genome.fa.s9.2.7.7.80.10.50.1000.119.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  119  of  284  ( 34012 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)
39416135--39416165	16	1.9	16	100	0	62	16	6	0	77	0.97
39416289--39416397	3	35.0	3	78	15	80	60	1	1	35	1.18
39416289--39416437	77	1.9	76	95	1	271	57	2	2	36	1.27
39418192--39418356	49	3.5	46	77	7	152	32	16	26	24	1.97
39419571--39419610	21	2.0	21	85	5	55	15	40	25	20	1.90
39419871--39420016	70	2.1	70	90	0	229	39	5	21	34	1.76
39428284--39428315	12	2.7	12	100	0	64	15	28	31	25	1.96
39431001--39431156	68	2.2	68	77	13	149	20	28	16	34	1.94
39433839--39434013	46	3.8	46	71	14	153	30	32	17	20	1.95
39433846--39434018	93	1.9	93	90	0	274	29	32	17	20	1.96
39441408--39441579	46	3.7	46	71	13	154	31	29	15	23	1.95
39448217--39448277	24	2.5	24	100	0	122	26	36	18	19	1.94
39452640--39452726	43	2.0	43	93	0	147	21	20	32	25	1.98
39455664--39455810	41	3.6	41	74	15	117	23	21	26	28	1.99
39455645--39455796	42	3.7	40	72	18	123	23	21	26	28	1.99
39464541--39464619	25	3.3	25	61	10	65	32	5	29	32	1.79
39464525--39464912	49	8.1	49	94	3	623	32	9	29	28	1.89
39465031--39465109	37	2.1	37	90	0	122	24	18	31	25	1.98
39466572--39466598	13	2.1	13	100	0	54	37	0	7	55	1.28
39466559--39466587	9	3.3	9	90	9	51	34	0	10	55	1.34
39470517--39470740	40	5.6	40	87	5	301	25	26	23	24	2.00
39470517--39470740	83	2.8	80	87	4	308	25	26	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39472576--39472896	48	6.7	47	75	10	260	23	28	19	27	1.98
39472576--39472896	96	3.4	94	78	8	303	23	28	19	27	1.98
39472576--39472896	142	2.2	142	80	7	344	23	28	19	27	1.98
39479110--39479231	49	2.5	49	89	5	185	30	17	27	25	1.97
39485740--39485803	19	3.4	19	82	0	83	21	26	29	21	1.99
39488063--39488108	22	2.1	22	100	0	92	41	17	0	41	1.49
39497231--39497258	12	2.3	12	100	0	56	32	17	17	32	1.94
39506429--39506471	11	3.9	11	79	11	52	34	0	25	39	1.56
39506869--39506933	24	2.8	24	78	15	64	64	6	0	29	1.17
39506879--39506927	26	2.0	24	84	8	62	63	8	0	28	1.23
39510275--39510796	48	11.0	47	88	3	755	30	24	6	38	1.81
39510275--39510794	94	5.5	94	96	0	905	30	24	6	38	1.81
39516573--39516626	3	18.0	3	84	7	74	31	5	0	62	1.18
39524505--39524695	89	2.1	89	79	1	204	30	20	20	28	1.98
39524739--39524855	44	2.7	43	85	5	155	27	23	24	23	2.00
39526323--39526363	3	13.7	3	100	0	82	0	31	0	68	0.90
39526362--39526430	3	22.7	3	88	8	104	30	4	0	65	1.12
39527694--39527764	34	2.1	34	91	0	115	36	22	5	35	1.78
39529642--39529710	36	1.9	36	93	0	120	15	14	20	49	1.80
39540588--39540897	73	4.2	75	84	3	414	30	17	20	32	1.95
39540588--39540893	148	2.1	147	92	1	513	30	16	20	32	1.95
39540968--39541003	14	2.5	15	86	13	58	25	8	5	61	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39540805--39541165	91	4.0	91	79	5	337	30	14	17	38	1.89
39540805--39541226	91	4.8	87	77	9	234	30	14	17	36	1.90
39540805--39541212	180	2.3	177	80	7	418	30	13	17	37	1.89
39542961--39543000	3	13.0	3	94	5	71	32	0	2	65	1.06
39543088--39543118	3	10.3	3	92	0	53	35	3	0	61	1.12
39545370--39545404	15	2.3	15	85	0	52	40	2	0	57	1.14
39545720--39545744	13	1.9	13	100	0	50	20	8	16	56	1.65
39550927--39551002	32	2.4	31	79	10	82	78	2	2	15	0.97
39550983--39551025	22	1.9	23	90	4	70	72	9	2	16	1.21
39552521--39552622	44	2.3	45	84	1	125	30	18	21	29	1.97
39552280--39553236	177	5.4	177	85	2	1165	29	17	24	28	1.97
39552882--39553147	44	6.0	45	67	11	109	28	13	26	30	1.94
39555741--39555775	15	2.3	15	85	0	52	40	2	0	57	1.14
39556090--39556114	13	1.9	13	100	0	50	20	8	16	56	1.65
39564194--39564236	6	7.2	6	97	0	77	65	0	0	34	0.93
39566075--39566104	13	2.3	13	100	0	60	33	13	0	53	1.40
39566824--39566856	3	11.0	3	100	0	66	33	0	0	66	0.92
39566954--39567012	31	1.9	30	83	10	75	30	6	5	57	1.46
39567081--39567105	13	1.9	13	100	0	50	24	0	4	72	1.02
39573033--39573239	53	3.8	54	79	3	229	38	17	23	20	1.93
39574583--39574657	33	2.2	35	83	7	100	30	18	26	24	1.98
39575800--39576064	40	6.7	40	80	8	281	26	26	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39575800--39576064	80	3.3	80	92	0	424	26	26	20	26	1.99
39575800--39576064	120	2.2	120	82	6	324	26	26	20	26	1.99
39578724--39578766	20	2.2	20	100	0	86	13	34	27	23	1.93
39582573--39582849	40	7.0	40	83	4	330	26	29	19	24	1.99
39582577--39582850	80	3.4	80	91	0	424	26	28	19	24	1.99
39591531--39591626	28	3.4	28	91	2	140	27	11	28	33	1.91
39591556--39591641	27	3.1	27	86	5	93	30	10	24	34	1.89
39591531--39591642	28	4.0	27	83	6	98	28	10	25	34	1.90
39592867--39593290	217	2.0	217	82	4	525	36	17	20	25	1.94
39593888--39593960	38	1.9	38	97	0	137	35	9	24	30	1.87
39595148--39595292	40	3.6	40	85	4	184	25	25	25	23	2.00
39601945--39602020	38	2.0	38	100	0	152	31	13	23	31	1.93
39603207--39603351	40	3.6	40	83	8	170	25	24	26	24	2.00
39605205--39605402	40	5.0	40	90	4	303	23	22	28	25	1.99
39606030--39606292	40	6.6	39	86	4	278	25	27	21	25	1.99
39606030--39606292	120	2.2	119	82	4	307	25	27	21	25	1.99
39606224--39606301	40	1.9	41	82	10	97	26	28	20	24	1.99
39612373--39612555	40	4.6	39	82	4	188	27	27	20	25	1.99
39621430--39621765	40	8.5	40	88	5	470	24	23	28	24	2.00
39639588--39639631	23	2.0	23	81	4	54	22	0	20	56	1.42
39641464--39641526	30	2.1	30	90	0	99	57	15	3	23	1.53
39641504--39641534	12	2.7	11	90	9	53	70	6	0	22	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39643040--39643077	3	12.7	3	100	0	76	0	34	0	65	0.93
39643075--39643903	2	415.5	2	99	0	1644	0	49	0	50	1.00
39644220--39644259	21	1.9	21	89	0	62	47	7	15	30	1.72
39651533--39651608	38	2.0	38	97	0	143	34	3	17	44	1.67
39655673--39655760	45	1.9	46	84	6	117	37	14	20	27	1.92
39659122--39659159	20	2.0	20	89	5	60	52	7	7	31	1.59
39659124--39659164	19	2.2	19	91	8	66	51	7	9	31	1.62
39664425--39664641	40	5.4	40	87	3	260	25	28	23	22	1.99
39672543--39672760	40	5.5	40	84	2	253	25	26	22	24	2.00
39680495--39680547	27	2.0	27	85	7	72	26	22	26	24	2.00
39680575--39680621	21	2.2	22	85	11	62	38	51	6	4	1.47
39680688--39680730	22	2.0	22	85	0	59	37	27	25	9	1.87
39683575--39683619	22	2.0	22	83	8	56	40	4	0	55	1.20
39686378--39686551	44	4.0	44	84	1	242	29	14	26	28	1.95
39686378--39686545	87	1.9	88	90	1	266	30	13	26	28	1.94
39686556--39686781	44	5.1	44	90	0	326	31	15	25	27	1.95
39686449--39686659	114	1.9	114	93	0	368	28	15	27	27	1.96
39686399--39686703	158	1.9	157	87	0	439	30	15	26	27	1.96
39688254--39688312	21	2.8	21	78	19	61	44	0	1	54	1.10
39688324--39688419	16	5.4	18	72	24	71	31	2	2	64	1.16
39688323--39688411	25	3.5	25	73	19	76	32	2	2	62	1.19
39688348--39688435	41	2.1	42	81	6	99	31	4	1	62	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39690641--39690815	88	2.0	88	96	0	323	40	18	17	23	1.91
39691148--39691331	40	4.6	40	89	2	246	23	28	25	23	2.00
39692578--39692631	27	2.0	27	96	0	99	29	31	16	22	1.96
39699191--39699381	40	4.8	40	87	2	242	22	28	24	24	2.00
39710324--39710658	50	6.6	50	81	6	275	26	18	31	24	1.97
39710401--39710514	57	2.0	57	92	0	192	27	18	30	23	1.98
39710350--39710658	107	3.0	104	79	10	339	25	18	31	24	1.98
39710481--39710664	48	3.8	48	86	2	244	22	17	33	25	1.96
39715603--39715642	18	2.2	19	86	4	55	37	2	5	55	1.35
39720979--39721229	5	50.0	5	99	0	493	80	0	0	19	0.72

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