genome.fa.s25.2.7.7.80.10.50.1000.114.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  114  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)
40898554--40898599	22	2.1	22	92	4	76	10	21	17	50	1.77
40903278--40903357	27	3.0	27	79	5	90	33	20	23	22	1.97
40903305--40903442	67	2.1	67	85	0	186	31	21	28	18	1.97
40904077--40904276	27	7.4	27	86	0	274	24	21	19	35	1.96
40905483--40905623	43	3.3	42	78	12	128	29	17	24	28	1.98
40911132--40911207	24	3.2	24	100	0	152	28	19	9	42	1.82
40911575--40911673	28	3.4	28	75	13	72	27	24	22	26	2.00
40911575--40911645	33	2.1	34	86	2	99	25	25	22	26	2.00
40912023--40912194	27	6.4	27	93	0	290	24	22	19	33	1.97
40912172--40912337	27	6.2	27	81	4	201	30	12	21	36	1.90
40912172--40912330	53	3.0	53	85	2	203	30	11	20	37	1.89
40912534--40912566	17	1.9	17	100	0	66	12	36	33	18	1.88
40927117--40927176	30	2.0	30	90	0	93	38	8	25	28	1.84
40931622--40931649	14	2.0	14	100	0	56	57	7	21	14	1.61
40931540--40931707	92	1.8	91	84	6	232	34	20	17	27	1.95
40931637--40932090	73	6.2	73	97	0	818	31	23	18	26	1.97
40931637--40932455	146	5.4	146	84	8	939	32	23	17	26	1.96
40932071--40932105	14	2.5	14	95	0	61	60	8	14	17	1.58
40931998--40932182	89	2.1	87	85	6	241	37	21	16	24	1.93
40931925--40932252	162	2.0	159	88	2	476	34	22	16	25	1.95
40932125--40932324	73	2.8	71	84	2	256	33	21	14	31	1.93
40931860--40932465	235	2.6	230	84	5	781	33	23	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40932182--40932471	160	1.8	157	85	8	408	33	22	16	27	1.95
40932616--40933031	72	5.6	71	82	9	388	33	21	15	29	1.94
40932616--40933026	150	2.7	145	81	8	457	33	21	15	30	1.94
40932919--40933291	127	3.0	122	82	6	464	37	21	15	25	1.93
40933171--40933345	70	2.5	70	84	4	203	33	22	14	29	1.94
40941452--40941505	21	2.6	20	77	8	63	40	7	9	42	1.65
40941484--40941669	17	11.3	17	74	11	136	46	11	8	33	1.70
40959677--40959718	21	2.0	21	95	0	75	30	26	9	33	1.88
40961606--40961650	21	2.1	21	84	8	56	8	24	6	60	1.51
40963491--40963626	68	2.0	68	98	0	263	34	11	16	38	1.84
40970150--40970209	26	2.3	24	74	20	59	60	10	3	26	1.45
40970232--40970280	21	2.4	21	86	3	64	71	4	0	24	1.03
40970249--40970289	12	3.4	12	90	6	57	70	7	0	21	1.11
40972153--40972318	43	3.9	43	79	5	176	25	14	26	33	1.94
40982867--40983081	46	4.6	47	77	10	201	23	27	20	28	1.98
40987222--40987485	128	2.1	128	86	0	357	29	18	14	37	1.90
40989781--40989821	22	1.9	21	85	5	55	26	21	14	36	1.93
41002147--41002419	48	5.7	46	74	12	194	29	19	28	22	1.98
41002147--41002421	96	2.9	95	76	8	279	29	19	28	22	1.98
41009826--41010061	48	4.9	48	75	6	199	28	18	29	23	1.98
41012350--41012388	14	2.9	13	81	7	51	71	0	5	23	1.05
41020786--41020827	14	3.0	14	83	10	50	59	2	0	38	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41035614--41035680	34	2.0	34	87	0	98	28	11	14	44	1.81
41035616--41035689	34	2.2	34	82	4	87	29	13	16	40	1.86
41037385--41037409	9	2.8	9	100	0	50	0	16	0	84	0.63
41037373--41037439	17	4.0	16	74	14	55	5	10	2	80	0.99
41039027--41039081	27	2.1	26	83	10	67	60	7	0	32	1.24
41041961--41042011	25	2.0	25	96	0	93	27	21	15	35	1.94
41050446--41050485	20	2.0	20	100	0	80	35	30	0	35	1.58
41051431--41051477	23	2.0	24	87	4	69	31	2	6	59	1.34
41054520--41054544	13	1.9	13	100	0	50	32	0	24	44	1.54
41054554--41054589	13	2.8	13	91	0	54	13	11	33	41	1.80
41063939--41064052	46	2.5	44	85	8	140	25	20	29	24	1.99
41063977--41064144	48	3.6	46	80	13	150	27	17	29	25	1.98
41064019--41064198	50	3.7	50	78	8	147	27	20	28	23	1.99
41070780--41070805	9	2.9	9	100	0	52	0	0	53	46	1.00
41071032--41071077	22	2.1	22	95	0	83	23	4	28	43	1.73
41071707--41072064	46	7.6	49	75	8	241	26	18	29	26	1.98
41071707--41071964	94	2.8	94	79	9	262	26	18	29	25	1.98
41071747--41072070	146	2.3	138	80	7	348	26	18	29	26	1.98
41083623--41083652	15	2.0	15	100	0	60	46	6	20	26	1.75
41087158--41087197	16	2.4	16	95	4	71	20	5	7	67	1.34
41092112--41092437	131	2.5	131	98	0	634	33	14	20	31	1.93
41098013--41098037	12	2.1	12	100	0	50	16	8	16	60	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41098752--41098919	46	3.6	45	76	9	158	27	21	27	23	1.99
41098755--41099013	47	5.6	46	71	13	117	28	20	28	23	1.99
41106724--41107122	218	1.8	218	96	0	735	35	10	25	29	1.89
41108150--41108240	46	2.0	46	88	0	137	32	7	31	27	1.85
41122254--41122284	12	2.6	12	94	0	53	25	41	19	12	1.87
41124810--41124883	27	2.7	28	78	2	87	36	21	27	14	1.93
41135496--41135688	95	2.1	93	96	2	350	39	7	11	41	1.70
41142218--41142242	11	2.3	11	100	0	50	8	0	0	92	0.40
41145752--41145822	35	2.0	35	100	0	142	36	11	5	46	1.63
41152351--41152375	13	1.9	13	100	0	50	68	0	8	24	1.16
41153370--41153403	15	2.3	15	100	0	68	38	0	29	32	1.58
41153600--41153999	45	8.6	44	68	13	156	27	23	19	29	1.98
41153414--41154299	143	6.2	143	83	2	924	28	22	18	30	1.97
41153452--41154253	286	2.8	286	85	1	1052	28	21	18	30	1.97
41153452--41154253	429	1.9	429	83	0	1048	28	21	18	30	1.97
41154218--41154331	44	2.6	44	81	5	115	28	22	14	35	1.93
41154238--41154348	44	2.5	45	82	8	131	29	18	18	34	1.94
41158661--41158711	20	2.6	20	87	9	70	49	11	17	21	1.79
41167386--41168606	639	1.9	639	97	0	2316	31	14	21	31	1.94
41173410--41173435	13	2.0	13	100	0	52	15	15	53	15	1.73
41178991--41179029	19	2.1	19	100	0	78	25	0	43	30	1.55
41181425--41181463	14	2.7	15	88	11	55	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41187351--41187383	16	1.9	18	88	11	52	60	21	6	12	1.53
41193591--41193616	9	2.9	9	100	0	52	11	0	19	69	1.18
41194335--41194498	42	3.9	42	73	3	132	28	17	24	29	1.97
41194308--41194478	42	3.9	43	74	6	130	30	13	24	31	1.93
41203396--41203495	42	2.3	43	81	1	112	30	16	24	30	1.96
41206561--41206592	15	2.1	15	94	0	55	15	6	9	68	1.36
41215555--41215584	10	3.0	10	95	0	51	46	0	0	53	1.00
41215766--41215815	20	2.5	20	83	3	66	50	2	0	48	1.12
41216319--41216369	21	2.3	23	83	12	72	56	5	0	37	1.23
41216858--41216934	37	2.1	37	97	0	145	54	14	10	20	1.69
41216858--41216916	21	3.0	21	65	29	58	54	15	10	20	1.70
41220564--41220595	12	2.6	13	90	9	50	50	25	6	18	1.70
41222295--41222348	18	3.1	18	75	19	60	3	33	0	62	1.12
41223572--41223659	28	3.2	28	90	3	135	18	23	21	36	1.95
41224568--41224949	43	9.0	42	69	9	254	28	25	19	26	1.98
41224568--41224959	85	4.6	85	91	0	631	28	25	18	27	1.98
41227304--41227363	31	1.9	31	100	0	120	21	41	20	16	1.90
41230522--41230584	32	2.0	32	100	0	126	38	3	23	34	1.71
41230847--41230896	25	2.0	25	100	0	100	36	16	16	32	1.90
41234206--41234250	21	2.1	21	83	0	54	42	15	8	33	1.78
41235165--41235213	19	2.5	19	80	3	53	53	4	2	40	1.32
41235853--41235883	7	4.4	7	95	0	53	45	22	0	32	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41240695--41240732	18	2.1	18	85	9	51	55	5	0	39	1.23
41240534--41241049	252	2.0	252	89	2	797	58	6	2	31	1.39
41240805--41240842	18	2.1	18	85	9	51	55	5	0	39	1.23
41240672--41240909	110	2.2	110	100	0	476	57	5	2	33	1.36
41240786--41241314	142	3.8	139	87	6	725	59	6	3	30	1.38
41240872--41241099	32	6.5	32	69	17	111	63	4	3	28	1.30
41240480--41241305	142	6.2	132	75	14	670	59	6	3	30	1.41
41240786--41241314	274	1.9	282	85	6	740	59	6	3	30	1.38
41241287--41241481	3	66.7	3	71	9	127	63	2	6	27	1.30
41247706--41247739	17	2.0	17	94	0	59	14	50	23	11	1.76

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