genome.fa.s7.2.7.7.80.10.50.1000.143.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  143  of  290  ( 34714 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)
48639406--48639661	79	3.3	79	82	9	224	26	21	27	24	1.99
48648922--48649040	29	4.1	29	90	1	168	29	29	15	25	1.96
48666905--48667027	61	2.0	61	98	0	237	39	13	18	29	1.88
48667362--48667533	46	3.7	46	76	11	190	20	19	30	29	1.97
48669779--48669882	52	2.0	52	98	0	199	27	18	26	26	1.98
48674813--48675033	46	4.8	46	95	0	379	19	21	28	29	1.98
48677577--48677605	14	2.0	15	93	6	51	27	0	20	51	1.47
48683259--48683426	40	4.2	40	82	4	142	25	27	23	23	2.00
48683282--48683426	40	3.6	40	85	4	184	23	26	24	24	2.00
48684614--48684689	38	2.0	38	97	0	143	32	23	11	31	1.91
48691365--48691532	40	4.2	40	80	1	140	25	26	23	24	2.00
48691391--48691532	40	3.5	40	82	4	142	23	24	24	26	2.00
48692724--48692799	38	2.0	38	97	0	143	31	23	11	32	1.91
48700437--48700515	37	2.1	37	88	0	113	26	31	17	24	1.97
48700634--48701173	47	11.4	47	91	1	801	29	29	9	32	1.88
48719369--48719447	41	1.9	41	86	0	113	34	16	22	26	1.95
48727277--48727311	17	2.0	18	88	5	54	11	8	20	60	1.57
48735148--48735332	79	2.3	81	82	7	227	25	27	22	24	2.00
48735148--48735332	40	4.7	40	83	6	225	25	27	22	24	2.00
48738133--48738227	27	3.4	28	89	2	129	26	12	28	32	1.93
48738158--48738240	27	3.0	27	87	5	96	30	12	25	32	1.92
48743908--48744087	39	4.6	40	88	4	251	23	22	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48743908--48744087	79	2.3	79	88	4	258	23	22	28	26	1.99
48752512--48752564	26	2.0	26	82	7	63	37	20	15	26	1.92
48752837--48752917	33	2.4	34	77	8	94	28	18	23	29	1.98
48752837--48752930	32	2.9	30	73	12	71	26	20	25	27	1.99
48767219--48767350	23	5.7	23	77	9	144	34	21	21	23	1.97
48767217--48767350	68	2.0	69	83	4	173	33	20	21	23	1.97
48767977--48768030	22	2.5	22	93	3	92	37	22	0	40	1.54
48781117--48781177	24	2.5	24	89	0	86	39	22	21	16	1.92
48786248--48786330	23	3.6	23	95	0	139	22	31	31	14	1.94
48800136--48800197	27	2.3	27	88	0	88	29	17	16	37	1.92
48800176--48800702	27	19.7	27	82	5	523	31	10	20	37	1.86
48807654--48807685	16	2.0	16	100	0	64	43	25	18	12	1.85
48816900--48817041	50	2.8	50	93	0	230	44	8	32	14	1.76
48821907--48822092	72	2.6	72	86	1	248	23	17	27	30	1.97
48824688--48824864	40	4.4	40	80	4	207	23	22	27	26	1.99
48825092--48825133	22	1.9	22	85	9	59	33	9	14	42	1.78
48829700--48829733	13	2.5	13	95	4	59	52	17	0	29	1.45
48830082--48830127	24	1.9	24	90	0	74	43	17	4	34	1.69
48832569--48832599	15	2.1	15	93	0	53	38	6	29	25	1.81
48832756--48832794	18	2.3	17	86	8	53	38	5	12	43	1.65
48833537--48833566	15	2.0	15	93	0	51	23	6	46	23	1.75
48836928--48836958	15	2.1	15	93	0	53	38	6	29	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48837115--48837153	18	2.3	17	86	8	53	38	5	12	43	1.65
48838325--48838354	6	5.0	6	100	0	60	16	0	33	50	1.46
48839626--48839686	27	2.3	27	85	5	79	54	0	11	34	1.37
48847676--48847800	46	2.7	46	85	3	144	31	18	26	24	1.98
48851332--48851419	29	3.1	30	85	8	103	26	29	13	30	1.94
48855796--48855910	29	4.0	29	74	6	92	26	27	15	30	1.96
48862271--48862452	94	1.9	93	86	3	258	29	17	28	24	1.97
48875382--48875424	17	2.5	17	96	0	77	41	18	20	18	1.90
48876261--48876297	16	2.2	17	95	4	67	43	24	0	32	1.55
48878187--48878409	46	4.8	44	75	15	175	24	30	18	26	1.98
48878282--48878406	47	2.6	48	79	14	143	23	30	18	28	1.97
48878233--48878406	94	1.9	92	85	4	242	22	29	18	28	1.98
48878755--48878814	29	2.1	29	84	3	77	33	25	13	28	1.93
48883790--48884017	40	5.7	40	92	0	377	24	21	27	26	1.99
48890926--48891233	40	7.7	40	97	0	562	24	22	26	26	2.00
48894750--48894817	5	12.8	5	71	22	50	17	5	1	75	1.08
48894746--48894797	6	9.0	6	80	4	54	15	5	1	76	1.05
48894748--48894807	24	2.6	22	80	10	75	18	6	1	73	1.14
48902326--48903160	415	2.0	417	97	1	1568	29	22	17	31	1.96
48921417--48921457	21	2.0	21	85	0	55	70	0	7	21	1.11
48922825--48923418	119	5.0	119	93	0	956	30	18	17	34	1.94
48935525--48935946	40	10.6	40	89	0	605	25	27	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48935529--48936026	40	12.5	40	86	3	279	25	27	22	24	2.00
48946539--48946711	25	7.3	25	62	24	70	35	10	26	27	1.89
48946533--48946779	47	5.2	47	87	0	323	34	10	29	25	1.90
48955903--48956023	60	2.0	60	98	0	233	44	10	21	23	1.83
48956601--48956773	46	3.7	46	76	13	183	21	19	29	30	1.97
48959697--48959765	15	4.6	15	79	0	75	15	17	10	56	1.66
48959688--48959773	30	2.9	30	76	10	88	13	16	13	55	1.69
48963502--48963672	40	4.3	40	90	2	256	24	21	26	26	1.99
48969397--48969572	46	3.7	47	79	7	180	28	18	28	25	1.98
48971164--48971231	35	1.9	35	93	0	118	22	23	41	13	1.89
48975336--48975564	40	5.7	39	88	5	300	27	25	22	24	2.00
48975320--48975564	120	2.1	119	86	6	336	26	25	22	25	2.00
48978767--48978844	35	2.2	36	97	2	149	55	7	28	8	1.59
48982126--48982163	18	2.1	18	100	0	76	23	28	21	26	1.99
48988131--48988178	25	1.9	25	91	0	78	35	25	14	25	1.94
48988217--48988273	9	5.9	9	73	15	51	35	8	21	35	1.84
48988215--48988285	20	3.5	20	94	0	124	35	11	21	32	1.89
48988226--48988280	11	5.4	11	70	16	55	36	12	20	30	1.90
48988332--48989188	23	37.1	23	98	1	1619	26	22	21	29	1.99
48989402--48989465	31	2.1	31	90	0	101	35	15	23	25	1.94
48991729--48991771	18	2.4	18	81	14	61	46	4	9	39	1.57
48992209--48992306	27	3.5	28	87	5	110	25	12	28	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48992237--48992306	27	2.5	28	95	2	124	27	12	28	31	1.93
48992237--48992320	27	3.0	27	87	5	96	29	11	25	33	1.91
49002950--49003145	55	3.6	53	76	6	162	22	26	16	34	1.95
49011830--49011979	67	2.2	67	81	8	171	32	17	28	21	1.96
49011854--49012037	67	2.8	64	77	8	194	29	17	29	22	1.97
49012505--49012535	14	2.2	14	100	0	62	22	6	19	51	1.69
49014519--49014729	45	4.6	45	76	5	192	28	19	28	22	1.98
49014606--49014780	45	3.8	45	83	3	181	29	17	30	21	1.96
49016851--49016912	30	2.1	30	87	0	88	22	4	11	61	1.48
49021501--49023288	894	2.0	894	99	0	3551	33	17	19	29	1.95
49023112--49024848	868	2.0	868	100	0	3474	32	15	18	33	1.93
49045978--49046093	3	38.7	3	100	0	232	66	0	0	33	0.92
49052867--49052931	29	2.3	29	78	10	71	24	9	26	40	1.85
49056922--49056976	26	2.1	26	82	0	65	21	0	7	70	1.11
49057321--49057455	18	7.5	17	65	21	53	60	2	2	34	1.24
49057401--49057459	19	3.2	18	75	15	57	61	0	5	33	1.18
49061029--49061054	11	2.4	11	100	0	52	38	7	0	53	1.30
49061054--49061087	17	2.0	17	88	0	50	35	0	0	64	0.94
49061071--49061102	11	2.9	11	100	0	64	46	0	0	53	1.00
49061019--49061161	42	3.4	40	77	10	137	38	2	0	58	1.13
49061029--49061148	51	2.3	53	89	4	181	37	3	0	59	1.14
49061029--49061148	22	5.7	21	65	22	56	37	3	0	59	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49061130--49061178	22	2.2	21	79	10	53	36	2	4	57	1.30
49067998--49068070	22	3.3	22	96	0	137	27	31	0	41	1.56
49067996--49068141	51	3.0	50	75	12	144	29	26	0	43	1.55
49068125--49068189	29	2.2	30	94	2	114	36	0	0	63	0.95
49068282--49068312	15	2.0	16	93	6	55	25	0	6	67	1.14
49069271--49069295	7	3.6	7	100	0	50	28	0	12	60	1.32
49070207--49070232	5	5.2	5	100	0	52	38	42	0	19	1.51
49070202--49070256	15	3.1	19	75	24	66	47	36	0	16	1.47
49070189--49070751	29	19.3	29	81	8	531	44	27	1	26	1.62
49070346--49070395	7	7.3	7	81	4	57	40	28	4	28	1.74

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