genome.fa.s25.2.7.7.80.10.50.1000.165.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  165  of  297  ( 35593 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)
55594535--55594618	41	2.0	41	100	0	168	28	7	2	61	1.35
55598204--55598233	14	2.1	14	100	0	60	30	6	50	13	1.67
55598900--55599210	157	2.0	157	90	0	496	39	15	16	27	1.89
55601185--55601267	25	3.4	25	91	5	134	30	21	20	27	1.98
55601185--55601292	25	4.4	24	87	5	128	27	21	22	28	1.99
55601184--55601292	50	2.2	48	85	8	148	27	21	22	29	1.99
55601340--55601386	20	2.3	20	92	7	78	34	19	10	36	1.86
55609260--55609367	25	4.4	25	85	6	132	28	20	22	28	1.98
55609415--55609461	20	2.3	20	92	7	78	34	19	10	36	1.86
55609497--55609544	25	1.9	25	86	0	69	25	20	22	31	1.98
55610974--55611270	40	7.5	40	93	2	476	25	27	22	23	2.00
55612259--55612359	50	2.0	50	100	0	202	38	33	5	21	1.78
55612526--55612686	81	2.0	81	98	0	313	25	18	15	40	1.89
55618217--55618389	88	2.0	88	90	0	274	38	15	14	32	1.87
55624482--55624873	122	3.2	122	99	0	766	30	11	24	33	1.90
55633850--55634083	118	2.0	118	99	0	459	35	11	24	28	1.91
55635686--55635744	26	2.3	25	80	13	66	37	25	10	27	1.88
55635805--55635920	28	4.2	28	81	2	137	18	23	21	37	1.94
55635805--55635920	56	2.1	54	85	3	151	18	23	21	37	1.94
55654452--55654511	30	2.0	30	90	0	93	38	8	25	28	1.84
55655028--55655097	34	2.1	34	94	0	122	21	14	28	35	1.92
55658326--55658428	29	3.6	29	82	3	127	26	16	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55659332--55659362	16	1.9	16	93	0	53	41	6	22	29	1.78
55661025--55661209	79	2.3	82	84	7	238	25	27	22	24	2.00
55661006--55661209	40	5.1	40	82	8	238	25	27	22	25	2.00
55672556--55672586	13	2.3	14	94	5	55	48	12	6	32	1.67
55675463--55675652	56	3.4	56	88	1	274	32	22	15	29	1.95
55680995--55681099	39	2.6	39	86	5	122	24	22	27	24	2.00
55680955--55681118	40	4.1	40	80	12	169	25	23	27	24	2.00
55680955--55681105	79	1.9	80	82	6	191	25	23	27	23	2.00
55690219--55690359	40	3.5	40	82	11	157	25	23	27	23	2.00
55706413--55706453	17	2.4	17	88	8	57	7	31	2	58	1.38
55711380--55711421	21	2.0	21	90	0	66	38	11	23	26	1.90
55722291--55722367	35	2.2	35	88	2	111	38	18	3	38	1.69
55724691--55724719	14	2.0	15	93	6	51	51	20	0	27	1.47
55732541--55732616	38	2.0	38	100	0	152	34	21	26	18	1.96
55735028--55735145	45	2.7	44	81	8	118	29	29	17	22	1.97
55747704--55747861	24	6.5	24	69	11	97	25	14	28	31	1.95
55757341--55757500	24	6.5	24	66	9	99	25	14	28	31	1.95
55763156--55763184	14	2.0	15	93	6	51	51	20	0	27	1.47
55764947--55765034	42	2.1	43	86	2	124	36	23	17	22	1.94
55772523--55772652	46	2.8	46	77	4	145	30	30	18	20	1.97
55778417--55778594	27	6.6	27	84	3	205	29	28	15	26	1.96
55778438--55778593	82	1.9	81	88	3	233	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)
55786607--55786784	27	6.6	27	84	3	205	29	28	15	26	1.96
55786628--55786783	82	1.9	81	88	3	233	29	28	15	26	1.96
55790969--55791080	44	2.6	42	81	5	136	27	16	25	30	1.97
55790970--55791081	42	2.6	44	81	5	140	27	17	24	30	1.97
55801453--55801989	38	12.9	38	74	16	347	32	22	15	30	1.94
55801460--55801912	85	5.4	85	80	10	458	31	23	14	30	1.94
55801545--55801914	123	3.0	123	95	0	650	31	24	14	29	1.94
55801829--55801966	48	2.9	48	86	2	181	33	20	15	31	1.93
55804707--55804752	15	3.1	15	87	0	65	54	15	15	15	1.72
55808025--55808157	38	3.3	38	69	20	115	31	24	12	31	1.92
55808002--55808208	85	2.4	85	95	0	360	30	24	14	30	1.94
55808059--55808247	48	4.2	47	73	15	182	32	24	13	29	1.93
55818715--55818902	49	3.8	49	82	2	250	27	26	20	26	1.99
55818720--55818904	100	1.9	100	95	0	334	27	26	21	24	1.99
55820332--55821099	383	2.0	383	96	0	1428	33	13	15	37	1.87
55826656--55826725	35	2.0	35	97	0	131	44	22	15	17	1.86
55828733--55828862	29	4.5	29	89	3	190	35	7	28	28	1.85
55828758--55828875	58	2.0	58	81	3	139	35	10	27	26	1.89
55845973--55846241	47	5.7	46	76	12	235	27	19	30	22	1.98
55852030--55852134	40	2.6	39	85	8	140	27	27	22	21	1.99
55861797--55861934	40	3.5	40	88	3	181	24	27	23	24	2.00
55861830--55861938	40	2.7	40	91	0	182	25	27	22	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55866189--55866340	27	5.6	27	93	3	232	30	28	13	26	1.94
55866189--55866365	55	3.2	55	90	0	264	31	29	13	25	1.94
55870849--55871004	39	4.0	39	99	0	303	23	30	25	20	1.98
55876614--55876928	39	8.1	39	99	0	612	23	30	25	20	1.98
55880813--55880962	42	3.5	42	75	8	126	26	20	25	27	1.99
55880793--55880962	85	2.0	85	80	8	195	27	20	24	28	1.99
55892287--55892332	23	2.0	23	82	0	56	30	4	8	56	1.49
55894129--55894165	17	2.2	17	100	0	74	16	10	24	48	1.77
55897741--55898091	47	7.4	47	93	1	567	32	8	30	28	1.87
55908685--55908745	30	2.0	30	83	0	77	31	24	6	37	1.81
55911176--55911200	12	2.1	12	100	0	50	24	16	16	44	1.86
55916566--55917051	27	18.2	27	78	6	402	31	9	19	39	1.84
55916589--55917051	185	2.5	186	81	6	510	31	9	19	39	1.83
55916578--55917061	159	3.0	158	80	7	476	31	9	18	40	1.83
55917377--55917496	28	4.3	28	90	0	177	27	37	15	20	1.92
55928658--55928799	27	5.3	27	81	6	162	40	21	8	29	1.83
55928658--55928808	81	1.9	81	85	2	214	39	22	7	29	1.82
55928802--55928968	54	3.1	54	89	0	235	31	20	8	39	1.82
55928810--55928969	27	5.9	27	80	2	169	31	21	8	39	1.82
55928839--55929011	81	2.1	81	83	2	213	34	22	8	35	1.84
55928812--55928998	54	3.5	54	86	0	203	32	21	8	37	1.84
55928904--55929060	54	2.9	53	80	2	143	42	21	7	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55928962--55929063	27	3.8	27	70	5	80	45	19	7	27	1.78
55929072--55929267	27	7.3	27	88	0	266	34	21	21	22	1.97
55929669--55929770	31	3.3	31	90	0	159	20	16	14	48	1.82
55929669--55929812	6	23.3	6	66	16	62	20	18	14	47	1.83
55929737--55929798	25	2.5	25	89	0	88	19	17	14	48	1.81
55931811--55931952	27	5.3	27	79	6	153	41	21	6	30	1.78
55931955--55932107	54	2.8	54	92	0	243	28	22	6	41	1.79
55931955--55932107	81	1.9	81	90	0	243	28	22	6	41	1.79
55931962--55932107	27	5.4	27	89	0	220	28	23	6	41	1.80
55931965--55932151	54	3.5	54	85	1	196	32	22	7	37	1.82
55931966--55932151	81	2.3	81	83	1	221	32	22	7	37	1.82
55932074--55932213	54	2.6	54	83	2	156	41	22	6	29	1.79
55932168--55932239	27	2.7	27	84	2	83	38	22	9	29	1.86
55932227--55932365	27	5.1	27	85	0	179	33	19	21	25	1.97
55932198--55932365	54	3.1	53	82	4	169	33	20	19	26	1.96
55932767--55932868	31	3.3	31	94	0	177	20	15	15	48	1.82
55932767--55932901	6	21.8	6	68	17	71	20	17	14	47	1.83
55932829--55932896	25	2.7	25	86	0	91	19	17	14	48	1.81
55939734--55939758	11	2.3	11	100	0	50	32	0	16	52	1.44
55943099--55943148	25	2.0	25	96	0	91	30	6	24	40	1.79
55945352--55945473	43	2.9	42	82	2	154	31	17	23	27	1.97
55972031--55972083	23	2.4	22	76	20	56	9	18	1	69	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55975819--55975989	93	1.8	93	96	0	315	28	29	21	21	1.98
55975814--55975986	46	3.7	46	80	13	219	28	28	21	21	1.98
55976409--55976468	30	2.0	30	90	0	93	30	25	8	36	1.85
55983409--55983579	93	1.8	93	96	0	315	28	29	21	21	1.98
55983404--55983576	46	3.7	46	80	13	219	28	28	21	21	1.98
55983997--55984056	30	2.0	30	90	0	93	30	25	8	36	1.85
55989044--55989115	37	2.0	34	81	7	81	5	37	1	55	1.32
55999896--55999920	5	5.0	5	100	0	50	0	20	0	80	0.72
56004165--56004284	46	2.6	46	98	0	231	19	25	30	25	1.98
56006326--56006458	69	1.9	70	87	1	196	31	15	16	36	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   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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297