genome.fa.s25.2.7.7.80.10.50.1000.106.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  106  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)
38044634--38044749	40	2.9	40	84	7	164	24	24	26	25	2.00
38045455--38045525	36	2.0	36	91	5	117	32	18	22	26	1.97
38048642--38048706	32	2.0	32	93	0	112	26	21	20	32	1.97
38053237--38053367	40	3.3	40	81	1	147	28	27	21	22	1.99
38053717--38054118	200	2.0	200	99	0	786	28	19	10	41	1.84
38074706--38074806	43	2.4	42	78	5	103	31	20	17	29	1.96
38074771--38074853	43	1.9	43	82	4	105	38	25	12	24	1.89
38078430--38078600	93	1.8	93	94	0	306	29	28	21	21	1.98
38078425--38078597	46	3.7	46	79	13	210	30	27	20	21	1.98
38080999--38081054	15	3.7	15	86	9	87	60	10	16	12	1.58
38090064--38090133	28	2.5	28	84	9	90	31	27	12	28	1.93
38093522--38093582	30	2.0	30	83	0	77	29	22	8	39	1.83
38107678--38107800	52	2.4	52	88	1	185	52	9	21	16	1.71
38109257--38109300	22	2.0	21	83	16	54	31	18	13	36	1.90
38118311--38118493	79	2.3	81	84	7	232	25	27	22	24	2.00
38118290--38118493	40	5.1	40	82	8	238	25	27	22	24	2.00
38121969--38122200	56	4.1	56	98	0	446	45	9	21	22	1.81
38122989--38123173	40	4.6	40	89	1	246	24	19	29	25	1.98
38123412--38123452	12	3.7	12	75	18	52	29	0	19	51	1.47
38123411--38123454	21	2.1	21	100	0	88	29	0	18	52	1.46
38125739--38126214	238	2.0	238	97	0	900	35	21	10	32	1.87
38127603--38127864	48	5.5	48	78	7	244	26	30	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38127614--38127863	96	2.6	95	82	5	295	26	30	17	25	1.97
38127568--38127873	144	2.1	144	78	4	321	26	28	18	26	1.98
38137328--38137560	38	6.1	38	95	1	394	20	23	25	30	1.99
38141868--38141970	27	3.8	27	84	5	127	37	20	17	24	1.93
38141879--38141981	27	3.8	28	86	7	126	39	21	17	21	1.92
38142328--38142384	18	3.2	18	82	2	71	22	17	17	42	1.89
38145365--38145480	27	4.3	26	81	6	115	42	18	18	20	1.90
38145365--38145480	54	2.1	54	81	9	139	42	18	18	20	1.90
38145812--38145870	18	3.3	18	74	9	57	23	22	15	38	1.92
38148939--38149021	27	3.1	27	82	6	80	36	19	16	27	1.93
38148976--38149074	27	3.7	27	77	0	108	38	21	20	20	1.94
38148976--38149089	27	4.2	26	75	8	95	38	19	20	21	1.93
38149408--38149463	18	3.1	18	75	10	60	23	21	16	39	1.92
38152219--38152307	28	3.2	27	75	3	88	26	14	26	31	1.95
38152203--38152286	28	3.0	28	77	1	98	25	11	27	35	1.91
38152205--38152330	55	2.3	57	86	4	168	28	12	26	32	1.93
38153753--38153817	30	2.2	30	91	0	103	16	27	29	26	1.97
38155642--38155764	22	5.3	22	64	21	72	32	12	29	26	1.92
38155626--38155810	47	3.9	47	89	0	280	33	11	28	27	1.91
38155626--38155810	94	2.0	94	93	0	316	33	11	28	27	1.91
38156015--38156159	37	3.9	37	97	0	263	23	19	31	25	1.98
38165017--38165130	42	2.7	41	79	4	129	32	25	14	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38167353--38167735	40	9.6	40	90	3	504	26	27	20	25	1.99
38167667--38167744	40	1.9	41	82	10	97	26	28	20	24	1.99
38180186--38180287	43	2.4	43	83	3	125	28	24	17	29	1.97
38184618--38184685	29	2.3	29	82	5	84	27	29	13	29	1.94
38184507--38184834	174	1.9	174	98	0	629	30	24	14	30	1.95
38184787--38184865	29	2.7	30	82	13	110	29	30	15	25	1.96
38188950--38189127	27	6.6	27	84	3	205	29	28	15	26	1.96
38188971--38189126	82	1.9	81	88	3	233	29	28	15	26	1.96
38197428--38197605	27	6.6	27	83	5	180	29	28	15	26	1.96
38197449--38197604	82	1.9	81	86	3	224	28	28	16	26	1.97
38203802--38203840	17	2.2	17	86	4	51	79	0	20	0	0.73
38205096--38205353	40	6.5	40	93	2	396	22	23	28	25	1.99
38220528--38220728	108	1.8	110	88	4	309	34	16	24	23	1.95
38229530--38229622	28	3.3	28	83	3	116	32	30	11	25	1.92
38229629--38229732	40	2.6	40	81	0	100	31	28	17	22	1.96
38234192--38234484	146	2.0	146	99	0	577	24	18	19	36	1.94
38236556--38236611	28	2.0	28	92	0	94	25	26	21	26	1.99
38253177--38253360	40	4.6	40	83	6	205	23	21	27	27	1.99
38253177--38253357	80	2.3	81	84	9	230	23	21	27	27	1.99
38260597--38260864	134	2.0	134	96	0	491	29	21	18	30	1.97
38264438--38264492	20	2.7	19	86	5	74	36	18	21	23	1.95
38266109--38266168	28	2.2	27	81	3	66	50	13	6	30	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38269316--38269372	15	3.8	14	77	13	60	3	19	1	75	1.04
38269328--38269369	22	1.9	22	85	9	59	4	11	2	80	0.95
38272129--38272208	28	2.8	29	67	19	76	33	8	12	45	1.73
38273146--38273233	46	1.9	46	95	0	158	23	19	20	36	1.95
38283439--38283500	27	2.3	27	81	13	74	29	14	11	45	1.80
38285734--38285778	18	2.5	17	86	10	63	64	0	13	22	1.28
38286677--38286773	24	3.9	25	72	12	83	75	3	15	6	1.13
38286677--38286773	25	3.9	24	71	15	72	75	3	15	6	1.13
38286706--38286741	18	2.0	18	88	0	54	80	2	11	5	0.98
38291369--38291546	27	6.6	27	79	3	151	28	29	16	25	1.97
38291369--38291546	54	3.3	55	81	3	173	28	29	16	25	1.97
38298456--38298512	26	2.2	26	81	6	62	12	26	0	61	1.31
38301809--38301843	18	1.9	18	88	11	54	22	20	0	57	1.41
38301913--38301942	15	1.9	16	93	6	53	3	16	0	80	0.85
38301831--38301929	6	16.0	6	72	10	74	6	19	4	70	1.24
38302803--38302827	11	2.3	11	100	0	50	20	12	8	60	1.57
38308066--38308125	30	2.0	30	93	6	104	16	20	13	50	1.78
38312668--38313570	40	22.6	40	98	0	1743	24	27	20	27	1.99
38317372--38317454	41	2.0	41	97	0	157	40	26	18	14	1.88
38320460--38320562	40	2.6	40	92	0	161	20	29	24	26	1.99
38321168--38321297	63	2.1	63	97	0	242	30	18	10	40	1.85
38322732--38322816	41	2.1	41	95	0	152	41	7	2	49	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38334727--38334844	43	2.8	42	83	5	121	33	23	16	25	1.96
38334754--38334880	42	2.9	43	82	8	143	32	25	18	23	1.97
38334754--38334880	44	3.0	42	82	8	132	32	25	18	23	1.97
38339901--38339945	23	2.0	23	86	0	63	37	6	24	31	1.81
38348362--38348424	27	2.3	28	78	10	76	46	4	4	44	1.45
38349506--38349539	17	2.0	17	88	11	52	14	2	17	64	1.40
38357725--38357761	19	2.0	19	89	5	58	24	13	32	29	1.93
38358025--38358111	27	3.2	27	88	3	122	18	24	20	36	1.95
38361186--38361274	42	2.1	41	88	8	135	21	22	33	22	1.97
38364379--38364411	13	2.6	13	90	4	50	39	0	12	48	1.40
38376002--38376265	40	6.6	40	93	1	388	23	20	28	26	1.99
38375963--38376265	80	3.8	80	88	3	389	23	20	28	27	1.99
38375963--38376265	120	2.5	119	86	4	396	23	20	28	27	1.99
38407150--38407538	50	7.7	50	75	4	325	29	26	17	25	1.98
38407153--38407545	151	2.6	151	87	0	554	29	26	18	25	1.98
38407362--38407592	101	2.3	101	83	0	273	32	27	16	23	1.96
38415456--38415834	48	7.9	47	78	8	311	28	27	17	27	1.97
38415456--38415834	96	3.9	95	87	3	508	28	27	17	27	1.97
38415454--38415824	144	2.6	145	80	7	409	28	27	17	27	1.97
38416613--38416649	18	2.1	18	94	0	65	51	5	18	24	1.67
38422880--38422944	28	2.3	28	89	0	94	20	44	18	16	1.87
38428880--38429252	48	7.7	48	80	4	367	27	27	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38428880--38429252	96	3.9	96	88	1	523	27	27	17	27	1.97
38434543--38434591	24	2.0	24	96	0	89	42	10	20	26	1.84
38435976--38436016	11	3.7	11	80	0	55	19	14	9	56	1.66
38436052--38436115	30	2.1	30	94	0	110	25	3	14	57	1.51
38436237--38436273	11	3.1	13	81	18	53	67	0	0	32	0.91
38436656--38436727	31	2.3	30	81	11	83	34	0	0	65	0.93
38437435--38437698	87	3.0	89	82	5	311	26	14	11	47	1.78
38441209--38441262	27	2.0	27	88	0	81	37	9	16	37	1.81
38441259--38441296	17	2.2	18	90	9	62	47	13	13	26	1.79
38452738--38452889	42	3.6	42	79	8	157	28	15	25	30	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   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