genome.fa.s13.2.7.7.80.10.50.1000.108.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  108  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)
34487773--34488066	133	2.2	132	81	3	347	28	22	17	31	1.96
34488955--34489000	5	9.8	5	86	9	62	0	19	0	80	0.71
34488955--34489000	9	4.9	10	87	10	62	0	19	0	80	0.71
34488955--34489010	23	2.6	21	78	15	62	0	19	1	78	0.84
34488955--34489000	23	2.0	24	87	12	69	0	19	0	80	0.71
34498035--34498219	50	3.7	50	85	1	237	29	27	18	25	1.98
34498035--34498219	101	1.8	99	87	2	271	29	27	18	25	1.98
34501938--34501981	22	2.0	22	90	0	70	54	0	0	45	0.99
34502001--34502026	13	2.0	13	100	0	52	61	0	0	38	0.96
34502064--34502120	15	3.5	15	73	17	60	50	0	0	49	1.00
34502543--34502581	14	2.8	14	96	0	69	38	5	2	53	1.37
34509055--34509157	25	4.2	26	77	14	69	34	23	23	18	1.96
34509115--34509189	25	3.1	23	76	16	64	38	22	25	13	1.90
34509135--34509182	24	1.9	26	83	8	64	41	22	25	10	1.85
34514167--34514227	18	3.4	18	93	0	95	39	22	6	31	1.80
34515004--34515033	15	2.0	15	100	0	60	33	0	0	66	0.92
34515508--34515565	27	2.1	27	93	0	98	20	39	1	37	1.63
34517315--34517345	3	10.3	3	100	0	62	35	0	0	64	0.94
34520062--34520208	65	2.3	65	91	0	240	42	25	10	21	1.85
34522388--34522412	4	6.2	4	100	0	50	76	24	0	0	0.80
34524206--34524239	15	2.3	15	100	0	68	61	11	5	20	1.50
34526504--34526561	27	2.1	27	93	0	98	18	37	5	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34532189--34532261	26	2.7	27	85	10	87	32	12	24	30	1.92
34533575--34533632	18	3.5	17	78	19	61	60	1	13	24	1.43
34534674--34534706	7	5.0	7	92	7	52	75	0	0	24	0.80
34534667--34534728	6	9.7	6	79	11	52	79	1	4	14	0.98
34534667--34534722	20	2.8	19	86	5	67	78	1	3	16	0.97
34534674--34534715	13	3.2	13	83	16	52	78	0	2	19	0.86
34534667--34534728	26	2.3	26	81	8	72	79	1	4	14	0.98
34534879--34534916	18	2.1	19	85	5	51	0	13	15	71	1.16
34540268--34540332	4	17.0	4	70	20	50	69	0	3	27	1.03
34540268--34540340	11	6.5	11	68	13	51	71	0	2	26	1.00
34540272--34540310	7	5.3	7	93	6	60	71	0	0	28	0.86
34545064--34545292	77	3.0	77	99	0	449	28	27	6	36	1.83
34546791--34547061	49	5.7	46	78	9	208	25	31	18	25	1.97
34546791--34547106	47	6.6	49	76	10	192	25	30	18	26	1.98
34546791--34547066	144	1.9	145	83	7	364	25	31	18	25	1.97
34546839--34547109	94	2.8	98	76	5	275	24	31	18	25	1.98
34552398--34552451	27	2.0	27	85	0	72	38	14	7	38	1.75
34557361--34557393	17	1.9	17	93	0	57	36	3	27	33	1.72
34558098--34558149	21	2.5	21	87	6	70	21	38	5	34	1.77
34558109--34558152	21	2.1	21	95	0	79	18	40	4	36	1.71
34559510--34559565	28	2.0	28	96	0	103	25	8	35	30	1.86
34561524--34561713	96	2.0	96	91	0	308	11	33	16	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34563838--34563863	12	2.2	12	100	0	52	50	7	0	42	1.31
34565152--34565188	19	1.9	19	88	0	56	59	2	10	27	1.44
34565271--34565329	27	2.2	27	81	6	66	45	0	10	44	1.37
34566950--34566979	6	5.0	6	100	0	60	16	16	16	50	1.79
34584314--34584361	20	2.5	19	86	6	62	45	2	0	52	1.12
34584633--34584667	16	2.2	17	90	10	56	71	0	0	28	0.86
34584804--34584863	28	2.1	28	87	6	86	48	0	16	35	1.47
34584836--34584965	34	3.8	33	83	8	163	39	0	16	44	1.47
34585060--34585444	125	3.1	126	82	3	472	38	17	15	28	1.90
34587427--34587532	27	4.0	27	88	1	151	22	36	2	37	1.69
34587509--34587717	93	2.3	93	86	2	278	23	29	11	35	1.90
34588935--34589065	65	2.0	65	98	0	253	45	6	20	28	1.75
34592070--34592346	41	6.8	40	83	5	254	37	23	19	19	1.94
34592070--34592315	81	3.0	81	84	2	303	38	23	19	18	1.94
34607456--34607543	45	2.0	45	97	0	167	27	13	28	30	1.94
34608536--34608763	43	5.3	43	83	2	264	23	17	29	29	1.97
34612298--34612347	24	2.1	24	85	7	66	8	0	12	80	0.92
34614261--34614312	23	2.3	23	82	0	68	63	7	0	28	1.22
34616339--34616378	15	2.7	15	88	7	55	30	2	0	67	1.04
34616364--34616435	36	2.0	36	91	0	117	23	8	12	55	1.64
34616810--34617026	76	2.8	76	81	5	240	34	15	10	39	1.82
34616783--34617091	77	4.0	77	82	2	325	32	15	12	39	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34617174--34617327	84	1.8	83	84	4	211	30	9	11	48	1.71
34617376--34617414	19	2.0	20	85	5	53	33	0	10	56	1.33
34620910--34620974	21	3.2	21	68	12	64	15	27	18	38	1.91
34620892--34620992	39	2.6	39	87	0	148	14	26	21	36	1.93
34621862--34621902	20	2.0	20	100	0	82	56	14	0	29	1.39
34625505--34625532	14	2.0	14	100	0	56	35	7	14	42	1.73
34628683--34628733	21	2.5	20	78	12	59	50	3	3	41	1.39
34628690--34628755	21	3.0	22	76	6	55	62	3	1	33	1.20
34629195--34629238	21	2.1	21	86	0	61	34	0	4	61	1.16
34629204--34629253	21	2.3	21	86	6	64	34	0	2	64	1.05
34629279--34629317	21	2.0	21	90	10	64	51	0	0	48	1.00
34633541--34634003	222	2.1	220	93	3	786	31	19	20	28	1.97
34640934--34640966	7	4.7	7	100	0	66	54	0	0	45	0.99
34644332--34644451	25	4.5	25	74	12	96	55	5	6	32	1.47
34644411--34644476	15	4.3	15	83	7	71	57	0	6	36	1.23
34644473--34644535	24	2.6	24	83	11	76	52	4	4	38	1.44
34644586--34644650	21	3.2	20	81	10	80	58	4	1	35	1.28
34644633--34644699	3	22.0	3	73	14	57	62	0	2	34	1.10
34660284--34660319	14	2.6	14	100	0	72	47	11	16	25	1.79
34662532--34662689	3	52.7	3	67	18	71	30	6	3	60	1.37
34662534--34662579	23	2.0	23	83	8	58	28	6	0	65	1.17
34662697--34662728	17	1.9	16	93	6	55	34	0	12	53	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34662927--34662995	10	6.8	10	72	19	54	34	1	1	62	1.13
34662930--34663043	45	2.6	43	80	13	135	35	3	2	58	1.29
34662930--34663045	23	5.2	23	75	13	109	35	3	2	58	1.29
34662930--34663043	21	5.2	21	77	15	106	35	3	2	58	1.29
34662930--34663045	44	2.6	44	84	10	148	35	3	2	58	1.29
34671568--34671628	20	3.0	20	87	4	68	45	27	11	14	1.80
34671579--34671628	20	2.5	20	93	0	82	48	26	12	14	1.78
34674696--34675158	145	3.1	144	79	8	443	29	16	19	34	1.94
34674696--34675158	75	6.3	73	81	8	440	29	16	19	34	1.94
34683484--34684051	282	2.0	284	96	1	1041	57	8	7	26	1.54
34685535--34685662	68	1.9	65	93	4	220	30	8	11	49	1.69
34686440--34686547	26	4.2	26	89	0	171	32	9	23	35	1.86
34688474--34688772	151	2.0	151	100	0	598	22	24	24	28	1.99
34692962--34693047	3	28.7	3	100	0	172	33	0	0	66	0.92
34693316--34693409	48	1.9	49	87	6	138	53	2	14	29	1.53
34693412--34693447	18	2.0	18	100	0	72	50	0	5	44	1.25
34694075--34694138	31	2.1	31	82	5	76	56	9	10	23	1.63
34696272--34696372	17	5.9	17	72	4	60	43	15	10	29	1.81
34702132--34702215	44	1.9	44	87	4	125	33	9	39	17	1.82
34704226--34704280	23	2.5	23	85	11	71	60	0	40	0	0.97
34704290--34704366	30	2.5	31	78	12	88	59	0	40	0	0.97
34715863--34715911	21	2.4	21	90	10	75	51	4	4	40	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34716812--34716981	9	17.9	9	65	18	60	36	1	4	58	1.25
34716813--34716895	23	3.6	23	68	17	64	37	1	2	59	1.19
34716908--34716970	19	3.2	20	73	13	60	34	0	7	57	1.28
34724517--34724549	16	2.0	17	88	5	50	24	9	0	66	1.20
34730178--34730216	2	19.5	2	83	0	51	2	56	0	41	1.13
34742197--34742263	34	1.9	35	87	3	100	43	13	10	32	1.78
34747905--34747958	22	2.3	23	87	9	83	48	9	12	29	1.73
34747916--34747959	22	2.0	22	100	0	88	54	9	13	22	1.67
34748940--34748977	20	1.9	19	89	5	58	13	5	2	78	1.02
34753162--34753263	32	3.1	32	80	5	107	32	10	21	35	1.88

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