genome.fa.s25.2.7.7.80.10.50.1000.134.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  134  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)
45968466--45968513	25	1.9	25	86	0	69	47	18	0	33	1.49
45968436--45968834	9	45.7	9	74	9	290	47	17	1	33	1.58
45968820--45968875	26	2.2	26	96	0	103	39	12	7	41	1.70
45980299--45980974	338	2.0	338	98	0	1298	31	16	21	31	1.95
45984115--45984161	21	2.2	21	92	0	76	34	19	44	2	1.62
45984547--45984706	42	3.9	42	85	7	211	32	21	21	23	1.98
45984553--45984706	82	1.9	84	86	5	224	31	22	22	24	1.98
45987386--45987456	20	3.7	20	79	9	76	57	0	4	38	1.18
45987407--45987453	17	2.5	19	83	10	62	57	0	6	36	1.24
45997041--45997092	9	5.8	9	95	0	86	23	9	28	38	1.86
45997253--45997277	12	2.1	12	100	0	50	16	24	36	24	1.94
46000929--46000980	22	2.2	23	80	19	63	48	1	1	48	1.24
46008995--46009056	30	2.1	30	100	0	124	46	20	0	32	1.51
46009811--46009898	43	2.0	43	82	4	106	26	14	32	26	1.95
46027298--46027360	30	2.1	30	93	0	108	47	6	11	34	1.64
46028160--46028207	14	3.4	14	88	5	78	43	6	0	50	1.27
46030128--46030198	20	3.4	21	76	17	76	50	2	2	43	1.31
46030628--46030652	9	2.8	9	100	0	50	40	0	0	60	0.97
46036488--46036552	22	3.0	22	77	8	69	46	18	16	18	1.85
46036558--46036807	32	7.9	32	89	1	362	37	21	20	21	1.94
46036574--46036807	95	2.4	96	92	1	380	37	21	20	20	1.94
46036576--46036807	127	1.8	127	93	0	401	37	21	19	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46036851--46036910	27	2.2	27	82	11	70	30	21	26	21	1.99
46036983--46037060	24	3.3	23	78	5	84	50	23	5	21	1.69
46037049--46037100	26	1.9	27	84	7	70	36	19	13	30	1.90
46037082--46037467	27	14.3	27	84	1	470	25	19	17	36	1.94
46067731--46067836	40	2.7	40	83	0	140	36	17	30	15	1.91
46076527--46076570	22	2.0	21	83	12	54	40	0	0	59	0.98
46087225--46087251	14	1.9	14	100	0	54	37	22	25	14	1.93
46092024--46092072	25	2.0	25	88	8	73	38	6	18	36	1.76
46094291--46094554	40	6.6	40	87	6	349	25	22	27	24	2.00
46094291--46094587	159	1.9	159	82	6	379	26	22	26	24	2.00
46119667--46119691	12	2.1	12	100	0	50	24	24	8	44	1.80
46124536--46124685	76	2.0	76	83	0	192	42	18	15	24	1.89
46125256--46125328	37	2.0	37	100	0	146	46	16	10	26	1.80
46133826--46133858	16	2.1	16	88	5	50	24	3	0	72	0.98
46144704--46144973	41	6.6	41	93	0	441	29	21	28	21	1.98
46149567--46149751	101	1.8	101	87	5	275	24	17	27	30	1.97
46149561--46149749	51	3.8	49	77	4	175	24	17	27	30	1.97
46149755--46149846	44	2.1	45	87	2	132	25	19	23	31	1.98
46151936--46151964	8	3.6	8	100	0	58	24	0	0	75	0.80
46158273--46158450	91	2.0	90	84	4	232	34	14	21	29	1.93
46160823--46160882	22	2.7	22	82	5	77	21	16	16	45	1.86
46160814--46160886	22	3.3	21	78	3	74	21	19	19	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46160813--46160900	44	2.0	44	80	8	99	20	20	20	38	1.94
46161178--46161213	17	2.1	17	89	0	54	63	0	11	25	1.27
46163116--46163157	21	2.0	21	90	0	66	4	0	50	45	1.23
46163940--46165577	818	2.0	818	100	0	3276	32	17	15	34	1.92
46165100--46166180	540	2.0	540	100	0	2162	31	18	13	36	1.89
46169454--46169506	18	2.9	18	78	10	63	39	15	11	33	1.83
46177556--46177619	31	2.1	31	90	0	101	25	23	15	35	1.94
46177813--46177907	24	4.0	24	89	6	140	28	22	21	28	1.99
46177834--46177906	23	3.1	23	96	2	128	30	20	20	28	1.98
46177957--46178023	20	3.3	20	87	0	98	34	22	11	31	1.90
46178007--46178040	17	1.9	18	88	5	52	32	26	5	35	1.81
46178060--46178107	25	1.9	25	86	0	69	25	16	25	33	1.96
46185429--46185489	31	2.0	31	90	0	95	24	27	16	31	1.96
46185683--46185825	24	6.0	24	91	4	227	27	21	21	28	1.99
46185875--46185941	20	3.3	20	93	0	116	32	20	11	34	1.90
46185875--46185930	11	5.5	11	71	16	57	32	19	12	35	1.89
46185925--46185958	17	1.9	18	88	5	52	32	26	5	35	1.81
46185978--46186025	25	1.9	25	91	0	78	25	14	25	35	1.94
46187211--46187292	6	15.8	5	73	20	55	76	0	6	17	0.97
46187242--46187273	11	2.8	11	95	4	55	78	0	6	15	0.95
46187254--46187293	19	2.1	19	86	9	55	82	0	5	12	0.82
46187211--46187292	24	3.4	23	78	11	76	76	0	6	17	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46192622--46192654	13	2.6	13	90	4	50	48	12	0	39	1.40
46197626--46197672	24	1.9	25	82	4	60	34	21	4	40	1.73
46205019--46205289	48	5.6	49	69	13	141	36	17	23	22	1.94
46204963--46205272	47	6.4	48	70	14	165	36	17	23	22	1.94
46205019--46205341	149	2.2	149	100	0	646	37	17	23	21	1.94
46212580--46212616	19	1.9	19	88	0	56	18	10	2	67	1.32
46225741--46225812	23	3.1	23	80	4	83	62	1	4	31	1.23
46225800--46225865	24	2.6	25	76	19	66	57	0	7	34	1.27
46227536--46227818	88	3.2	87	72	16	276	30	24	15	29	1.96
46227430--46227730	44	6.8	44	75	11	190	28	24	15	30	1.95
46227430--46227861	176	2.5	175	86	3	591	28	24	15	31	1.96
46227668--46227923	131	1.9	132	88	0	379	28	23	16	31	1.96
46229069--46229141	21	3.4	21	84	5	94	4	13	0	82	0.81
46229075--46229139	22	3.0	23	84	13	84	3	15	0	81	0.81
46234624--46234743	23	5.2	23	68	16	70	61	1	5	30	1.29
46236828--46236861	12	2.9	12	95	4	61	61	0	0	38	0.96
46240139--46240194	26	2.2	26	93	6	96	35	23	7	33	1.82
46240853--46241602	205	3.6	205	94	0	1268	29	21	18	30	1.97
46247455--46247521	34	2.0	34	87	0	98	10	28	13	47	1.75
46249682--46249718	15	2.5	16	87	12	53	43	10	24	21	1.84
46253560--46253591	3	11.0	3	93	6	57	68	0	0	31	0.90
46253709--46253815	7	15.7	7	68	20	50	57	0	4	38	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46253747--46253811	21	3.1	21	78	8	62	61	0	4	33	1.16
46253749--46253809	28	2.2	29	77	19	67	59	0	4	36	1.19
46253831--46253864	12	2.9	12	95	4	61	61	0	0	38	0.96
46256447--46256500	21	2.7	19	82	8	63	44	1	0	53	1.11
46256514--46256564	24	2.4	22	81	18	63	52	1	3	41	1.31
46256734--46256781	13	3.7	13	77	0	60	37	25	6	31	1.81
46257722--46257768	17	2.6	17	90	10	67	27	0	0	72	0.85
46257722--46257768	10	5.0	10	76	23	57	27	0	0	72	0.85
46257710--46257773	17	3.6	17	73	19	58	26	0	1	71	0.94
46274284--46274333	20	2.4	21	81	18	61	32	0	2	66	1.03
46274470--46274529	19	3.2	18	73	13	66	35	3	5	56	1.37
46274617--46274662	18	2.6	18	89	0	65	32	2	2	63	1.19
46274625--46274667	18	2.3	18	84	4	59	39	2	0	58	1.11
46274683--46274733	9	5.6	9	75	11	50	35	0	0	64	0.94
46274694--46274738	18	2.4	18	82	13	56	35	0	0	64	0.94
46274809--46274852	15	3.0	14	77	9	52	20	9	2	68	1.28
46274857--46274891	18	1.9	18	88	0	52	28	2	2	65	1.21
46274852--46274909	30	2.0	30	90	10	93	31	1	3	63	1.21
46274875--46274914	21	2.0	21	85	14	57	30	2	2	65	1.19
46282941--46282976	17	2.1	17	94	0	63	19	22	13	44	1.86
46290033--46290097	33	2.0	33	82	11	80	60	3	3	33	1.28
46293053--46293457	88	4.6	87	81	5	406	37	20	16	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46293364--46293901	75	7.0	75	76	12	495	30	21	18	29	1.97
46293667--46293693	14	1.9	14	100	0	54	51	7	25	14	1.68
46293599--46293768	89	1.9	89	91	2	279	32	19	18	29	1.95
46293521--46294657	164	6.9	161	78	17	1060	33	20	18	27	1.96
46293829--46294095	89	3.0	89	85	5	344	37	18	18	25	1.94
46294086--46294345	89	2.9	89	96	0	475	33	19	20	26	1.97
46294407--46294437	16	1.9	16	93	0	53	64	6	12	16	1.47
46294332--46294507	89	2.0	90	91	1	291	38	19	16	26	1.92
46294423--46295126	87	9.2	74	71	17	327	34	20	15	29	1.93
46294567--46294599	12	2.5	13	85	14	50	60	9	12	18	1.57

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