genome.fa.s4.2.7.7.80.10.50.1000.181.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  181  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)
61565444--61565811	54	6.8	55	79	7	335	29	9	21	39	1.84
61565444--61565811	81	4.5	81	81	5	370	29	9	21	39	1.84
61575247--61575315	28	2.5	28	90	0	102	24	11	31	31	1.91
61575249--61575330	28	2.9	28	85	0	92	24	10	31	32	1.90
61585270--61585348	37	2.1	37	90	0	122	25	31	18	24	1.98
61585467--61585877	47	8.7	47	97	0	750	29	30	8	32	1.86
61587016--61587057	18	2.3	18	100	0	84	42	19	4	33	1.72
61588683--61588746	31	2.1	31	90	0	101	25	23	15	35	1.94
61588960--61589101	23	6.1	23	92	0	221	32	21	19	26	1.97
61589148--61589188	20	2.0	20	95	0	73	34	21	9	34	1.87
61593660--61593739	27	3.0	27	78	10	78	23	23	18	33	1.97
61593793--61594076	27	10.4	27	78	5	142	34	9	19	36	1.84
61593790--61594008	54	4.0	54	77	9	171	31	10	18	39	1.84
61593883--61594022	54	2.6	54	83	7	185	30	8	22	39	1.84
61593974--61594197	54	4.1	54	86	2	180	39	8	22	29	1.84
61593972--61594228	81	3.2	81	80	0	262	37	8	22	30	1.85
61594001--61594211	27	7.8	27	87	2	280	38	8	24	27	1.84
61594001--61594204	54	3.8	54	90	0	309	39	8	23	28	1.84
61594217--61594306	27	3.3	27	85	3	119	32	11	16	40	1.84
61594000--61594265	81	3.3	80	79	6	248	37	9	23	29	1.86
61594200--61594306	54	2.0	54	81	7	128	30	11	19	38	1.87
61594217--61594321	27	3.9	27	78	9	90	34	10	16	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61596148--61596201	22	2.6	20	76	5	54	37	25	5	31	1.79
61596791--61596826	15	2.4	15	90	0	54	50	13	13	22	1.77
61602583--61602692	43	2.6	43	80	11	118	23	17	27	31	1.97
61609064--61609573	255	2.0	255	96	0	948	43	19	14	22	1.87
61609553--61609641	45	2.0	45	95	0	160	38	11	29	21	1.88
61624856--61625018	81	2.0	81	97	0	308	34	11	4	49	1.60
61625204--61625237	14	2.4	14	100	0	68	44	11	5	38	1.65
61629057--61629169	43	2.7	43	80	12	133	30	23	20	26	1.98
61635512--61635638	64	1.9	65	80	10	143	26	24	27	21	1.99
61637884--61638061	40	4.5	40	88	2	252	25	28	23	23	1.99
61645289--61645585	40	7.5	40	94	2	476	25	28	23	22	1.99
61650585--61650613	14	2.0	15	93	6	51	27	0	20	51	1.47
61658066--61658141	31	2.4	32	93	6	138	23	25	18	32	1.97
61658347--61658431	25	3.4	25	82	12	77	28	22	20	29	1.98
61658360--61658455	26	3.8	26	88	2	126	26	22	23	27	2.00
61658588--61658635	25	1.9	25	86	0	69	29	16	22	31	1.96
61665016--61665076	30	2.0	30	83	0	77	31	22	8	37	1.84
61678440--61678641	24	8.0	24	76	14	174	39	15	22	23	1.92
61678436--61678653	52	4.2	52	89	2	325	37	14	23	23	1.92
61678464--61678606	28	5.4	28	78	13	122	39	15	22	23	1.92
61686516--61686639	43	3.0	42	83	5	162	30	16	21	31	1.95
61690840--61691013	46	3.7	46	74	9	140	29	18	28	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61690939--61691068	46	2.9	44	83	8	149	29	19	28	23	1.98
61692379--61692518	29	4.9	28	81	6	113	25	32	15	25	1.95
61692374--61692513	58	2.4	58	81	4	151	25	32	16	25	1.96
61692404--61692525	29	4.2	29	84	1	129	27	31	14	27	1.95
61695035--61695106	34	2.1	34	100	0	144	12	19	31	36	1.89
61703643--61703783	46	3.1	44	80	11	158	24	31	17	25	1.97
61710771--61710815	15	2.8	17	83	12	60	46	0	15	37	1.46
61710861--61710927	28	2.4	28	100	0	134	37	8	8	44	1.67
61727610--61727847	51	4.7	51	75	2	174	25	15	25	32	1.96
61729623--61729675	26	2.0	26	100	0	106	30	7	18	43	1.78
61741223--61741275	22	2.4	23	87	9	83	35	16	22	24	1.95
61741750--61742038	27	10.7	27	78	5	181	30	8	19	40	1.82
61741825--61742020	54	3.6	54	80	5	200	29	8	20	41	1.81
61741762--61742045	81	3.5	80	75	7	236	30	8	19	42	1.80
61741922--61742071	81	1.9	81	81	5	187	29	11	21	38	1.88
61749759--61749947	50	3.7	51	82	2	200	25	16	25	31	1.96
61749759--61749977	51	4.3	51	77	6	194	25	15	26	31	1.96
61752537--61752714	27	6.6	27	84	3	205	29	28	15	26	1.96
61752558--61752713	82	1.9	81	88	3	233	29	28	15	26	1.96
61753262--61753286	13	1.9	13	100	0	50	32	16	20	32	1.94
61757362--61757564	102	2.0	102	97	0	379	27	11	17	43	1.83
61758739--61758776	14	2.7	14	95	0	67	63	0	10	26	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61759850--61759928	15	5.3	15	82	7	90	10	15	13	60	1.58
61759841--61759928	30	3.0	30	80	9	101	10	14	15	59	1.61
61760678--61760718	19	2.2	19	90	0	64	51	0	9	39	1.35
61761061--61761149	39	2.3	39	96	0	160	19	21	29	30	1.97
61765101--61765223	42	2.9	42	75	10	133	24	17	27	30	1.97
61765096--61765235	43	3.3	42	74	10	149	23	17	27	30	1.97
61765096--61765278	85	2.1	86	83	5	219	26	18	25	30	1.98
61767864--61768013	67	2.2	67	81	8	171	32	17	28	21	1.96
61767888--61768071	67	2.8	64	77	8	194	29	17	29	22	1.97
61772310--61772459	67	2.2	67	81	8	171	32	17	28	21	1.96
61772334--61772517	67	2.8	64	77	8	194	29	17	29	22	1.97
61777397--61777460	31	2.1	31	90	0	101	25	23	15	35	1.94
61777654--61777869	24	9.0	24	96	1	389	28	21	20	29	1.98
61777927--61777983	9	5.9	9	73	15	51	35	21	8	35	1.84
61777915--61777985	20	3.5	20	94	0	124	32	21	11	35	1.89
61777920--61777974	11	5.4	11	70	16	55	30	20	12	36	1.90
61778022--61778069	25	1.9	25	86	0	69	25	16	25	33	1.96
61782054--61782364	40	7.8	40	88	1	419	25	23	27	24	2.00
61803765--61803805	21	2.0	21	90	0	64	56	2	9	31	1.45
61803765--61803812	21	2.3	21	85	0	60	56	2	10	31	1.45
61803802--61803842	19	2.2	19	86	4	57	60	0	9	29	1.28
61806736--61806796	25	2.4	25	83	0	77	9	26	40	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61810714--61810796	28	3.0	28	87	1	123	20	26	16	36	1.94
61810714--61810821	28	3.9	28	85	1	112	23	25	15	36	1.94
61810714--61810828	55	2.1	54	83	4	142	22	24	16	36	1.94
61818545--61818627	27	3.0	27	83	1	112	19	24	20	36	1.95
61824255--61824314	24	2.5	24	82	12	63	23	1	20	55	1.53
61830456--61830592	38	3.6	38	81	3	157	19	19	27	33	1.96
61832498--61832582	26	3.3	26	93	0	134	36	21	9	32	1.85
61832570--61832655	26	3.3	26	95	0	145	31	9	22	37	1.86
61834140--61834192	26	2.0	26	85	7	72	35	22	16	24	1.95
61839641--61839696	26	2.2	26	96	0	103	30	7	25	37	1.82
61841232--61841284	26	2.0	26	82	7	63	39	18	15	26	1.90
61846016--61846166	67	2.2	68	79	13	170	31	17	29	21	1.96
61849964--61850024	30	2.0	30	87	0	86	37	8	24	29	1.84
61858186--61858220	13	2.7	13	90	0	61	65	2	0	31	1.07
61858460--61858514	20	2.8	20	94	0	101	34	25	25	14	1.94
61860269--61860307	18	2.2	18	85	0	51	7	23	0	69	1.14
61862428--61862462	13	2.7	13	95	0	61	62	5	0	31	1.18
61865844--61865906	31	2.0	31	100	0	126	41	3	12	42	1.59
61868332--61868512	87	2.1	87	91	2	292	27	22	28	22	1.99
61891941--61892016	24	3.2	24	78	10	77	64	1	0	34	1.02
61897406--61897445	19	2.1	19	95	0	71	30	22	5	42	1.75
61898628--61898670	22	2.0	22	90	0	68	79	0	18	2	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61904163--61904187	4	6.2	4	100	0	50	24	0	0	76	0.80
61905660--61905698	9	4.6	8	84	9	51	38	0	0	61	0.96
61905660--61905698	17	2.3	18	86	8	55	38	0	0	61	0.96
61905662--61905707	18	2.4	20	75	17	53	36	2	0	60	1.09
61906165--61906227	8	8.0	8	72	13	51	28	1	1	68	1.08
61909188--61909212	9	2.8	9	100	0	50	44	0	0	56	0.99
61911406--61911482	38	2.0	38	100	0	154	36	0	20	42	1.53
61923075--61923250	47	3.7	47	88	1	237	32	9	30	27	1.88
61923369--61923447	37	2.1	37	88	4	115	25	18	30	25	1.98
61928853--61928935	40	2.1	40	95	0	148	22	28	21	26	1.99

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   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