genome.fa.s4.2.7.7.80.10.50.1000.142.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  142  of  235  ( 28198 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)
47783387--47783940	116	4.9	116	88	7	856	43	13	13	29	1.82
47783387--47783940	217	2.5	217	90	5	835	43	13	13	29	1.82
47783718--47783920	102	2.0	102	93	2	347	42	12	14	30	1.82
47783834--47784183	76	4.8	76	83	14	481	44	12	10	32	1.76
47783834--47784183	141	2.4	144	90	3	539	44	12	10	32	1.76
47785409--47785468	24	2.5	24	89	2	95	23	10	8	58	1.57
47786730--47786759	15	2.0	15	93	0	51	26	3	3	66	1.23
47788493--47788735	43	5.6	42	84	2	163	23	17	30	29	1.97
47788511--47788736	86	2.6	86	89	0	326	22	18	31	27	1.97
47794817--47794846	13	2.2	14	94	5	53	26	0	0	73	0.84
47796192--47796247	27	2.1	27	89	0	85	19	14	25	41	1.89
47799998--47800050	19	2.8	19	94	0	97	37	15	9	37	1.79
47800602--47801069	44	10.7	45	73	12	298	26	23	21	28	1.99
47800649--47801069	173	2.4	171	78	8	390	26	23	21	28	1.99
47800552--47801086	217	2.5	217	86	4	695	26	22	20	30	1.99
47801435--47801556	44	2.8	44	80	9	142	28	24	18	27	1.98
47801556--47802132	88	6.6	88	90	1	870	20	23	27	27	1.99
47801544--47802133	263	2.2	263	89	0	876	21	23	28	27	1.99
47809118--47809171	19	2.8	19	94	0	99	37	16	9	37	1.81
47809095--47809171	38	1.9	40	87	10	113	38	16	7	36	1.78
47809443--47809498	29	1.9	30	85	10	80	33	25	16	25	1.95
47809516--47809869	61	5.8	61	79	3	318	29	22	12	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47809516--47809867	122	2.9	122	83	1	375	29	22	12	34	1.92
47812285--47812316	17	1.9	16	100	0	55	62	9	0	28	1.26
47817936--47817964	9	3.3	9	95	4	51	17	0	0	82	0.66
47817936--47817972	17	2.1	18	90	5	58	18	0	0	81	0.70
47818655--47818875	3	74.0	3	69	7	128	33	5	3	57	1.40
47818908--47818941	18	1.9	18	88	5	52	26	2	2	67	1.19
47825154--47825211	24	2.4	24	97	0	107	31	12	27	29	1.92
47825860--47825973	45	2.6	43	83	4	129	28	19	23	28	1.98
47825680--47826244	44	12.5	44	72	10	336	30	20	20	28	1.98
47825665--47826346	227	3.0	227	90	0	1051	31	19	20	28	1.97
47826877--47826949	36	2.0	36	97	0	137	20	47	20	10	1.80
47827808--47828036	3	77.0	3	70	8	137	32	4	3	58	1.37
47828545--47828570	13	2.0	13	100	0	52	23	7	23	46	1.78
47831447--47831472	12	2.2	12	100	0	52	26	15	34	23	1.94
47849736--47849794	24	2.3	26	82	5	68	55	5	10	28	1.54
47849760--47849814	21	2.5	22	82	8	58	61	5	7	25	1.44
47850060--47850147	25	3.5	24	84	6	104	67	2	3	27	1.19
47850079--47850170	25	3.7	25	87	8	111	71	2	0	26	0.97
47851016--47851141	44	2.9	44	70	0	117	28	15	21	34	1.93
47851024--47851160	44	3.1	44	65	11	109	29	16	22	31	1.96
47851184--47851539	142	2.5	142	86	1	489	28	21	21	29	1.98
47852349--47852451	54	1.9	53	88	2	152	10	27	17	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47852898--47852993	9	10.9	9	77	15	60	2	5	12	80	0.97
47852894--47852991	6	16.0	6	73	23	55	2	5	13	79	0.98
47852901--47852993	16	5.8	16	78	14	86	2	5	11	80	0.96
47852894--47852991	31	3.2	30	81	14	112	2	5	13	79	0.98
47852901--47852993	8	11.6	8	73	16	77	2	5	11	80	0.96
47853593--47853654	31	2.0	31	90	0	97	48	1	12	37	1.51
47857302--47857456	25	6.5	22	71	14	76	57	1	7	33	1.37
47857315--47857456	49	2.9	49	75	9	117	57	2	7	33	1.38
47857396--47857466	23	3.0	23	89	8	99	66	1	0	32	1.01
47857398--47857478	23	3.4	23	85	11	76	67	2	1	28	1.11
47865490--47865524	18	1.9	18	88	0	52	28	17	11	42	1.83
47868778--47868814	18	2.0	19	89	5	58	24	0	29	45	1.53
47872534--47872806	40	6.8	40	83	5	329	19	28	15	36	1.92
47872626--47872766	20	7.0	21	66	15	82	19	31	13	34	1.91
47872534--47872806	120	2.3	120	86	3	370	19	28	15	36	1.92
47873601--47873654	25	2.2	25	86	0	72	22	31	35	11	1.89
47873644--47873676	13	2.5	13	100	0	66	21	27	33	18	1.96
47882649--47883004	87	4.1	87	92	0	577	28	21	24	24	1.99
47882879--47883331	227	2.0	227	99	0	888	28	23	24	23	2.00
47883203--47883458	127	2.0	127	100	0	512	28	23	25	22	1.99
47883723--47883752	14	2.2	13	94	5	51	83	0	0	16	0.65
47888617--47888663	24	2.1	21	84	11	58	31	4	40	23	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47889992--47890242	27	9.3	27	72	13	121	41	18	17	22	1.90
47889992--47890242	54	4.6	53	73	15	192	41	18	17	22	1.90
47890018--47890241	81	2.8	81	78	8	206	41	18	17	22	1.90
47889992--47890240	108	2.3	107	81	8	288	41	18	16	22	1.90
47891289--47891321	18	1.9	17	88	11	50	42	12	15	30	1.83
47894947--47895056	40	2.8	40	82	0	121	18	25	17	39	1.92
47894985--47895059	20	3.8	19	71	13	62	18	25	16	40	1.91
47895123--47895192	20	3.5	20	71	7	61	12	37	15	34	1.86
47895082--47895208	40	3.2	40	88	1	175	15	33	15	35	1.90
47895143--47895207	20	3.2	20	72	8	60	13	36	13	35	1.85
47896100--47896270	93	1.8	93	85	0	243	33	28	12	25	1.93
47898702--47898739	5	7.4	5	83	16	51	78	0	0	21	0.74
47898702--47898743	16	2.7	17	89	10	56	76	0	0	23	0.79
47899588--47899635	21	2.3	21	100	0	96	39	18	14	27	1.90
47905054--47905590	102	5.3	102	95	0	939	31	27	20	20	1.97
47908058--47908088	12	2.6	12	100	0	62	54	12	0	32	1.38
47911008--47911088	26	3.2	26	62	22	62	25	13	27	33	1.94
47911008--47911189	51	3.6	51	83	2	197	25	17	26	30	1.97
47924504--47924545	19	2.2	20	87	8	61	19	7	0	73	1.05
47934240--47934306	30	2.2	30	94	0	116	20	26	25	26	1.99
47936557--47936604	25	1.9	25	100	0	96	25	29	14	31	1.95
47941265--47941336	35	2.1	35	97	0	135	54	5	20	19	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47943130--47943602	99	4.7	99	81	5	553	32	23	20	23	1.98
47943142--47943615	50	9.5	50	69	3	265	32	23	21	22	1.98
47943142--47943622	149	3.2	149	72	7	425	31	23	21	23	1.98
47943130--47943673	99	5.5	99	81	4	551	32	23	20	24	1.98
47959711--47959745	14	2.5	14	90	0	52	80	0	20	0	0.72
47961724--47962084	42	8.5	41	74	14	281	35	25	15	23	1.94
47961680--47962083	85	4.8	85	95	0	673	35	25	15	23	1.94
47963065--47963266	57	3.4	58	89	7	282	10	25	14	49	1.75
47965856--47965903	20	2.4	20	96	0	87	10	12	14	62	1.54
47987186--47987220	8	4.4	8	100	0	70	48	0	11	40	1.39
47999940--47999982	21	2.0	22	90	4	70	25	0	6	67	1.15
48001850--48001965	59	2.0	55	85	6	151	50	4	0	44	1.27
48001850--48001966	62	1.9	59	84	5	153	50	4	0	44	1.27
48001951--48002005	25	2.2	25	81	12	60	49	5	1	43	1.36
48008913--48009056	61	2.4	60	80	3	164	13	29	19	37	1.90
48017841--48017873	5	6.4	5	93	6	57	21	3	0	75	0.93
48021606--48021669	30	2.1	30	97	0	119	32	17	10	39	1.84
48022384--48022420	17	2.2	17	95	0	65	37	0	10	51	1.37
48025427--48025452	13	2.0	13	100	0	52	30	23	0	46	1.53
48026350--48026517	51	3.3	50	90	1	255	27	23	14	33	1.94
48030312--48030395	32	2.6	32	81	5	107	28	1	19	51	1.54
48031647--48031702	22	2.5	22	88	2	85	50	0	3	46	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48031707--48031794	33	2.7	32	78	13	99	46	18	9	26	1.78
48031785--48031824	20	2.0	20	100	0	80	45	15	10	30	1.78
48031775--48031838	34	1.9	32	87	12	94	42	15	7	34	1.76
48031808--48031845	14	2.7	14	88	8	51	39	15	5	39	1.70
48032105--48032144	20	2.1	19	95	4	71	30	10	15	45	1.78
48032138--48032221	33	2.6	31	78	12	89	28	9	15	46	1.77
48032242--48032280	20	2.0	20	94	0	69	48	2	0	48	1.15
48033830--48033854	13	1.9	13	100	0	50	40	8	40	12	1.72
48052730--48052762	12	2.8	12	86	13	50	66	0	0	33	0.92
48062097--48062124	14	2.0	14	100	0	56	35	14	0	50	1.43

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235