genome.fa.s3.2.7.7.80.10.50.1000.169.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325   326   327   328   329   330   331   332   333   

This is table  169  of  333  ( 39894 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)
55657892--55658146	55	4.8	54	78	10	251	36	16	25	21	1.94
55657899--55658099	108	1.8	110	88	4	309	34	17	25	22	1.96
55658338--55658368	16	1.9	16	93	0	53	41	0	22	35	1.54
55664189--55664370	47	3.9	47	78	9	203	22	29	19	29	1.98
55664192--55664413	93	2.4	93	84	5	277	23	27	19	29	1.98
55664191--55664412	47	4.8	46	74	15	183	22	28	19	29	1.98
55665958--55666022	34	2.0	33	88	8	98	64	3	23	9	1.37
55667977--55668036	30	2.0	30	90	0	93	28	25	8	38	1.84
55671197--55671235	2	19.5	2	100	0	78	0	48	0	51	1.00
55672350--55672381	16	1.9	17	93	6	57	68	0	0	31	0.90
55672350--55672404	15	3.7	15	77	18	53	69	1	0	29	0.99
55673897--55673937	17	2.5	17	88	4	57	48	0	4	46	1.23
55677724--55677807	31	2.6	31	88	3	114	52	3	11	32	1.55
55682635--55682947	48	6.5	48	89	2	443	26	16	30	26	1.97
55683874--55683930	28	2.0	28	86	0	78	36	24	21	17	1.94
55684355--55684413	26	2.2	27	84	3	75	25	23	18	32	1.97
55684355--55684423	27	2.6	26	86	2	84	27	24	15	31	1.96
55687987--55688208	40	5.6	40	92	1	358	22	22	26	28	1.99
55691034--55691103	27	2.6	27	81	0	77	28	24	15	31	1.96
55696897--55696976	42	1.9	42	84	5	108	20	36	23	20	1.95
55705866--55706610	40	18.6	40	95	0	1267	27	19	27	25	1.99
55720851--55720908	25	2.3	25	85	11	75	63	1	12	22	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55720902--55720949	18	2.8	17	87	6	62	79	0	4	16	0.89
55720902--55720949	6	8.3	6	79	6	55	79	0	4	16	0.89
55735516--55735623	27	4.0	27	82	0	144	36	17	17	28	1.93
55735519--55735626	54	2.0	54	90	0	171	35	16	18	29	1.93
55735608--55735676	26	2.6	27	81	6	88	42	17	8	31	1.80
55735658--55735944	27	10.7	26	78	7	191	42	20	8	28	1.81
55735659--55735944	81	3.5	79	74	10	238	41	20	8	29	1.81
55735658--55736027	54	6.8	54	75	6	246	41	20	8	30	1.81
55735659--55735920	108	2.4	107	81	4	303	41	21	8	29	1.81
55735608--55736017	27	15.2	26	77	8	157	40	18	9	31	1.82
55736248--55736370	41	3.0	41	87	2	176	19	21	30	28	1.98
55736514--55736576	22	2.8	23	80	7	76	22	25	23	28	1.99
55739629--55739737	45	2.3	46	87	7	150	33	10	29	27	1.89
55742874--55742913	15	2.7	15	84	0	53	57	15	15	12	1.66
55750558--55750778	46	4.7	46	77	9	189	28	19	28	23	1.98
55765610--55765786	27	6.5	27	81	5	160	29	28	15	25	1.96
55765631--55765790	82	2.0	81	86	3	223	28	29	16	25	1.97
55773703--55773879	27	6.5	27	82	5	169	28	28	16	25	1.97
55773724--55773883	82	2.0	81	87	3	232	28	29	16	25	1.97
55779153--55779293	50	2.9	50	85	5	182	28	28	18	24	1.98
55779451--55779508	20	2.9	20	94	0	98	36	31	13	18	1.90
55781827--55781946	6	19.3	6	68	19	68	47	15	17	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55781836--55781946	31	3.5	31	88	1	150	47	14	18	19	1.82
55782083--55782184	27	3.8	27	84	5	125	38	20	21	19	1.94
55782343--55782407	22	3.0	21	74	17	60	32	23	24	20	1.98
55782852--55783028	27	6.6	27	86	1	239	23	19	20	36	1.95
55783013--55783407	27	14.6	27	75	7	230	31	8	20	39	1.83
55783121--55783414	54	5.4	54	89	0	401	32	8	19	39	1.83
55783059--55783407	81	4.3	82	79	5	325	31	8	19	40	1.82
55783121--55783407	27	10.6	27	83	0	342	32	8	19	39	1.82
55789275--55789299	13	1.9	13	100	0	50	16	24	40	20	1.91
55802781--55802833	26	2.0	27	81	7	63	47	13	7	32	1.70
55804759--55804995	50	4.7	50	80	3	242	24	18	27	30	1.97
55804759--55804995	101	2.4	99	82	5	289	24	18	27	30	1.97
55804760--55805132	151	2.7	143	80	12	416	23	18	27	30	1.98
55805892--55805922	16	1.9	16	100	0	62	54	25	6	12	1.62
55807006--55807056	24	2.1	24	92	0	84	49	15	23	11	1.78
55807006--55807056	16	3.2	16	80	0	57	49	15	23	11	1.78
55807165--55807218	19	2.9	19	88	2	83	24	18	40	16	1.90
55807299--55807409	58	1.9	57	85	5	152	26	16	29	27	1.97
55807286--55807400	29	4.0	29	83	6	137	27	15	28	27	1.96
55808801--55809103	40	7.6	40	89	2	396	27	28	20	24	1.99
55816764--55817065	40	7.6	40	88	4	380	27	28	20	23	1.99
55816762--55817065	119	2.5	119	85	4	389	27	28	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55816764--55817065	159	1.9	159	82	5	387	27	28	20	23	1.99
55822470--55822814	40	8.6	40	92	1	530	24	28	19	27	1.99
55838351--55838390	21	1.9	21	94	0	71	30	10	12	47	1.74
55838808--55838847	21	1.9	21	89	0	62	27	10	15	47	1.77
55839267--55839306	21	1.9	21	89	0	62	27	10	15	47	1.77
55837972--55840122	459	4.7	460	97	0	4116	34	11	11	42	1.78
55839728--55839767	21	1.9	21	89	0	62	27	10	15	47	1.77
55845924--55845968	21	2.1	21	95	0	81	22	17	60	0	1.37
55846266--55846425	43	3.7	43	81	5	196	28	16	21	32	1.96
55846266--55846425	87	1.8	87	90	0	257	28	16	21	32	1.96
55846265--55846469	87	2.4	87	83	0	248	29	18	21	30	1.97
55846407--55846512	44	2.5	43	87	4	160	33	22	17	25	1.96
55849078--55849257	46	3.9	46	85	2	227	20	24	15	40	1.91
55849183--55849352	45	3.8	45	86	3	189	21	23	18	36	1.95
55855510--55855662	75	2.0	75	100	0	306	30	12	18	39	1.87
55859603--55859652	21	2.4	20	78	15	57	40	4	10	46	1.56
55867684--55867708	13	1.9	13	100	0	50	16	24	36	24	1.94
55869403--55869624	40	5.6	40	93	4	344	22	22	27	27	1.99
55869403--55869657	80	3.2	80	90	4	376	23	22	27	26	2.00
55872270--55872329	27	2.3	26	85	2	75	36	20	21	21	1.95
55875334--55875419	40	2.2	40	85	4	111	25	20	26	26	1.99
55877474--55877553	39	2.1	39	100	0	160	51	7	12	28	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55883739--55883923	40	4.7	40	80	7	200	24	22	27	25	2.00
55883792--55883956	79	2.1	79	82	6	192	26	20	27	26	1.99
55886089--55886326	49	4.8	49	80	3	269	25	18	25	31	1.97
55888314--55888362	22	2.0	26	85	14	70	30	4	4	61	1.33
55894599--55894695	43	2.3	43	85	0	131	32	17	24	24	1.97
55895475--55895582	31	3.5	31	89	0	162	22	23	18	36	1.95
55895789--55895895	49	2.2	49	86	6	146	24	23	24	28	2.00
55895802--55895895	25	3.8	25	94	1	163	24	23	26	25	2.00
55895942--55895979	11	3.6	11	79	13	53	31	18	13	36	1.89
55896026--55896073	25	1.9	25	86	0	69	29	16	22	31	1.96
55899124--55899296	46	3.8	45	77	15	192	20	21	28	29	1.98
55899121--55899291	93	1.8	93	93	0	297	20	21	29	28	1.98
55907634--55908106	47	9.6	47	79	11	462	33	8	29	29	1.86
55907634--55907897	96	2.8	96	93	3	437	34	7	28	30	1.85
55907871--55907914	20	2.3	18	85	14	70	38	0	22	38	1.55
55907876--55907917	20	2.1	20	100	0	84	42	0	19	38	1.51
55907835--55907964	69	1.9	67	93	3	224	35	6	26	32	1.81
55907733--55908051	163	2.0	163	98	0	611	33	7	27	30	1.85
55907788--55908004	116	1.9	116	96	0	398	34	7	26	31	1.84
55911412--55911584	46	3.8	45	78	15	183	21	21	28	28	1.99
55911409--55911579	93	1.8	93	92	0	288	21	22	29	27	1.99
55913032--55913067	1	36.0	1	94	0	63	0	2	0	97	0.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55927131--55927204	36	2.1	36	94	0	130	24	9	24	41	1.84
55947358--55947518	40	4.1	40	81	12	172	24	22	27	24	2.00
55947358--55947505	79	1.9	80	83	7	194	25	22	28	24	1.99
55947724--55947891	47	3.6	47	90	0	255	33	8	30	27	1.86
55954136--55954237	49	2.1	49	84	0	132	45	6	22	25	1.77
55954544--55954600	29	2.0	29	100	0	114	28	28	17	26	1.98
55955741--55955771	15	2.0	16	93	6	55	45	6	9	38	1.63
55960966--55961168	40	5.1	40	85	5	252	24	22	28	25	2.00
55964598--55964643	19	2.4	19	81	0	56	41	28	8	21	1.83
55965243--55965334	41	2.2	41	83	7	107	32	23	13	30	1.93

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   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325   326   327   328   329   330   331   332   333