genome.fa.s8.2.7.7.80.10.50.1000.126.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  126  of  279  ( 33431 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)
40042181--40042430	81	3.0	82	83	3	315	20	20	22	37	1.94
40042181--40042401	122	1.8	123	89	1	354	19	19	23	37	1.94
40049182--40049276	45	2.1	45	84	3	129	42	17	17	22	1.90
40049481--40049561	40	2.0	40	85	0	108	38	16	9	35	1.81
40050443--40050544	5	20.6	5	84	9	138	36	3	0	59	1.16
40050462--40050492	8	3.9	8	91	0	53	25	12	0	61	1.32
40051668--40051698	6	5.2	6	92	0	53	16	19	16	48	1.81
40052092--40052494	202	2.0	202	98	0	779	34	12	17	35	1.87
40052739--40052763	5	5.0	5	100	0	50	60	0	0	40	0.97
40057394--40057437	5	9.0	5	85	14	65	61	0	0	38	0.96
40057399--40057435	8	4.8	8	81	18	51	62	0	0	37	0.96
40057391--40057437	13	3.3	14	88	11	69	59	0	0	40	0.97
40059007--40059210	52	3.9	52	98	0	390	33	15	24	26	1.95
40059184--40059293	37	3.0	37	89	2	170	35	15	23	25	1.94
40060116--40060254	43	3.2	43	79	4	136	37	17	18	25	1.93
40060150--40060329	86	2.1	86	81	4	211	40	15	17	27	1.89
40060126--40060329	43	4.8	41	72	12	133	39	16	18	26	1.91
40072719--40072759	6	6.8	6	94	0	73	0	48	14	36	1.44
40073666--40073808	60	2.4	61	80	1	153	41	14	14	28	1.86
40092294--40092363	15	4.3	16	71	20	56	44	0	4	51	1.21
40092828--40092907	39	2.1	39	100	0	160	35	2	10	52	1.48
40111688--40111732	24	2.0	22	82	8	54	42	4	8	44	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40113158--40113202	22	2.0	22	82	0	54	28	2	6	62	1.33
40113931--40114008	30	2.7	29	78	7	79	35	11	3	48	1.58
40123757--40123789	11	2.8	12	86	13	50	81	3	0	15	0.80
40131217--40131268	15	3.2	15	73	19	50	44	0	1	53	1.11
40131349--40131403	22	2.7	21	83	8	60	50	0	0	49	1.00
40131382--40131414	16	2.1	16	94	0	57	45	0	3	51	1.16
40134332--40134379	11	4.2	11	76	10	51	58	4	2	35	1.29
40137607--40137639	14	2.4	14	90	5	50	84	0	15	0	0.61
40141170--40141207	19	2.1	18	90	5	58	36	0	2	60	1.11
40146908--40146976	33	2.1	33	94	0	120	37	5	13	43	1.67
40152134--40152260	46	2.7	46	87	1	173	32	25	20	21	1.98
40155723--40155810	45	2.0	46	84	8	119	48	3	2	45	1.31
40161106--40161198	45	2.1	45	82	9	111	41	5	3	49	1.41
40165741--40165775	10	3.5	10	88	0	52	57	0	0	42	0.99
40165744--40165770	14	1.9	14	100	0	54	62	0	0	37	0.95
40172099--40172137	19	2.1	19	100	0	78	20	0	33	46	1.51
40189523--40189550	13	2.2	13	100	0	56	35	25	7	32	1.83
40196704--40196765	29	2.1	29	85	8	81	45	4	3	46	1.40
40196704--40196784	28	2.9	27	81	9	74	39	4	4	50	1.46
40196725--40196784	27	2.1	29	85	11	81	38	3	5	53	1.39
40196999--40197031	17	2.0	17	88	5	50	75	3	6	15	1.11
40197036--40197082	24	1.9	25	86	4	69	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40197708--40197757	26	1.9	26	84	8	66	46	8	0	46	1.32
40199300--40199363	5	12.8	5	87	12	96	39	0	0	60	0.97
40199300--40199368	8	8.8	8	74	25	67	39	0	0	60	0.97
40199303--40199366	3	24.0	3	75	23	63	39	0	0	60	0.97
40199381--40199476	40	2.3	40	89	3	147	63	8	28	0	1.23
40200841--40200952	37	2.9	39	73	8	111	22	20	27	29	1.98
40206562--40206693	68	2.0	67	98	0	246	25	30	16	26	1.96
40213080--40213109	15	1.9	16	93	6	53	80	0	0	20	0.72
40223488--40223516	13	2.1	14	93	6	51	51	0	3	44	1.18
40224030--40224093	31	2.0	32	85	8	87	45	0	7	46	1.32
40224386--40224433	15	3.3	15	82	2	62	37	2	12	47	1.53
40224794--40224842	23	2.1	23	100	0	98	8	4	40	46	1.52
40224935--40224975	19	2.2	19	87	12	59	46	0	24	29	1.53
40239026--40239089	30	2.1	30	97	0	119	21	3	48	26	1.65
40240197--40240228	6	5.3	6	100	0	64	34	0	0	65	0.93
40246094--40246164	20	3.1	24	64	25	62	29	2	30	36	1.72
40246095--40246186	45	2.0	45	93	0	157	29	5	30	34	1.80
40251451--40251523	37	2.0	37	100	0	146	21	5	21	50	1.69
40252209--40252238	15	1.9	16	93	6	53	70	0	23	6	1.11
40261171--40261225	15	3.2	17	73	21	53	56	0	0	43	0.99
40261997--40262063	29	2.3	29	92	5	109	44	11	1	41	1.50
40262007--40262064	29	2.0	29	100	0	116	37	13	0	48	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40268780--40268810	16	1.9	16	93	0	53	41	0	3	54	1.16
40269973--40270041	27	2.4	27	77	15	68	18	8	34	37	1.82
40272393--40272426	14	2.5	14	90	4	52	20	14	29	35	1.93
40272411--40272459	21	2.3	21	82	6	64	32	10	24	32	1.89
40272648--40272733	24	3.4	24	72	16	75	53	0	5	40	1.25
40280525--40280552	11	2.5	11	100	0	56	10	28	0	60	1.30
40280594--40280653	30	2.0	29	83	3	75	25	5	11	58	1.53
40281271--40281301	12	2.7	11	90	9	53	29	0	0	70	0.87
40281282--40281343	30	2.1	30	87	0	88	29	3	11	56	1.50
40281466--40281497	11	2.8	12	86	13	50	65	0	0	34	0.93
40282242--40282316	31	2.5	31	82	4	82	33	10	14	41	1.81
40282271--40282329	31	1.9	31	86	6	84	33	11	15	38	1.84
40282915--40282999	19	4.2	20	82	11	95	54	5	0	40	1.25
40282914--40283000	20	4.3	21	81	12	85	55	5	0	39	1.24
40288204--40288315	47	2.3	47	79	8	120	28	29	14	27	1.95
40300330--40300362	16	2.0	17	94	5	59	60	0	0	39	0.97
40305262--40305289	4	7.0	4	100	0	56	50	0	0	50	1.00
40310274--40310593	46	7.0	46	94	0	525	38	14	24	22	1.92
40310854--40310900	25	2.0	25	83	8	62	53	4	14	27	1.60
40311361--40311996	7	88.3	7	71	11	315	48	32	1	17	1.55
40311417--40311485	15	4.6	15	75	15	54	56	28	1	13	1.45
40311416--40311487	22	3.3	21	75	19	67	54	30	1	13	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40311627--40311875	63	3.9	63	94	1	408	48	34	0	16	1.46
40311416--40311940	36	14.4	39	70	17	189	49	32	0	16	1.52
40311900--40311988	24	3.7	24	81	10	85	49	28	1	21	1.57
40319022--40319192	93	1.8	93	96	0	315	28	29	21	21	1.98
40319017--40319189	46	3.7	46	80	13	219	28	28	21	21	1.98
40319612--40319671	30	2.0	30	90	0	93	30	25	8	36	1.85
40322639--40322720	43	1.9	42	82	7	103	31	19	18	30	1.96
40325441--40325498	15	4.0	15	76	13	59	55	1	12	31	1.47
40334161--40334243	17	5.1	17	68	22	63	65	2	1	31	1.13
40334190--40334243	18	3.0	18	75	0	54	62	1	1	33	1.16
40334160--40334297	29	4.9	29	70	12	92	63	4	1	31	1.23
40334230--40334297	10	7.4	9	73	14	50	61	4	1	32	1.24
40334236--40334296	27	2.3	26	75	13	61	60	4	1	32	1.28
40334792--40334817	12	2.2	12	100	0	52	23	0	0	76	0.78
40334804--40334894	9	10.0	9	71	17	55	31	4	4	59	1.37
40334847--40334893	9	4.8	10	85	12	62	29	2	4	63	1.25
40334990--40335037	20	2.3	21	76	16	55	33	0	4	62	1.14
40341586--40341648	27	2.3	26	76	10	63	36	1	11	50	1.47
40344793--40344828	19	1.9	19	88	5	56	22	8	22	47	1.77
40349805--40349842	18	2.1	18	90	0	58	39	31	0	28	1.57
40349815--40349858	18	2.4	18	88	0	61	40	40	0	18	1.50
40349964--40350032	9	7.7	9	76	9	52	30	5	17	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40349963--40350022	18	3.3	18	88	4	86	31	5	16	46	1.69
40349964--40350032	27	2.6	27	88	0	93	30	5	17	46	1.71
40350195--40350219	12	2.1	12	100	0	50	16	24	36	24	1.94
40353689--40354847	231	5.0	231	100	0	2318	41	12	17	28	1.87
40367218--40367256	20	1.9	21	89	5	62	41	10	7	41	1.68
40370292--40370318	14	1.9	14	100	0	54	77	0	7	14	0.97
40377472--40377505	17	2.0	17	94	0	59	44	50	0	5	1.26
40380661--40380694	17	2.0	17	94	0	59	44	50	0	5	1.26
40411552--40411622	30	2.3	32	80	4	83	43	2	7	46	1.45
40411543--40411638	30	3.2	30	72	11	79	43	2	6	47	1.40

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