genome.fa.s25.2.7.7.80.10.50.1000.101.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  101  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)
36300132--36300239	26	4.2	26	89	0	162	35	6	22	36	1.80
36302887--36303105	47	4.7	47	78	12	211	23	30	18	27	1.98
36302891--36303105	94	2.3	92	84	7	281	23	30	18	27	1.98
36305518--36305578	15	3.8	15	77	18	52	0	26	3	70	1.02
36305544--36305578	3	11.3	3	87	6	52	0	31	0	68	0.90
36306769--36306824	3	18.3	3	96	3	103	66	0	33	0	0.92
36310263--36310351	30	3.0	30	84	0	106	41	24	11	22	1.86
36310435--36310505	29	2.4	29	83	0	97	36	26	11	25	1.90
36313044--36313077	17	2.0	17	100	0	68	64	5	5	23	1.38
36313124--36313188	31	2.0	31	85	11	87	50	0	4	44	1.22
36315438--36315717	9	29.6	9	70	15	83	60	4	2	31	1.31
36315538--36315582	20	2.2	20	92	7	74	62	8	0	28	1.25
36316135--36316362	9	24.6	9	66	20	78	33	1	3	60	1.24
36316136--36316313	19	9.4	19	65	24	58	33	2	4	59	1.30
36316261--36316348	17	4.8	17	70	25	56	35	0	3	61	1.13
36316248--36316305	29	2.0	30	86	3	82	32	0	5	62	1.18
36316267--36316309	21	2.0	21	91	8	70	30	0	6	62	1.21
36316270--36316320	21	2.4	21	84	12	61	35	0	5	58	1.22
36319529--36319584	22	2.5	22	91	5	87	33	33	14	17	1.90
36322521--36322601	37	2.2	37	81	0	90	29	13	16	40	1.86
36326041--36326069	12	2.3	13	94	5	51	17	20	0	62	1.33
36327347--36327405	31	1.9	31	85	0	82	37	13	10	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36334643--36334720	31	2.5	31	82	4	93	15	21	17	44	1.86
36340751--36340799	21	2.3	21	96	0	89	36	4	16	42	1.67
36340943--36341115	46	3.7	46	77	10	190	22	20	27	30	1.98
36340940--36341110	93	1.8	93	91	0	279	22	20	28	29	1.98
36341340--36341377	19	2.0	20	85	15	53	36	0	23	39	1.55
36344823--36344884	26	2.4	26	83	5	81	37	4	12	45	1.64
36346511--36346588	40	2.0	40	86	0	111	21	23	28	26	1.99
36346693--36346933	40	6.1	40	93	1	405	29	29	19	21	1.98
36346693--36346933	79	3.0	79	94	0	419	29	29	19	21	1.98
36354494--36354674	40	4.5	40	86	4	249	27	26	20	25	1.99
36357182--36357406	110	2.0	110	98	0	432	32	25	10	30	1.90
36357624--36357758	68	2.0	68	95	2	245	39	22	8	30	1.83
36357807--36357923	59	2.0	59	96	0	216	37	12	8	41	1.74
36358939--36358966	13	2.2	13	100	0	56	57	14	0	28	1.38
36362570--36362663	46	2.0	46	97	0	179	27	21	15	35	1.94
36366704--36366821	43	2.8	42	79	2	146	31	13	21	33	1.92
36367532--36367565	15	2.3	15	89	0	50	11	2	41	44	1.56
36373840--36373947	26	4.2	26	93	0	189	32	7	24	36	1.83
36375543--36375685	53	2.7	53	92	2	223	18	23	23	33	1.97
36375546--36375685	27	5.2	27	81	8	162	19	23	23	33	1.97
36377106--36377216	42	2.6	42	76	8	118	29	15	25	29	1.96
36389418--36389749	94	3.6	91	81	6	327	34	15	24	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36390366--36390399	17	2.0	17	100	0	68	47	11	23	17	1.81
36394600--36394902	80	3.8	80	83	3	351	31	14	12	41	1.84
36401560--36401605	22	2.1	22	83	0	56	58	13	8	19	1.60
36415207--36415238	17	1.9	17	93	6	57	15	9	25	50	1.74
36415626--36415774	42	3.5	44	76	14	152	26	20	26	26	1.99
36417257--36417287	6	5.2	6	100	0	62	83	0	0	16	0.64
36418667--36418743	34	2.2	34	81	6	84	33	7	11	46	1.69
36422080--36422107	11	2.5	11	100	0	56	28	0	0	71	0.86
36424060--36424240	46	4.0	46	88	2	240	39	15	23	21	1.92
36431680--36431721	23	1.9	22	85	9	59	4	14	2	78	1.01
36433697--36433738	22	1.9	22	95	0	75	21	21	16	40	1.91
36433927--36433993	27	2.5	27	90	2	100	35	17	7	38	1.78
36438016--36438076	30	2.1	29	96	3	113	36	22	16	24	1.94
36444486--36444534	21	2.4	20	80	12	55	53	8	0	38	1.31
36446155--36446570	40	10.2	40	84	10	547	25	29	22	22	1.99
36446159--36446566	83	5.0	82	92	2	680	25	29	22	22	1.99
36451137--36451288	40	3.8	41	89	3	211	24	21	28	25	1.99
36451137--36451308	80	2.2	80	84	3	213	23	20	27	27	1.99
36459342--36459511	79	2.1	80	86	5	229	25	21	27	24	1.99
36459290--36459513	40	5.6	39	84	8	215	25	21	28	25	1.99
36459342--36459546	79	2.6	79	82	6	202	26	20	27	24	1.99
36463090--36463645	206	2.7	206	89	1	871	28	22	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36464547--36464585	12	3.3	12	92	3	62	7	0	10	82	0.86
36475349--36475423	14	4.9	15	73	23	68	58	2	6	32	1.38
36475440--36475633	8	25.1	8	66	22	60	58	1	5	35	1.27
36475391--36475635	7	36.0	7	65	25	57	57	0	5	35	1.28
36475557--36475633	5	15.4	5	72	20	54	62	1	1	35	1.12
36475439--36475613	18	9.1	18	65	27	60	58	1	5	34	1.29
36481606--36481702	27	3.6	27	90	2	140	27	13	28	29	1.94
36489798--36490002	28	7.4	28	87	3	272	26	12	29	31	1.93
36489823--36490002	55	3.3	55	94	1	299	27	12	28	30	1.93
36489823--36490002	83	2.2	82	92	1	297	27	12	28	30	1.93
36498237--36498439	54	3.8	54	82	3	230	22	25	17	34	1.96
36498411--36498534	47	2.6	47	86	5	187	25	23	13	37	1.91
36498674--36498782	44	2.5	44	90	0	164	24	20	13	41	1.89
36506958--36507111	29	5.3	29	87	0	211	28	30	13	27	1.94
36511376--36511431	29	1.9	29	96	0	103	28	26	17	26	1.98
36511654--36511688	16	2.2	16	89	0	52	14	14	17	54	1.72
36511651--36511696	24	1.9	24	81	0	56	13	15	21	50	1.78
36513120--36513201	42	1.9	42	82	2	101	32	25	15	25	1.96
36532807--36533036	48	4.8	48	77	4	214	25	24	20	28	1.99
36538329--36538447	27	4.4	27	84	0	157	33	17	22	26	1.96
36539963--36540003	20	2.0	20	90	0	64	31	12	9	46	1.74
36547929--36548028	40	2.5	40	85	3	121	26	29	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36553068--36553162	40	2.4	40	87	7	131	26	14	30	28	1.95
36557940--36557973	15	2.3	15	89	0	50	58	8	0	32	1.29
36564179--36564206	13	2.2	13	100	0	56	28	0	14	57	1.38
36565621--36565866	40	6.2	40	97	0	449	22	22	26	28	1.99
36567725--36567895	43	4.0	43	70	8	150	28	17	22	31	1.97
36576100--36576155	29	2.0	28	92	3	94	28	33	16	21	1.95
36578664--36578835	93	1.8	93	96	0	317	27	29	21	20	1.98
36578657--36578832	46	3.8	46	79	12	216	28	29	21	20	1.98
36586232--36586406	46	3.8	46	96	0	314	29	29	21	20	1.98
36593846--36593901	26	2.1	28	83	12	73	21	5	3	69	1.24
36597776--36597837	21	2.9	21	87	2	97	19	27	40	12	1.88
36598960--36599141	99	1.9	96	85	5	249	24	31	18	24	1.97
36599155--36599281	46	2.7	46	87	4	166	23	27	18	29	1.98
36605475--36605553	22	3.6	22	89	6	133	20	27	39	12	1.89
36618637--36618665	13	2.2	13	100	0	58	31	0	13	55	1.39
36625205--36625233	13	2.2	13	100	0	58	31	0	13	55	1.39
36628021--36628225	9	22.3	9	67	15	75	62	2	4	30	1.29
36628020--36628100	39	2.1	38	81	6	92	61	4	2	30	1.30
36628194--36628251	19	2.9	19	80	10	55	68	6	3	20	1.27
36628448--36628493	11	4.4	11	78	8	51	17	0	2	80	0.81
36628518--36628552	17	2.1	16	89	5	52	37	5	0	57	1.23
36628606--36628643	20	1.9	20	89	10	60	34	2	0	63	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36628603--36628670	29	2.3	28	85	7	82	35	1	4	58	1.27
36632192--36632256	24	2.7	24	82	0	85	50	6	13	29	1.66
36634802--36634985	67	2.8	64	79	7	210	29	16	30	23	1.96
36638049--36638100	25	2.1	25	89	3	79	28	19	19	32	1.96
36638056--36638125	25	2.8	25	86	0	95	27	22	22	27	1.99
36638936--36638997	27	2.3	27	83	5	81	20	24	19	35	1.96
36639036--36639208	54	3.2	52	78	8	159	31	7	18	42	1.78
36639058--36639208	27	5.6	27	80	4	128	30	6	19	43	1.77
36639166--36639251	27	3.2	27	83	0	91	34	6	22	36	1.81
36639201--36639269	27	2.6	27	90	0	111	40	8	20	30	1.82

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