	2.0	20	90	9	66	63	4	2	29	1.28
6631241--6631296	24	2.3	23	77	14	60	58	7	5	28	1.46
6632625--6632707	15	5.3	15	75	16	78	0	14	9	75	1.03
6632661--6632704	19	2.3	19	88	4	61	0	13	9	77	0.99

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