genome.fa.s9.2.7.7.80.10.50.1000.156.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  156  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)
52158801--52159496	27	25.8	27	83	5	514	36	20	6	36	1.80
52159190--52159638	27	16.7	27	79	9	409	41	18	7	31	1.79
52159190--52159638	81	5.6	81	93	2	708	41	18	7	31	1.79
52159630--52159844	54	4.0	54	87	1	270	37	18	18	25	1.93
52159629--52159816	27	7.0	27	88	0	259	38	19	17	24	1.92
52159631--52159845	27	8.0	27	85	2	216	37	18	18	25	1.94
52160046--52160142	25	3.9	25	84	0	122	25	26	19	27	1.99
52163977--52164134	80	2.0	79	98	1	307	27	30	9	32	1.88
52169313--52169339	4	6.8	4	100	0	54	0	0	22	77	0.76
52178429--52178462	16	2.1	16	100	0	68	26	17	20	35	1.95
52179581--52179635	27	2.0	27	96	0	101	20	20	18	41	1.90
52180790--52181250	231	2.0	231	97	0	870	29	14	26	29	1.95
52197002--52197028	11	2.5	11	100	0	54	25	7	22	44	1.79
52203860--52203918	30	2.0	30	86	0	82	32	23	6	37	1.81
52221962--52222187	40	5.7	40	90	2	321	24	22	27	25	1.99
52223812--52223893	38	2.2	36	82	6	101	59	1	26	12	1.40
52223788--52223893	19	5.8	18	67	21	60	59	0	26	13	1.40
52238016--52238200	40	4.6	39	83	5	203	23	22	28	25	1.99
52238016--52238198	79	2.3	81	83	7	223	24	22	27	25	2.00
52238050--52238223	79	2.2	78	79	10	183	26	20	26	26	1.99
52241420--52241651	56	4.1	56	98	1	439	45	9	22	22	1.80
52242223--52242368	40	3.7	40	81	7	163	23	21	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52248209--52248380	56	3.1	56	97	1	319	45	8	22	23	1.80
52249523--52249707	40	4.6	39	80	6	185	24	21	27	26	1.99
52249523--52249679	79	2.0	80	83	6	203	24	21	28	25	1.99
52249560--52249740	79	2.3	78	77	12	181	27	19	26	26	1.99
52260973--52261084	50	2.2	50	96	0	206	24	13	20	41	1.88
52266310--52266573	40	6.7	40	89	5	360	25	27	21	25	1.99
52276533--52276742	105	2.0	105	97	0	393	29	22	17	30	1.96
52277888--52278093	27	7.6	27	93	2	322	30	28	13	27	1.94
52277888--52278093	55	3.8	54	93	1	331	30	28	13	27	1.94
52277888--52278093	82	2.5	82	92	2	342	30	28	13	27	1.94
52279118--52279307	95	2.0	95	98	0	371	36	25	12	26	1.91
52289939--52290033	24	4.0	24	89	6	140	28	22	21	28	1.99
52289960--52290032	23	3.1	23	96	2	128	30	20	20	28	1.98
52290084--52290122	20	2.0	20	94	0	69	30	20	15	33	1.94
52290085--52290129	20	2.2	20	88	0	63	31	22	15	31	1.95
52295056--52295101	23	2.0	23	100	0	92	34	8	17	39	1.80
52296672--52296717	23	2.0	23	95	0	83	32	17	30	19	1.95
52296806--52296845	18	2.2	18	86	0	53	27	2	22	47	1.64
52297673--52297727	27	2.0	28	85	3	76	34	9	20	36	1.84
52299273--52299374	43	2.4	43	75	4	100	25	19	24	30	1.98
52303322--52303439	40	3.0	40	93	0	191	29	28	19	22	1.98
52310527--52310703	40	4.5	40	90	4	254	24	28	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52310527--52310703	79	2.2	80	88	5	254	24	28	23	24	2.00
52314425--52314965	274	2.0	274	97	0	1028	29	26	17	26	1.98
52316445--52316631	58	3.3	57	86	6	240	30	29	16	23	1.96
52316448--52316606	29	5.5	29	71	12	105	30	28	18	22	1.97
52316763--52316949	43	4.3	43	93	0	320	32	31	23	12	1.92
52318663--52318735	37	2.0	37	91	0	119	26	31	19	23	1.98
52318735--52319044	48	6.4	48	90	3	503	30	24	7	36	1.84
52318735--52319044	98	3.2	96	93	1	503	30	24	7	36	1.84
52318735--52319044	146	2.1	146	99	0	611	30	24	7	36	1.84
52321779--52321947	46	3.7	46	80	10	200	21	20	28	29	1.98
52321776--52321946	93	1.8	93	92	0	288	21	20	28	29	1.98
52323306--52323371	25	2.6	25	77	13	64	60	1	3	34	1.21
52324157--52324203	22	2.2	20	85	14	60	53	0	2	44	1.12
52324253--52324310	30	2.0	30	82	3	73	46	12	8	32	1.71
52325631--52325671	14	2.7	16	77	14	50	2	29	0	68	1.03
52340971--52341141	93	1.8	93	96	0	315	28	29	21	21	1.98
52340966--52341138	46	3.7	46	80	13	219	28	28	21	21	1.98
52348379--52348628	50	5.0	50	75	1	223	27	16	26	30	1.96
52352725--52352964	50	4.8	50	78	6	245	22	28	21	27	1.99
52352716--52352964	98	2.5	98	77	10	274	24	27	20	27	1.99
52356614--52356877	40	6.7	40	89	5	360	25	27	21	25	1.99
52373536--52373581	24	1.9	24	86	0	65	50	17	21	10	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52373775--52373874	29	3.5	29	87	6	141	27	17	29	27	1.97
52379431--52379594	27	6.1	27	81	2	188	34	20	20	25	1.96
52379435--52379593	53	3.0	53	83	1	210	34	19	20	25	1.96
52379731--52379809	27	3.0	26	79	1	68	24	20	21	34	1.97
52380304--52380345	21	2.0	21	85	4	57	54	11	4	28	1.57
52384138--52384330	27	7.1	27	83	0	233	33	21	18	26	1.96
52384499--52384550	27	1.9	27	84	0	68	23	23	19	34	1.96
52385816--52385843	13	2.2	13	100	0	56	28	14	14	42	1.84
52386447--52386484	19	2.0	19	90	10	60	0	47	0	52	1.00
52387459--52387580	48	2.6	47	80	6	147	61	3	24	10	1.44
52388270--52388319	26	1.9	26	100	0	100	24	6	20	50	1.70
52389333--52389813	243	2.0	244	84	4	630	36	19	11	32	1.88
52393558--52393611	23	2.3	23	93	0	90	27	7	33	31	1.84
52400631--52400735	39	2.6	39	86	5	122	24	22	27	24	2.00
52400591--52400754	40	4.1	40	80	12	169	25	23	27	24	2.00
52400591--52400741	79	1.9	80	82	6	191	25	23	27	23	2.00
52410006--52410055	21	2.4	21	93	0	91	30	32	24	14	1.94
52416432--52416605	93	1.9	93	88	0	267	21	22	27	27	1.99
52416434--52416604	46	3.7	46	78	10	186	22	23	26	27	1.99
52428936--52429150	40	5.4	40	77	9	215	22	20	28	28	1.99
52428943--52429150	80	2.6	80	91	0	328	22	21	29	26	1.99
52436925--52437186	39	6.6	39	84	5	291	25	22	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52436977--52437219	78	3.1	79	85	6	255	26	21	26	25	2.00
52441816--52441994	27	6.6	27	77	8	148	26	13	28	30	1.95
52441813--52441994	82	2.2	81	81	3	222	26	14	28	30	1.95
52448734--52448901	46	3.6	46	79	4	194	30	28	20	20	1.97
52454988--52455087	24	4.2	24	93	0	164	20	39	4	37	1.71
52454983--52455087	48	2.2	48	94	1	183	19	38	4	38	1.73
52465036--52465070	8	4.4	8	92	0	52	28	45	2	22	1.67
52468724--52468868	48	3.0	48	78	4	164	27	19	23	29	1.98
52468717--52468862	50	3.0	47	77	5	150	27	19	23	29	1.98
52468717--52468980	48	5.5	48	70	12	159	28	19	23	28	1.98
52477624--52477877	84	3.0	84	100	0	508	45	18	11	23	1.83
52480031--52480070	21	1.9	21	84	0	53	32	22	0	45	1.53
52480196--52480408	43	5.0	43	82	5	234	30	27	19	22	1.98
52480196--52480408	87	2.5	86	81	11	249	30	27	19	22	1.98
52481329--52481355	9	3.0	9	100	0	54	44	11	0	44	1.39
52484360--52484457	50	2.0	50	83	4	126	42	19	7	30	1.78
52484434--52484619	35	5.3	35	88	1	255	44	18	8	29	1.78
52494652--52494725	36	2.1	36	100	0	148	28	8	18	44	1.78
52494660--52494716	18	3.3	16	70	25	53	28	8	19	43	1.80
52500440--52500547	55	2.0	55	86	0	153	12	32	28	26	1.92
52505591--52505641	14	3.6	14	76	12	52	3	27	0	68	1.07
52521017--52521241	40	5.6	40	80	4	238	23	25	24	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52520981--52521241	80	3.3	80	80	3	276	24	24	24	26	2.00
52521017--52521241	120	1.9	121	83	4	294	23	25	24	26	2.00
52522452--52522480	15	1.9	15	100	0	58	48	20	6	24	1.74
52529414--52529465	19	2.4	21	78	21	63	30	17	26	25	1.97
52529428--52529467	19	2.1	19	100	0	80	25	15	32	27	1.95
52532486--52532688	40	5.1	40	83	3	250	24	28	22	24	1.99
52539958--52540051	28	3.2	28	71	14	80	27	24	21	26	1.99
52550058--52550414	93	3.8	93	98	0	687	28	28	20	22	1.99
52550104--52550365	47	5.6	47	77	15	310	29	27	19	23	1.98
52550050--52550411	46	7.8	46	76	15	370	29	28	20	22	1.98

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