genome.fa.s9.2.7.7.80.10.50.1000.166.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  166  of  284  ( 34012 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)
55817871--55817979	37	2.9	37	94	0	182	26	30	19	23	1.98
55818120--55818413	48	6.0	48	91	3	444	30	27	6	35	1.83
55818120--55818413	98	3.0	96	89	3	462	30	27	6	35	1.83
55822200--55822278	31	2.5	31	97	0	149	26	25	18	29	1.98
55822302--55822393	42	2.2	42	92	0	148	34	21	14	29	1.93
55822533--55822609	25	3.1	25	83	1	75	25	19	19	35	1.95
55822553--55822609	25	2.3	25	87	6	80	21	24	21	33	1.97
55823420--55823483	27	2.4	27	81	5	76	21	25	17	35	1.95
55823514--55823750	27	8.7	27	76	3	152	30	8	20	39	1.83
55823599--55823750	54	2.8	53	83	2	187	28	6	22	42	1.78
55823601--55823750	81	1.9	81	84	2	203	28	6	22	42	1.78
55823782--55823979	27	7.3	27	89	2	281	39	8	24	28	1.83
55828037--55828214	27	6.6	27	83	3	196	29	29	15	25	1.96
55828058--55828213	82	1.9	81	88	3	233	29	30	15	25	1.96
55828694--55828720	12	2.2	12	100	0	54	40	0	7	51	1.30
55831039--55831264	122	1.9	120	87	1	335	42	10	19	28	1.83
55836981--55837186	27	7.6	27	83	1	117	35	21	7	35	1.82
55836981--55837163	54	3.4	53	80	4	179	33	21	7	37	1.82
55837108--55837374	27	10.0	27	81	4	245	41	20	7	30	1.81
55837113--55837348	81	2.9	80	88	4	332	41	21	8	29	1.81
55837489--55837549	27	2.3	27	97	0	113	36	19	29	14	1.92
55837489--55837575	27	3.2	27	86	3	95	34	19	26	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55837686--55837720	17	2.1	17	100	0	70	31	5	17	45	1.71
55838613--55838704	42	2.2	42	92	0	148	29	14	21	34	1.93
55838728--55838802	31	2.4	31	90	0	123	30	17	24	28	1.97
55849700--55849929	40	5.8	40	87	2	304	25	20	26	27	1.99
55852434--55852564	27	4.9	27	88	3	192	27	19	9	42	1.83
55852542--55852869	27	12.2	27	77	7	292	39	22	9	28	1.84
55852461--55852578	54	2.2	54	83	3	148	29	22	8	39	1.83
55852419--55852601	81	2.3	82	75	6	194	33	20	9	36	1.85
55852556--55852841	80	3.6	80	92	0	455	40	21	9	28	1.84
55852876--55852932	27	2.1	27	87	6	80	38	12	12	36	1.80
55852986--55853072	27	3.2	27	88	6	115	37	21	22	17	1.93
55853814--55853844	16	1.9	16	93	0	53	29	19	16	35	1.93
55853890--55853960	25	2.9	25	77	4	74	28	21	22	28	1.99
55854093--55854184	42	2.2	42	92	0	148	29	14	21	34	1.93
55854208--55854284	31	2.5	31	89	0	118	31	18	22	28	1.97
55854671--55854707	19	1.9	19	100	0	74	32	21	10	35	1.88
55860013--55860155	29	5.0	29	79	4	130	23	32	16	27	1.96
55860356--55860398	16	2.7	16	92	0	68	11	13	18	55	1.68
55862780--55862957	27	6.6	27	80	3	160	30	28	14	26	1.95
55862780--55862957	54	3.3	55	80	3	182	30	28	14	26	1.95
55873497--55873682	50	3.7	49	82	2	185	26	19	25	29	1.99
55876681--55876769	45	2.0	45	97	0	169	24	20	15	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55876879--55876910	16	2.0	16	100	0	64	50	25	12	12	1.75
55880342--55880430	45	2.0	45	97	0	169	24	20	15	39	1.91
55893322--55893529	55	3.9	54	82	4	231	22	24	17	36	1.95
55893508--55893629	47	2.6	47	96	0	217	25	23	13	36	1.92
55893652--55893754	45	2.2	46	83	8	129	22	23	19	34	1.96
55894392--55894448	30	1.9	30	82	7	71	29	22	12	35	1.91
55896396--55896485	23	3.7	25	80	12	89	23	18	18	38	1.93
55896396--55896464	24	2.7	26	82	10	90	21	20	20	37	1.94
55896431--55896556	23	5.3	23	77	9	103	26	19	19	34	1.95
55896512--55896576	25	2.6	25	78	7	60	30	23	23	23	1.99
55906373--55906548	46	3.8	46	79	12	216	20	21	29	28	1.98
55906370--55906541	93	1.8	93	96	0	317	20	21	29	27	1.98
55910199--55910227	3	9.7	3	100	0	58	68	0	0	31	0.89
55917537--55917594	30	1.9	30	85	0	80	20	36	24	18	1.95
55919344--55919551	42	4.9	42	81	7	206	29	25	17	28	1.97
55919344--55919550	83	2.4	86	82	4	233	29	25	17	28	1.97
55919434--55919547	41	2.8	40	89	4	120	31	25	14	28	1.95
55921248--55921345	49	2.0	50	81	4	117	38	20	14	26	1.91
55921229--55921343	25	4.6	25	77	6	101	36	20	15	26	1.93
55923185--55923328	75	1.9	75	95	0	261	29	29	16	25	1.97
55934825--55934888	20	3.4	19	82	4	76	34	1	0	64	1.03
55934810--55934888	37	2.1	37	84	9	99	31	1	0	67	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55935018--55935057	16	2.5	15	84	11	53	52	0	5	42	1.23
55936474--55936570	48	2.0	48	91	0	158	21	25	8	44	1.80
55957866--55958031	38	4.3	38	80	3	152	19	19	26	34	1.96
55958978--55959174	81	2.4	81	98	0	376	30	26	19	23	1.98
55965545--55965597	27	2.0	27	85	7	72	39	18	15	26	1.90
55966009--55966064	28	2.0	27	86	3	76	16	25	23	35	1.94
55972211--55972288	29	2.7	28	80	11	95	25	14	30	29	1.94
55976440--55977317	40	22.2	40	85	6	896	23	20	27	28	1.99
55976440--55977294	79	10.8	79	97	0	1545	23	20	27	28	1.99
55986463--55986693	27	8.6	27	81	3	261	26	15	20	37	1.92
55986463--55986720	27	9.6	27	74	10	145	25	14	20	39	1.91
55986472--55986729	81	3.2	79	78	6	252	25	16	19	38	1.92
55986994--55987046	6	8.8	6	86	14	74	16	16	16	49	1.81
55986994--55987046	11	4.4	12	86	13	74	16	16	16	49	1.81
55986994--55987046	17	3.0	18	94	5	99	16	16	16	49	1.81
55990360--55990596	27	8.8	27	85	4	309	26	16	20	36	1.94
55990369--55990626	81	3.2	80	78	10	283	24	17	20	37	1.94
55990939--55991007	18	3.9	18	75	3	77	20	20	11	47	1.80
56010778--56010905	27	4.8	27	81	3	152	25	17	20	36	1.94
56010787--56010905	53	2.2	54	88	4	179	24	18	20	36	1.94
56011252--56011319	18	3.8	18	78	3	75	20	19	13	47	1.82
56012499--56012529	12	2.6	12	100	0	62	6	25	41	25	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56035376--56035710	40	8.5	40	94	2	529	23	23	29	23	1.99
56037684--56037731	20	2.4	20	78	0	60	29	16	31	22	1.96
56037724--56037772	19	2.6	19	93	0	80	20	18	40	20	1.91
56039821--56039907	6	13.8	6	70	12	59	6	20	1	71	1.16
56040909--56040933	12	2.1	12	100	0	50	16	0	8	76	1.02
56042441--56042506	20	3.2	20	78	6	71	34	15	28	21	1.93
56046797--56046964	40	4.2	40	83	4	106	25	27	23	23	2.00
56046820--56046964	40	3.6	40	85	4	193	23	26	24	25	2.00
56059843--56059883	18	2.3	18	86	0	55	41	0	12	46	1.41
56062959--56063085	40	3.2	40	94	2	211	21	22	28	27	1.99
56062959--56063123	80	2.1	78	81	11	183	23	22	27	26	1.99
56063154--56063294	43	3.3	43	90	0	219	11	23	31	34	1.90
56067400--56067456	18	3.2	18	89	0	87	15	29	38	15	1.89
56077622--56077750	49	2.7	49	78	7	124	26	31	10	32	1.89
56081996--56082070	22	3.3	22	68	17	71	32	12	29	26	1.92
56081996--56082117	22	5.3	22	65	24	63	33	11	28	26	1.91
56081124--56082120	47	21.2	47	97	0	1807	37	10	26	25	1.88
56082140--56082316	92	1.9	92	87	0	255	35	10	31	22	1.88
56082134--56082298	46	3.6	46	91	0	258	35	11	30	21	1.89
56085043--56085388	186	1.9	186	98	0	674	36	13	14	35	1.85
56089018--56089360	40	8.6	40	90	2	476	27	27	20	24	1.99
56090947--56090982	18	2.0	18	94	0	63	36	16	19	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56107355--56107420	27	2.5	26	75	7	62	43	16	16	22	1.87
56107763--56107845	42	2.0	41	97	0	148	20	24	9	44	1.81
56124569--56124969	200	2.0	200	99	0	793	27	12	30	29	1.93
56131769--56131797	3	9.7	3	100	0	58	68	0	0	31	0.89
56137125--56137414	120	2.4	120	91	3	485	42	3	4	50	1.37
56137255--56137310	15	4.1	14	78	14	55	41	0	0	58	0.98
56137186--56137372	61	3.1	61	67	20	183	40	3	6	49	1.44
56137366--56137400	18	2.0	17	88	5	52	45	0	0	54	0.99
56137354--56137628	147	1.9	149	96	1	509	47	2	3	46	1.33
56137513--56137547	18	2.0	17	88	5	52	45	0	0	54	0.99

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   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