genome.fa.s12.2.7.7.80.10.50.1000.166.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  166  of  276  ( 33102 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)
54443686--54443746	30	2.1	29	90	3	95	37	24	14	22	1.92
54453341--54453605	119	2.2	122	85	4	353	24	21	27	26	1.99
54453341--54453605	40	6.7	40	87	4	340	24	21	27	26	1.99
54453396--54453638	120	2.0	118	85	4	328	25	19	27	27	1.99
54459727--54459772	24	1.9	24	81	0	56	34	21	0	43	1.53
54466297--54466321	13	1.9	13	100	0	50	48	0	8	44	1.32
54466751--54466792	21	2.0	21	86	9	59	38	0	2	59	1.10
54466761--54466909	73	2.0	75	89	2	230	36	5	5	52	1.47
54467227--54467258	6	5.5	6	96	3	57	53	0	0	46	1.00
54473222--54473393	93	1.8	93	96	0	317	27	29	21	20	1.98
54473215--54473390	46	3.8	46	79	12	216	28	29	21	20	1.98
54477553--54477777	40	5.6	40	86	3	299	23	22	28	25	1.99
54477557--54477777	83	2.7	80	86	5	286	22	23	28	25	1.99
54479903--54480127	40	5.6	40	82	5	265	22	22	28	26	1.99
54479907--54480097	83	2.3	80	88	2	274	21	22	28	27	1.99
54490286--54490337	22	2.2	23	80	13	61	53	0	0	46	1.00
54490507--54490533	3	9.0	3	100	0	54	66	0	0	33	0.92
54491006--54491039	15	2.3	15	90	5	52	70	2	0	26	1.01
54491103--54491136	14	2.4	14	85	0	50	55	0	0	44	0.99
54491113--54491164	27	1.9	27	84	7	70	50	0	3	46	1.20
54491214--54491259	20	2.4	18	82	7	56	30	4	6	58	1.43
54491563--54491633	31	2.3	30	76	11	72	50	4	4	40	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54491976--54492009	18	1.9	17	88	5	50	23	5	0	70	1.09
54494697--54494872	46	3.8	46	80	12	225	21	21	28	28	1.98
54494694--54494864	93	1.8	93	96	0	315	21	21	29	28	1.98
54500262--54500317	15	3.7	15	80	7	69	12	14	12	60	1.59
54504989--54505100	43	2.6	42	85	2	161	28	18	24	28	1.98
54508285--54508357	36	2.0	36	100	0	146	39	24	13	21	1.90
54513485--54513596	27	4.1	27	79	7	120	37	22	24	16	1.93
54513485--54513596	54	2.1	54	84	3	145	37	22	24	16	1.93
54515705--54515861	79	2.0	79	96	0	287	29	29	19	21	1.97
54521326--54521437	27	4.2	26	85	7	143	37	23	24	15	1.93
54521326--54521437	54	2.1	54	88	3	163	37	23	24	15	1.93
54531992--54532094	37	2.8	38	85	8	133	26	16	28	29	1.97
54532056--54532301	48	5.1	48	81	3	307	27	16	25	30	1.96
54532056--54532332	96	2.9	96	90	1	421	27	16	25	30	1.97
54532068--54532332	48	5.5	48	76	7	252	27	16	25	30	1.97
54535446--54535584	60	2.3	60	82	6	156	25	25	20	28	1.99
54540119--54540217	28	3.5	28	88	1	135	32	25	13	29	1.93
54545161--54545200	16	2.4	16	83	4	53	45	0	2	52	1.14
54556455--54556536	43	1.9	42	80	11	96	26	19	25	28	1.99
54556389--54556544	85	1.8	85	81	8	192	25	19	26	28	1.99
54556447--54556544	43	2.3	42	75	15	94	25	20	27	26	1.99
54560071--54560198	67	1.9	67	95	0	229	28	9	12	49	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54562263--54562440	27	6.6	27	84	3	205	29	28	15	26	1.96
54562284--54562439	82	1.9	81	88	3	233	29	28	15	26	1.96
54570453--54570630	27	6.6	27	84	3	205	29	28	15	26	1.96
54570474--54570629	82	1.9	81	88	3	233	29	28	15	26	1.96
54573754--54573864	43	2.6	43	81	4	136	28	21	21	27	1.99
54588280--54588328	22	2.3	21	93	6	82	16	28	30	24	1.96
54591072--54591294	39	5.7	40	85	8	266	25	22	27	24	2.00
54591072--54591294	79	2.8	81	84	9	282	25	22	27	24	2.00
54591072--54591327	79	3.3	79	81	10	217	26	21	27	24	1.99
54599530--54599582	22	2.3	23	93	6	99	52	0	3	43	1.19
54600855--54600906	23	2.3	23	86	3	70	30	13	3	51	1.58
54602912--54602950	20	2.0	20	94	0	69	35	2	17	43	1.63
54606626--54606690	30	2.1	31	83	8	80	35	9	10	44	1.71
54615722--54615786	31	2.1	31	83	11	80	60	1	9	29	1.37
54616547--54616584	12	3.2	12	88	3	51	18	2	2	76	1.02
54616833--54616858	3	8.7	3	100	0	52	34	0	0	65	0.93
54618200--54618252	23	2.3	24	78	12	67	41	3	1	52	1.30
54628009--54628106	49	2.0	50	91	2	162	29	16	9	44	1.78
54628212--54628245	17	2.0	17	100	0	68	23	5	11	58	1.55
54631981--54632010	15	2.0	15	100	0	60	33	20	6	40	1.78
54636970--54637334	85	4.3	85	99	0	714	29	23	16	30	1.96
54640826--54641145	48	6.7	48	79	5	263	23	28	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54642251--54642283	17	1.9	17	88	11	50	63	3	6	27	1.32
54644687--54644730	20	2.2	20	84	8	54	56	4	20	18	1.58
54649290--54649333	20	2.2	20	84	8	54	56	4	20	18	1.58
54656680--54656986	155	2.0	152	87	1	443	17	24	6	52	1.67
54665338--54665419	32	2.6	32	82	3	103	28	3	17	51	1.62
54666817--54666858	19	2.2	20	91	4	68	50	16	9	23	1.75
54670095--54670135	20	2.0	20	85	0	55	46	21	24	7	1.77
54674169--54674198	15	2.0	15	93	0	51	10	6	10	73	1.25
54677003--54677070	31	2.3	30	80	7	77	32	7	7	52	1.57
54679307--54679373	33	2.0	33	94	5	118	29	22	23	23	1.99
54683581--54683622	22	1.9	23	85	9	61	14	40	0	45	1.45
54683580--54683629	22	2.3	22	80	16	59	18	42	0	40	1.50
54684631--54684676	24	1.9	24	86	0	65	28	26	17	28	1.98
54684717--54684755	10	3.8	10	93	6	69	33	17	17	30	1.94
54684716--54684755	21	1.9	21	100	0	80	35	17	17	30	1.93
54684802--54684871	25	2.8	25	95	0	122	25	25	22	25	2.00
54684801--54684907	25	4.2	24	82	10	108	29	21	21	27	1.98
54684802--54684896	50	1.9	50	82	8	122	27	24	23	25	2.00
54689336--54689381	24	1.9	24	86	0	65	28	26	17	28	1.98
54689422--54689460	10	3.8	10	93	6	69	33	17	17	30	1.94
54689421--54689460	21	1.9	21	100	0	80	35	17	17	30	1.93
54689506--54689578	25	3.0	24	78	13	78	28	21	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54706008--54706039	16	2.0	16	100	0	64	31	31	25	12	1.92
54715232--54715282	18	2.9	18	91	2	77	23	31	33	11	1.91
54722096--54722338	87	2.8	87	78	3	256	37	16	21	24	1.94
54722514--54722542	14	2.1	14	100	0	58	48	6	6	37	1.57
54724938--54725120	40	4.5	40	84	10	221	34	26	14	24	1.94
54732324--54732542	46	4.7	46	84	9	302	29	27	21	21	1.99
54732963--54733022	30	2.0	30	90	0	93	30	25	8	36	1.85
54736786--54736971	40	4.6	40	79	5	160	30	27	15	26	1.96
54742013--54742250	51	4.7	51	78	6	254	25	22	24	27	2.00
54742011--54742250	100	2.4	100	97	0	453	25	22	25	27	2.00
54742011--54742256	49	4.9	50	78	5	266	26	21	24	27	2.00
54745635--54745753	41	2.9	42	79	1	116	32	27	12	26	1.93
54745778--54745820	21	2.0	21	100	0	86	30	18	13	37	1.90
54758291--54758379	29	3.1	29	69	9	83	22	19	22	35	1.95
54771190--54771306	40	3.0	40	89	3	175	22	22	27	28	1.99
54772909--54772946	14	2.6	15	83	8	51	23	0	26	50	1.50
54781039--54781070	16	2.0	16	100	0	64	43	0	0	56	0.99
54782874--54782943	30	2.4	28	83	13	79	34	8	8	48	1.64
54783058--54783101	16	2.9	15	86	13	63	70	0	0	29	0.88
54783058--54783107	7	6.9	7	82	17	66	70	0	0	30	0.88
54785277--54785311	18	1.9	18	88	0	52	42	8	11	37	1.72
54790503--54790764	39	6.7	40	87	7	337	25	22	27	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54794362--54794406	22	2.0	22	86	4	63	37	17	6	37	1.76
54794385--54794529	19	7.9	19	89	9	239	36	14	11	37	1.82
54794385--54794529	54	2.7	54	97	1	272	36	14	11	37	1.82
54794378--54794530	73	2.1	72	89	8	240	35	15	10	38	1.81
54794378--54794529	35	4.2	38	86	11	239	36	15	10	38	1.82
54795002--54795300	78	3.8	78	86	4	413	26	24	17	31	1.97
54795002--54795300	156	1.9	157	89	4	467	26	24	17	31	1.97
54795333--54795494	89	1.8	89	84	5	222	27	22	19	30	1.98
54803916--54803963	22	2.2	21	78	10	51	41	16	4	37	1.68
54803942--54804032	19	4.9	19	86	8	134	38	14	8	38	1.77

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