genome.fa.s25.2.7.7.80.10.50.1000.157.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  157  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)
53467023--53467084	29	2.1	29	82	5	72	32	9	12	45	1.75
53474739--53474837	20	4.9	20	69	9	58	40	19	28	12	1.87
53479872--53479931	30	2.2	25	75	25	75	48	10	6	35	1.63
53483707--53483741	2	17.5	2	100	0	70	0	0	48	51	1.00
53489492--53489532	18	2.4	17	84	8	55	14	39	31	14	1.87
53493668--53493739	36	2.0	36	94	0	126	37	18	23	20	1.94
53494172--53494220	20	2.5	20	81	15	66	57	6	24	12	1.58
53502821--53502859	6	6.5	6	84	0	51	17	5	0	76	0.96
53504143--53504204	5	11.3	6	78	13	55	45	1	1	51	1.20
53504143--53504204	11	5.7	11	77	11	74	45	1	1	51	1.20
53506547--53506709	81	2.0	81	100	0	326	36	8	8	46	1.65
53511096--53511172	37	2.1	37	92	0	127	31	28	14	25	1.95
53511923--53511953	6	5.2	6	100	0	62	32	16	16	35	1.91
53514346--53514508	81	2.0	81	97	0	308	39	13	8	38	1.75
53519918--53519963	16	2.6	19	80	20	71	30	26	10	32	1.90
53524970--53525203	43	5.7	43	77	9	225	26	32	16	23	1.96
53525029--53525099	36	2.0	36	94	0	124	28	36	19	15	1.92
53524990--53525142	79	1.9	79	87	0	225	27	34	17	20	1.95
53525078--53525243	84	2.0	84	81	2	199	30	29	15	25	1.95
53525222--53525311	47	1.9	47	84	8	121	37	28	12	21	1.89
53533223--53533247	13	1.9	13	100	0	50	8	0	24	68	1.16
53534831--53534932	41	2.5	41	90	3	152	27	19	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53535948--53535973	13	2.0	13	100	0	52	53	0	15	30	1.42
53538246--53538302	14	4.1	14	82	8	62	49	24	0	26	1.51
53538546--53538584	20	2.0	20	84	0	51	64	5	7	23	1.40
53538590--53538821	41	5.7	41	83	4	297	28	22	19	29	1.98
53548071--53548304	21	11.1	21	68	7	107	14	18	17	49	1.80
53548066--53548309	42	5.8	42	85	0	301	14	19	17	48	1.81
53556510--53556573	29	2.2	29	94	2	112	34	20	14	31	1.92
53562845--53562899	16	3.4	16	75	5	56	25	41	5	27	1.77
53562842--53562909	33	2.1	33	91	0	109	22	44	5	27	1.76
53568849--53568956	57	1.9	57	94	0	189	42	25	6	25	1.79
53582317--53582459	73	2.0	71	95	1	250	25	32	11	30	1.90
53584847--53584916	33	2.1	33	81	5	79	4	51	0	44	1.21
53584862--53584928	6	10.7	6	78	9	53	4	50	0	44	1.22
53590432--53590465	15	2.3	15	100	0	68	64	0	11	23	1.26
53591364--53591400	18	2.1	18	100	0	74	40	27	5	27	1.78
53592669--53592860	45	4.2	45	76	10	167	33	5	3	57	1.38
53592668--53592937	24	11.7	25	69	17	140	34	5	4	55	1.44
53592725--53592937	114	1.9	114	80	7	254	35	6	4	53	1.46
53592668--53592928	69	3.8	68	76	9	233	34	5	4	55	1.43
53592808--53592959	69	2.2	70	76	10	159	33	5	5	55	1.44
53593215--53593246	13	2.5	13	100	0	64	37	0	6	56	1.25
53602366--53602397	14	2.3	14	100	0	64	6	6	31	56	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53611055--53611086	14	2.3	14	100	0	64	6	6	31	56	1.49
53619143--53619211	25	2.7	25	88	6	95	28	11	14	44	1.80
53619157--53619222	25	2.6	25	85	4	80	33	10	13	42	1.79
53620865--53620966	22	4.5	23	73	19	72	59	1	4	33	1.30
53622200--53623323	143	7.9	143	85	0	1451	28	20	19	31	1.97
53623674--53623715	22	1.9	22	100	0	84	28	26	4	40	1.76
53626360--53626422	22	2.8	23	79	15	69	7	19	0	73	1.08
53631008--53631053	18	2.6	18	82	3	58	67	4	4	23	1.27
53632925--53632967	21	2.0	21	81	0	50	69	11	9	9	1.36
53635060--53635394	44	7.5	46	69	16	156	29	20	17	33	1.95
53635161--53635268	41	2.7	40	78	8	119	33	18	16	31	1.93
53635285--53635415	45	2.9	45	81	4	158	29	21	18	31	1.97
53636332--53636381	9	5.6	9	76	9	57	2	12	2	84	0.80
53639489--53639541	24	2.2	25	86	3	72	47	7	18	26	1.75
53640349--53640426	30	2.6	30	88	6	106	30	20	28	20	1.98
53640474--53640589	30	3.9	30	90	0	178	32	18	25	23	1.97
53641038--53641124	24	3.6	24	73	7	70	48	19	5	26	1.71
53641170--53641270	27	3.8	25	76	10	94	22	18	22	35	1.96
53641294--53641351	27	2.1	27	90	0	89	27	24	15	32	1.95
53642632--53642922	43	6.8	43	87	3	392	26	17	32	23	1.97
53642631--53642922	130	2.3	130	89	4	457	26	17	32	23	1.97
53649515--53649702	27	5.8	33	72	23	132	32	28	21	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53649517--53649707	102	1.9	102	95	0	346	31	29	20	18	1.96
53656934--53657284	33	10.4	32	66	27	110	32	27	19	20	1.97
53657033--53657084	27	1.9	27	100	0	104	26	30	23	19	1.98
53656957--53657286	102	3.2	102	97	0	608	32	27	20	20	1.97
53657134--53657186	27	2.0	27	100	0	106	26	30	24	18	1.98
53662161--53662268	41	2.6	41	89	2	164	23	30	20	25	1.98
53662160--53662317	82	1.9	81	82	10	196	24	27	19	29	1.98
53668591--53668757	92	1.8	90	87	7	248	32	11	14	40	1.82
53668910--53669128	112	1.9	112	87	2	323	36	20	16	26	1.94
53671100--53671304	102	2.0	102	90	0	320	30	17	19	33	1.94
53676017--53676057	22	1.9	21	95	5	73	73	0	26	0	0.84
53676018--53676059	10	3.8	11	81	12	59	73	0	26	0	0.83
53677025--53677109	45	1.9	43	85	4	116	43	17	21	17	1.88
53679184--53679972	285	2.8	285	84	1	1044	30	19	20	29	1.97
53679184--53679972	143	5.5	143	84	1	999	30	19	20	29	1.97
53679872--53680067	98	2.0	98	86	4	270	31	17	21	29	1.97
53679736--53680187	241	1.9	241	87	2	676	31	18	22	27	1.97
53679198--53680088	285	3.1	280	80	5	722	30	19	20	28	1.97
53679880--53680089	98	2.1	98	83	3	253	32	18	21	27	1.96
53681396--53681456	27	2.4	26	82	15	74	27	9	3	59	1.45
53681758--53682624	4	216.8	4	100	0	1734	50	24	0	25	1.50
53686748--53686787	16	2.5	16	88	8	55	77	7	5	10	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53688896--53689056	88	1.8	88	84	0	223	30	15	23	30	1.95
53688937--53689332	45	8.8	45	76	4	320	29	15	22	31	1.95
53688929--53689345	90	4.7	90	80	1	392	29	16	22	31	1.95
53689525--53689892	50	7.4	50	73	0	315	29	18	23	28	1.98
53689534--53689941	100	4.1	100	87	2	527	29	19	22	28	1.98
53691721--53691760	3	13.3	3	100	0	80	0	0	32	67	0.91
53694630--53694731	22	4.5	22	78	13	75	34	6	2	55	1.41
53694687--53694736	23	2.2	22	86	10	66	34	4	6	56	1.43
53695945--53695999	25	2.2	25	90	0	83	45	10	10	32	1.74
53695945--53696016	25	2.9	24	78	12	65	45	11	9	33	1.72
53700406--53700468	27	2.3	27	86	0	81	36	15	22	25	1.94
53700570--53700664	24	4.0	24	78	9	79	23	6	24	46	1.75
53700569--53700666	48	2.0	48	84	11	130	22	6	23	47	1.73
53700597--53700678	24	3.4	24	84	0	110	20	7	24	47	1.75
53700626--53700668	11	3.7	11	76	11	50	13	6	27	51	1.67
53700826--53700979	32	4.8	32	83	3	193	19	18	21	40	1.92
53700826--53701030	64	3.2	63	82	2	223	20	19	20	40	1.92
53700835--53701014	96	1.9	93	80	9	209	21	20	19	39	1.93
53701020--53701081	22	2.8	21	75	4	61	19	17	17	45	1.86
53711332--53711414	30	2.7	30	86	1	112	24	24	22	28	1.99
53712256--53712308	24	2.2	25	86	3	72	26	20	7	45	1.78
53714673--53714698	13	2.0	13	100	0	52	23	23	0	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53721814--53721867	27	2.0	27	88	0	81	31	1	0	66	1.02
53721814--53721870	18	3.1	18	77	7	53	31	1	0	66	1.02
53728056--53728108	18	2.9	17	75	5	52	47	0	15	37	1.45
53731373--53731411	17	2.2	19	86	9	55	82	0	5	12	0.83
53733825--53734235	143	2.9	143	81	2	511	31	18	20	30	1.96
53735692--53735781	22	4.0	21	78	12	74	33	5	4	56	1.42
53735749--53735798	23	2.2	22	85	3	64	34	6	6	54	1.50
53737580--53737648	25	2.7	25	81	2	75	42	13	13	31	1.82
53741904--53741964	27	2.3	27	88	0	86	32	19	21	26	1.97
53742102--53742223	24	5.1	24	82	2	111	22	5	24	47	1.73

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