genome.fa.s10.2.7.7.80.10.50.1000.121.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  121  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)
40230623--40230672	26	1.9	26	95	0	91	32	20	10	38	1.85
40231571--40231604	15	2.2	16	89	5	52	64	0	2	32	1.08
40235638--40235702	20	3.4	19	80	6	78	61	0	1	36	1.05
40235639--40235702	19	3.3	20	80	10	80	60	0	1	37	1.06
40235672--40235714	18	2.5	17	82	10	52	53	2	0	44	1.13
40235714--40235753	20	2.0	20	90	0	62	55	5	0	40	1.22
40238369--40238422	21	2.6	21	93	0	99	22	33	31	12	1.92
40247848--40247896	20	2.4	21	96	3	91	38	24	0	36	1.56
40248891--40248954	31	2.1	31	96	0	119	37	18	0	43	1.51
40250476--40250529	28	1.9	28	92	0	90	40	18	11	29	1.85
40255019--40255115	47	2.1	47	98	0	185	22	19	19	38	1.94
40261508--40261552	12	3.8	12	96	0	81	33	26	26	13	1.93
40281988--40282046	29	2.0	29	100	0	118	33	16	10	38	1.83
40290568--40290626	28	2.1	29	90	3	93	35	8	20	35	1.83
40295037--40295062	13	2.0	13	100	0	52	15	30	38	15	1.88
40299389--40299435	22	2.0	22	84	15	60	38	6	0	55	1.26
40307410--40307439	6	5.2	6	96	4	53	16	0	0	83	0.65
40309699--40309732	16	2.1	17	94	5	61	41	0	11	47	1.40
40325277--40325348	33	2.2	33	87	2	99	27	25	22	25	2.00
40345696--40345957	76	3.4	76	80	4	287	34	21	19	24	1.96
40345812--40345952	40	3.6	40	79	12	177	37	23	18	20	1.94
40345768--40345957	40	5.0	37	71	14	147	36	22	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40348797--40352993	497	8.4	497	99	0	8369	36	21	8	34	1.83
40353094--40353359	37	7.0	37	90	7	392	25	20	16	37	1.93
40353277--40353689	46	8.6	46	84	9	520	28	21	14	35	1.93
40353277--40353689	98	4.3	98	94	1	667	28	21	14	35	1.93
40365329--40365413	42	2.0	42	97	0	161	48	24	7	20	1.74
40369604--40369650	24	2.0	24	86	0	67	14	19	8	57	1.63
40369724--40369928	76	2.7	75	77	6	196	37	19	17	26	1.93
40374390--40374529	40	3.4	41	78	10	126	27	29	15	27	1.96
40376389--40376418	3	10.3	3	92	7	53	30	0	0	70	0.88
40377535--40377827	76	3.9	74	80	6	304	26	20	20	32	1.97
40377616--40377813	40	5.2	39	66	17	119	25	19	20	34	1.96
40377535--40377827	152	1.9	152	82	5	371	26	20	20	32	1.97
40379651--40379703	26	2.0	26	96	0	97	16	1	22	58	1.48
40381047--40381084	14	2.9	13	81	11	51	18	13	10	57	1.63
40386058--40386124	20	3.3	20	93	4	109	37	10	19	32	1.86
40386069--40386124	11	5.5	11	71	16	57	37	10	19	32	1.86
40386174--40386268	26	3.7	26	94	1	156	27	22	23	27	1.99
40389842--40390011	46	3.7	46	75	7	182	30	27	18	23	1.98
40389847--40390017	93	1.8	93	91	0	279	29	28	19	22	1.98
40392414--40392469	15	3.7	15	86	9	87	60	10	16	12	1.58
40395916--40396133	40	5.5	40	87	2	298	24	21	27	26	1.99
40404183--40404356	40	4.4	40	88	3	228	24	21	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40407074--40407337	93	2.8	93	97	0	483	28	28	20	23	1.98
40407120--40407288	47	3.6	47	77	13	213	28	27	18	24	1.98
40407069--40407334	46	5.7	46	74	15	260	29	27	19	23	1.98
40413332--40413359	8	3.5	8	100	0	56	42	21	21	14	1.88
40413473--40413512	21	2.0	20	90	5	62	20	20	40	20	1.92
40413858--40413914	9	5.8	10	76	15	57	36	8	19	35	1.83
40413857--40413931	20	3.8	20	91	6	111	37	9	18	34	1.83
40413876--40413931	11	5.5	11	71	16	57	37	10	19	32	1.86
40413981--40414052	26	2.8	26	85	2	92	30	23	19	26	1.98
40420212--40420388	55	3.2	55	89	0	246	31	29	12	26	1.93
40420212--40420363	27	5.6	27	92	3	232	30	28	13	27	1.94
40426182--40426299	40	3.0	40	92	0	200	34	29	20	15	1.93
40452195--40452254	21	2.8	23	80	9	65	21	0	8	70	1.14
40452224--40452275	27	2.0	25	85	7	68	30	0	5	63	1.18
40452534--40452603	29	2.4	29	95	2	124	27	31	12	28	1.93
40471043--40471098	25	2.3	25	87	3	78	58	5	5	30	1.42
40471381--40471449	26	2.7	26	80	8	77	60	1	8	28	1.35
40471725--40471758	17	2.0	17	88	0	50	61	0	5	32	1.20
40478221--40478320	28	3.5	28	80	8	121	33	30	16	21	1.94
40478221--40478381	57	2.8	57	87	0	214	30	29	18	22	1.97
40478409--40478695	40	7.2	40	93	0	477	26	27	20	25	1.99
40478409--40478702	119	2.5	120	93	0	491	27	26	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40479985--40480087	37	2.8	37	93	0	179	25	32	19	23	1.98
40480228--40481141	48	19.0	48	98	0	1774	31	29	6	33	1.82
40487805--40488264	71	6.5	71	80	1	472	36	23	16	23	1.94
40487810--40488272	142	3.3	142	81	3	536	36	22	16	24	1.94
40487805--40488264	213	2.2	213	81	2	521	36	23	16	23	1.94
40515469--40515574	54	2.0	54	100	0	212	45	13	20	20	1.84
40518392--40518497	53	2.0	53	98	0	203	27	15	33	24	1.95
40521362--40521764	200	2.0	200	99	0	788	33	11	23	32	1.91
40522797--40522868	22	3.4	22	70	14	78	27	26	18	27	1.98
40522788--40522874	42	2.1	41	95	2	156	25	26	18	29	1.98
40523684--40523856	46	3.7	46	79	11	201	22	20	27	29	1.99
40523681--40523851	93	1.8	93	91	2	281	22	21	28	28	1.99
40533644--40533756	58	1.9	58	98	0	217	32	20	19	27	1.97
40535688--40535827	72	1.9	72	98	0	271	37	8	13	40	1.75
40542727--40542768	20	2.2	19	87	12	59	38	0	4	57	1.20
40543091--40543142	13	3.9	13	80	9	52	75	3	7	13	1.17
40543905--40543991	40	2.2	40	85	0	111	34	8	16	41	1.77
40544245--40544285	18	2.2	19	86	4	57	21	26	12	39	1.89
40549983--40550050	34	2.0	34	91	0	109	48	11	19	20	1.80
40550156--40550217	3	21.0	3	83	3	81	37	1	1	59	1.17
40550501--40550547	13	3.5	14	80	5	53	76	2	8	12	1.09
40551312--40551398	40	2.2	40	87	0	120	33	9	16	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40553114--40553154	21	2.0	20	85	4	55	63	4	12	19	1.46
40555392--40555434	5	8.0	5	80	14	50	20	0	2	76	0.89
40559206--40559359	47	3.3	47	88	0	245	27	30	7	33	1.85
40566878--40566919	20	2.1	20	86	8	59	4	26	11	57	1.54
40567107--40567201	47	2.0	47	95	0	172	33	13	13	38	1.84
40568787--40568831	21	2.1	21	84	8	56	31	6	13	48	1.68
40570072--40570112	4	10.2	4	89	0	64	70	4	0	24	1.06
40570071--40570112	12	3.5	12	96	0	75	69	7	0	23	1.13
40570879--40570907	12	2.3	13	94	5	51	27	0	0	72	0.85
40576328--40576402	20	3.8	20	91	6	111	37	9	18	34	1.83
40576347--40576402	11	5.5	11	71	16	57	37	10	19	32	1.86
40576452--40576523	26	2.8	26	91	2	110	26	25	23	25	2.00
40579434--40579884	220	2.0	221	96	0	841	28	11	29	30	1.91
40584205--40584261	9	5.8	10	76	15	57	36	8	19	35	1.83
40584204--40584278	20	3.8	20	91	6	111	37	9	18	34	1.83
40584223--40584278	11	5.5	11	71	16	57	37	10	19	32	1.86
40584328--40584399	26	2.8	26	93	2	119	27	19	22	30	1.98
40585489--40585521	13	2.5	13	100	0	66	30	33	30	6	1.82
40586498--40586706	42	4.9	43	69	11	126	32	24	13	29	1.94
40616404--40616449	13	3.5	13	80	17	51	63	2	0	34	1.07
40616389--40616442	19	2.8	20	83	8	67	61	1	0	37	1.07
40619170--40619347	27	6.6	27	84	3	196	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40619191--40619346	82	1.9	81	88	3	233	29	28	15	26	1.96
40628048--40628172	28	4.6	27	90	4	187	29	28	13	28	1.94
40628048--40628172	55	2.3	55	91	2	198	29	28	13	28	1.94
40646605--40646747	55	2.6	55	74	2	144	32	30	23	13	1.93
40651071--40651102	16	2.0	16	93	0	55	31	9	18	40	1.83
40676937--40677162	92	2.5	92	81	4	251	32	19	23	24	1.97
40682078--40682108	16	1.9	16	93	0	53	35	22	0	41	1.54
40682075--40682114	20	2.0	20	85	0	53	37	22	0	40	1.54
40682300--40682554	55	4.8	52	80	8	234	21	24	17	36	1.95
40682347--40682547	108	1.8	110	88	4	309	22	24	18	34	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   168   169   170   171   172