genome.fa.s13.2.7.7.80.10.50.1000.131.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_chr11
Parameters: 2 7 7 80 10 50 1000
Length:  102024878

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310   

This is table  131  of  310  ( 37082 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)
42364495--42364797	40	7.6	40	89	3	380	27	28	20	24	1.99
42370547--42370618	36	2.0	36	97	0	135	15	16	26	41	1.88
42372389--42372573	40	4.7	40	81	5	178	27	28	20	24	1.99
42372356--42372573	40	5.5	39	77	7	165	25	27	20	25	1.99
42376047--42376203	43	3.7	43	77	12	153	33	27	16	22	1.95
42376431--42376465	11	3.3	11	92	4	54	20	28	25	25	1.99
42378182--42378271	44	2.0	44	80	0	99	22	13	27	36	1.91
42385073--42385149	26	3.0	26	82	0	100	38	25	19	15	1.91
42388655--42388810	68	2.2	68	78	11	156	20	27	16	35	1.94
42400310--42400679	50	7.7	48	71	12	262	27	19	28	24	1.98
42400361--42400625	45	5.7	45	75	8	251	26	18	29	25	1.98
42400310--42400624	95	3.3	95	88	0	486	26	19	29	24	1.98
42400310--42400690	95	4.0	95	84	3	480	27	18	28	24	1.98
42400310--42400690	190	2.0	191	86	1	541	27	18	28	24	1.98
42406094--42406373	70	4.0	70	98	0	537	45	7	17	30	1.76
42407155--42407327	45	3.7	45	75	7	175	25	19	29	26	1.98
42407199--42407352	50	3.2	50	75	9	183	27	20	30	22	1.98
42407150--42407352	95	2.1	95	92	0	343	26	19	30	23	1.98
42409558--42409587	11	2.8	11	95	5	53	23	0	0	76	0.78
42416856--42417118	40	6.6	40	87	3	309	26	28	20	23	1.99
42418569--42418601	11	3.1	11	86	8	50	63	0	27	9	1.24
42420310--42420538	46	5.0	46	87	0	305	41	14	24	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42424573--42424674	43	2.4	43	86	3	134	26	16	24	32	1.96
42427049--42427270	40	5.6	40	89	2	324	23	22	25	28	1.99
42433574--42433776	53	3.8	53	75	8	160	37	18	22	21	1.94
42439857--42439895	16	2.4	16	91	0	60	48	20	20	10	1.78
42440112--42440195	29	2.9	30	83	5	109	23	8	32	35	1.85
42440149--42440228	28	2.8	29	85	9	94	26	7	32	33	1.84
42440349--42440549	99	2.0	99	96	0	366	22	17	25	33	1.96
42461867--42461896	13	2.4	13	94	5	53	23	16	0	60	1.36
42468397--42468566	43	4.0	42	76	9	164	32	25	16	25	1.96
42474182--42474318	46	3.0	46	84	0	175	24	29	10	36	1.88
42474297--42474456	47	3.4	46	87	5	205	25	30	11	32	1.91
42474489--42474639	47	3.2	47	92	0	230	25	29	9	36	1.87
42474303--42474608	157	1.9	157	97	0	585	24	30	11	33	1.91
42474561--42474640	25	3.3	25	66	16	60	30	28	5	36	1.78
42488543--42488712	85	2.0	85	98	0	331	30	7	22	39	1.81
42497228--42497444	40	5.5	40	92	3	325	24	23	28	24	2.00
42497224--42497444	119	1.9	119	88	5	340	25	22	27	24	2.00
42504847--42505040	27	7.2	27	92	0	280	24	13	20	42	1.87
42507526--42507729	27	7.6	27	86	4	270	23	14	19	43	1.87
42507982--42508026	23	1.9	24	90	4	74	26	2	46	24	1.64
42508039--42508087	18	2.7	18	80	0	62	22	22	14	40	1.90
42512303--42512416	43	2.7	43	83	2	122	26	14	23	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42524058--42524083	11	2.4	11	100	0	52	53	19	0	26	1.45
42524539--42524616	26	2.9	27	84	3	95	29	17	16	35	1.93
42524581--42525064	27	18.0	27	81	7	457	33	8	18	39	1.81
42524583--42525076	81	6.1	81	84	5	520	33	8	18	40	1.80
42525716--42525785	25	2.8	25	91	0	113	45	12	21	20	1.84
42525716--42525813	31	3.4	30	73	16	98	47	12	19	20	1.81
42525695--42525757	6	10.3	6	74	16	58	49	14	19	17	1.80
42525932--42525991	27	2.3	26	85	2	75	35	20	23	21	1.96
42526460--42526641	91	2.0	91	97	0	346	22	20	19	37	1.94
42527415--42527629	46	4.7	46	98	0	412	18	21	32	27	1.97
42528695--42528851	79	2.0	79	98	0	305	28	13	20	37	1.90
42530238--42530391	77	2.0	77	93	0	263	25	15	28	30	1.96
42533817--42534032	46	4.7	46	98	0	407	21	24	27	26	1.99
42535590--42535784	27	7.2	27	86	0	255	38	8	23	30	1.84
42535764--42535851	27	3.3	26	73	20	74	27	9	20	43	1.82
42535761--42535909	54	2.8	53	81	8	165	30	9	20	39	1.84
42535778--42535930	27	5.7	26	75	12	114	29	9	22	39	1.85
42538013--42538042	15	2.1	15	93	6	53	36	33	13	16	1.88
42541388--42541612	40	5.6	40	83	5	265	23	21	28	27	1.99
42541388--42541582	83	2.4	80	85	5	266	22	21	28	28	1.99
42543268--42543760	242	2.0	242	98	0	950	34	23	15	27	1.94
42543817--42544321	27	18.9	27	76	6	357	33	9	18	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42544659--42544722	28	2.3	28	88	0	92	28	34	15	21	1.94
42545962--42546095	56	2.4	56	84	2	180	29	15	22	32	1.95
42557721--42558101	94	4.1	94	93	1	622	34	11	28	26	1.90
42557722--42558061	47	7.2	47	97	0	626	35	10	27	26	1.90
42558029--42558185	79	2.0	79	100	0	314	33	10	31	24	1.89
42560172--42560377	27	7.6	27	87	2	288	24	13	18	43	1.86
42560164--42560379	81	2.7	81	87	2	326	25	12	18	43	1.85
42560629--42560673	23	1.9	24	90	4	74	26	2	46	24	1.64
42560686--42560734	18	2.7	18	81	6	64	22	20	14	42	1.88
42564076--42564136	30	2.0	30	100	0	122	37	16	9	36	1.82
42564936--42565036	43	2.3	43	83	3	114	27	14	21	35	1.93
42567369--42567497	46	2.8	48	81	8	142	20	18	29	31	1.97
42571621--42571712	41	2.2	41	82	3	103	28	16	26	29	1.97
42574279--42574311	11	3.0	11	100	0	66	54	18	0	27	1.44
42574768--42574845	27	2.9	27	88	0	102	32	14	15	38	1.87
42574787--42574860	27	2.7	27	89	4	105	33	12	13	40	1.82
42574845--42575266	27	15.7	26	73	16	219	33	8	19	39	1.81
42574823--42575266	54	8.3	54	80	5	312	33	8	18	39	1.81
42574814--42575250	81	5.4	80	79	6	429	33	8	19	39	1.81
42575937--42576039	6	16.8	6	75	15	77	49	11	18	20	1.78
42575949--42576039	37	2.5	37	85	3	121	48	12	18	20	1.80
42576158--42576217	27	2.3	26	85	2	75	35	20	23	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42576256--42576307	27	2.0	26	84	3	68	32	21	28	17	1.96
42576542--42576723	27	6.7	27	87	0	247	41	6	20	31	1.77
42576730--42576862	54	2.5	54	80	4	142	30	9	21	39	1.84
42576759--42576883	27	4.7	27	79	8	130	29	9	22	38	1.86
42578993--42579022	15	2.1	15	93	6	53	36	33	13	16	1.88
42580788--42581236	134	3.4	133	81	5	485	33	8	18	40	1.80
42580764--42581261	27	18.6	27	79	4	407	32	8	18	40	1.81
42581578--42581634	28	2.0	28	89	0	87	28	35	14	22	1.93
42581581--42581641	28	2.2	28	84	0	77	31	37	9	21	1.86
42584504--42584666	47	3.5	47	77	11	208	28	30	19	22	1.97
42584551--42584714	46	3.5	46	76	11	190	29	29	17	23	1.97
42584496--42584709	93	2.3	93	99	0	419	28	30	17	23	1.97
42590739--42591176	134	3.3	131	77	6	407	33	7	18	40	1.80
42590672--42591198	27	19.6	27	78	3	438	31	8	19	39	1.83
42591515--42591578	28	2.3	28	86	5	85	29	34	14	21	1.93
42593633--42593766	56	2.4	56	85	0	178	29	14	21	33	1.94
42597395--42597423	14	2.1	14	100	0	58	27	6	24	41	1.80
42602318--42602354	12	3.1	12	84	0	56	48	13	8	29	1.71
42609615--42609684	34	2.1	34	100	0	140	31	14	22	31	1.94
42619268--42620277	505	2.0	505	100	0	2020	33	11	21	32	1.90
42621379--42621836	226	2.0	226	100	0	916	37	8	16	37	1.80
42633539--42633710	93	1.8	93	96	0	317	27	29	21	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42633532--42633707	46	3.8	46	79	12	216	28	29	21	20	1.98
42641115--42641286	93	1.8	93	96	0	317	27	29	21	20	1.98
42641108--42641283	46	3.8	46	79	12	216	28	29	21	20	1.98
42648329--42648377	24	2.0	24	100	0	98	20	26	32	20	1.97
42663052--42663120	34	2.0	34	86	5	95	24	28	20	26	1.99
42667158--42667280	41	3.0	41	92	0	201	25	29	23	21	1.99
42667537--42667833	27	11.0	27	81	2	227	30	10	17	40	1.84
42667866--42667906	21	2.0	21	85	0	55	7	31	46	14	1.72
42670319--42670424	48	2.2	48	89	0	158	33	4	26	34	1.77
42670558--42670629	37	1.9	37	94	0	126	22	20	34	22	1.97

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310