genome.fa.s1.2.7.7.80.10.50.1000.142.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  142  of  316  ( 37835 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)
45278313--45278370	29	2.0	29	100	0	116	55	6	10	27	1.59
45278641--45278905	56	4.7	56	89	0	395	25	14	24	35	1.93
45279217--45279336	56	2.1	56	98	0	231	45	9	23	22	1.81
45280463--45280647	40	4.6	39	83	5	203	23	22	28	25	1.99
45280463--45280642	79	2.3	80	83	7	224	23	23	28	24	1.99
45287124--45287243	56	2.1	56	98	0	231	45	9	23	22	1.81
45288378--45288562	40	4.6	39	83	6	212	23	21	28	26	1.99
45288378--45288560	79	2.3	81	83	7	223	24	21	27	26	1.99
45288415--45288595	79	2.3	78	78	12	199	26	19	27	26	1.99
45291969--45292146	40	4.5	40	92	2	279	25	27	23	23	2.00
45298134--45298388	39	6.5	39	91	2	388	28	29	23	19	1.98
45302282--45302395	48	2.4	48	83	0	138	21	31	20	27	1.98
45303223--45303429	27	7.6	27	88	1	261	40	20	7	31	1.80
45303214--45303429	81	2.7	81	88	2	299	39	20	7	32	1.80
45303413--45303473	27	2.3	27	88	0	95	40	21	8	29	1.82
45303223--45303498	81	3.4	81	84	4	261	39	20	7	31	1.81
45303482--45303715	27	8.7	27	89	0	317	31	20	6	41	1.79
45303439--45303688	81	3.1	82	82	4	204	34	19	7	39	1.79
45303494--45303754	81	3.2	81	82	0	270	29	19	8	41	1.81
45304030--45304093	33	2.0	32	84	3	83	20	23	20	35	1.96
45304236--45304305	25	2.8	26	82	12	92	15	20	15	48	1.81
45304233--45304326	6	15.3	6	72	12	75	17	18	14	50	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45304233--45304305	31	2.4	31	85	0	92	16	19	15	49	1.80
45308937--45308975	20	2.1	19	85	9	53	51	17	28	2	1.59
45312448--45312589	46	3.1	46	88	0	203	27	30	7	34	1.85
45312563--45312847	47	6.1	47	92	0	435	26	29	11	32	1.91
45318795--45319446	48	13.6	48	93	0	1106	34	6	27	30	1.82
45319494--45319635	37	3.8	37	90	0	221	23	19	33	23	1.97
45320621--45320911	40	7.3	40	92	1	467	26	26	20	25	1.99
45322399--45322535	46	3.0	46	87	0	193	25	30	8	35	1.86
45322517--45322799	47	5.9	47	84	4	323	27	30	10	31	1.90
45327875--45328081	103	2.0	103	96	0	378	26	15	27	29	1.96
45328417--45328452	17	2.1	17	100	0	72	30	11	27	30	1.91
45332251--45332282	16	2.0	16	93	0	55	50	34	6	9	1.60
45333930--45333968	20	2.0	20	89	0	60	76	2	5	15	1.06
45342091--45342392	150	2.0	150	97	0	568	41	16	13	28	1.86
45343740--45343883	57	2.5	58	80	5	159	35	18	18	27	1.94
45345159--45345268	42	2.6	42	88	0	157	19	27	30	23	1.98
45352436--45352580	52	2.8	52	80	0	119	20	27	17	34	1.95
45359832--45359932	29	3.5	29	94	1	168	29	11	24	33	1.91
45359804--45359934	58	2.3	59	84	7	171	29	12	25	32	1.92
45374641--45374716	39	1.9	39	91	0	125	30	30	11	27	1.92
45376904--45376946	23	1.9	22	86	13	61	69	2	23	4	1.18
45378050--45378178	29	4.5	29	89	2	154	28	12	25	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45378050--45378178	58	2.2	58	86	4	172	28	12	25	33	1.92
45386104--45386232	29	4.5	29	89	2	154	28	12	25	33	1.92
45386104--45386232	58	2.2	58	86	4	172	28	12	25	33	1.92
45392822--45392881	22	2.6	23	78	7	77	21	30	18	30	1.97
45394251--45394288	17	2.2	18	86	13	53	36	2	2	57	1.26
45405585--45405616	16	2.0	16	93	0	55	34	18	0	46	1.49
45412092--45412127	14	2.5	15	86	9	56	72	0	0	27	0.85
45414231--45414264	16	2.1	16	88	0	50	26	0	5	67	1.13
45414501--45414572	33	2.2	33	87	7	103	61	13	0	25	1.33
45416108--45416139	11	2.9	11	95	0	55	34	28	3	34	1.73
45417310--45417372	30	2.1	30	84	0	81	34	9	25	30	1.88
45417677--45417792	47	2.5	46	83	12	139	27	18	30	23	1.98
45425655--45426067	47	8.6	47	92	2	619	32	8	30	28	1.87
45425655--45426067	145	2.9	145	89	5	640	32	8	30	28	1.87
45429996--45430260	47	5.7	46	77	13	215	22	30	19	27	1.98
45430003--45430260	140	1.8	140	85	4	360	22	30	18	28	1.98
45431042--45431071	15	1.9	16	93	6	53	36	13	0	50	1.42
45435479--45435541	30	2.1	30	84	0	81	33	7	26	31	1.85
45437227--45437267	22	1.9	21	85	5	55	9	39	29	21	1.86
45442073--45442118	23	2.0	23	87	8	67	36	0	4	58	1.18
45442089--45442188	37	2.8	35	73	14	89	32	5	1	62	1.24
45442251--45442365	53	2.2	53	80	9	128	30	6	0	63	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45442840--45442916	34	2.2	34	97	2	145	25	10	5	58	1.52
45444273--45444297	13	1.9	13	100	0	50	32	20	16	32	1.94
45445981--45446344	49	7.6	49	89	3	537	32	8	30	28	1.86
45445981--45446344	47	7.6	48	89	3	520	32	8	30	28	1.86
45445981--45446344	96	3.8	96	91	2	570	32	8	30	28	1.86
45446463--45446541	37	2.1	37	90	0	122	24	18	31	25	1.98
45448406--45448508	43	2.4	43	100	0	206	22	15	35	26	1.94
45448490--45448563	29	2.6	29	89	4	105	25	16	32	25	1.96
45450800--45450824	13	1.9	13	100	0	50	32	20	16	32	1.94
45452511--45452874	49	7.6	49	90	3	546	32	8	30	28	1.87
45452511--45452874	47	7.6	48	90	3	529	32	8	30	28	1.87
45452511--45452874	96	3.8	96	91	2	579	32	8	30	28	1.87
45452993--45453071	37	2.1	37	90	0	122	24	18	31	25	1.98
45455108--45455133	9	2.9	9	100	0	52	65	0	0	34	0.93
45455147--45455205	31	1.9	31	83	10	77	42	3	1	52	1.28
45457767--45457804	18	2.1	19	85	5	51	42	0	2	55	1.14
45457837--45457897	27	2.3	27	80	8	70	45	0	3	50	1.17
45460638--45460681	22	2.0	22	95	0	79	50	20	6	22	1.72
45464180--45464321	40	3.6	40	91	2	216	26	26	22	23	2.00
45481909--45482013	40	2.7	40	86	4	151	22	22	28	25	1.99
45489504--45489536	17	1.9	17	100	0	66	9	36	36	18	1.82
45492652--45492708	15	3.9	15	88	2	89	35	0	12	52	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45492648--45492706	30	2.0	28	93	6	100	32	0	11	55	1.36
45493093--45493188	21	4.5	21	89	2	129	13	22	27	36	1.92
45493080--45493188	42	2.5	42	85	2	137	15	22	25	35	1.94
45504500--45504583	43	2.0	43	92	4	143	27	23	26	22	2.00
45509713--45509870	29	5.5	29	91	2	230	28	12	25	33	1.92
45518463--45518517	28	2.0	27	86	10	76	29	25	18	27	1.98
45521110--45521207	27	3.6	27	90	0	151	39	21	6	32	1.78
45521198--45521610	27	15.3	27	79	5	219	38	20	8	32	1.83
45521611--45522056	27	16.6	27	88	1	626	33	19	21	25	1.97
45522483--45522547	22	3.0	22	71	8	60	23	23	20	33	1.97
45522706--45522807	27	3.8	27	87	5	134	18	23	21	36	1.95
45522944--45523085	6	22.8	6	73	17	94	19	16	14	50	1.79
45522944--45523086	31	4.6	31	91	0	205	20	16	13	49	1.79
45522968--45523051	25	3.4	24	75	16	73	21	13	15	50	1.78
45530749--45530798	26	1.9	26	84	15	68	34	18	16	32	1.92
45540164--45540214	25	2.0	25	82	14	61	54	0	0	45	0.99
45540166--45540220	20	2.6	21	77	8	67	54	0	0	45	0.99
45544097--45544148	24	2.2	24	96	0	95	36	11	15	36	1.84
45550248--45550326	29	2.7	29	84	5	97	27	34	15	22	1.94
45559707--45559971	40	6.7	40	85	5	295	26	27	21	25	1.99
45559903--45559980	40	1.9	41	82	10	97	26	28	20	24	1.99
45562144--45562326	79	2.3	79	82	7	201	25	27	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45562142--45562326	40	4.7	40	81	7	216	25	28	22	24	1.99
45564136--45564313	27	6.6	27	85	3	214	30	28	14	26	1.95
45564157--45564312	82	1.9	81	89	3	242	30	28	14	26	1.95
45578649--45578934	27	10.6	27	83	2	342	40	20	7	31	1.80
45578649--45579007	81	4.4	80	80	4	346	40	20	8	31	1.82
45578649--45578907	54	4.8	54	88	2	387	41	20	7	30	1.80
45578649--45579007	27	13.3	26	78	5	270	40	20	8	31	1.82
45579033--45579230	27	7.4	27	82	3	202	35	18	20	25	1.95
45579033--45579230	80	2.5	80	83	3	227	35	18	20	25	1.95
45579035--45579229	107	1.8	107	83	2	257	36	17	20	25	1.94

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