genome.fa.s1.2.7.7.80.10.50.1000.104.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  104  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)
32463687--32463746	30	2.0	30	86	0	84	33	25	5	36	1.78
32467877--32467981	23	4.6	22	75	15	88	38	18	18	25	1.93
32467877--32467957	22	3.5	22	79	15	76	35	17	19	27	1.94
32467940--32467990	23	2.2	23	85	0	66	39	19	17	23	1.92
32467876--32467982	46	2.3	46	78	10	112	38	17	17	26	1.92
32472404--32472523	43	2.8	42	80	7	134	28	26	19	25	1.99
32474196--32474420	40	5.7	40	86	5	287	24	21	27	26	1.99
32474196--32474453	119	2.2	119	81	6	283	25	20	27	26	1.99
32492255--32492301	21	2.2	22	92	3	78	21	19	38	21	1.94
32496188--32496504	158	2.0	159	92	0	528	29	16	17	36	1.91
32500136--32500178	9	5.1	9	78	16	56	23	62	0	13	1.31
32500079--32500262	90	2.0	90	81	2	208	29	44	2	23	1.67
32500169--32500290	57	2.1	56	83	7	156	28	40	4	26	1.74
32501416--32501521	29	3.7	29	78	9	85	50	30	0	17	1.53
32506864--32506913	17	2.8	17	81	9	55	56	12	0	32	1.36
32509718--32509771	26	2.1	26	96	0	99	33	12	3	50	1.59
32509980--32510050	30	2.4	29	81	9	81	60	2	1	35	1.20
32510765--32510827	29	2.1	30	85	2	83	47	14	4	33	1.65
32510951--32511004	25	2.2	25	100	0	108	55	12	3	27	1.54
32520867--32520985	60	2.0	60	96	0	220	33	12	10	42	1.78
32528501--32528573	33	2.2	34	82	2	85	24	21	26	27	2.00
32528542--32528601	28	2.1	28	81	0	66	23	28	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32528738--32528817	27	2.9	28	78	10	85	33	20	23	22	1.97
32528946--32529101	27	5.8	27	85	2	181	25	21	19	33	1.96
32529095--32529191	27	3.6	27	85	0	122	32	8	20	38	1.82
32528960--32529126	81	2.1	81	79	2	174	26	19	18	35	1.95
32533486--32533553	34	2.0	34	100	0	136	32	41	14	11	1.82
32533802--32533956	27	5.8	27	84	3	172	25	21	17	36	1.95
32533950--32534043	26	3.6	26	84	8	111	29	9	21	39	1.85
32541015--32541081	35	1.9	35	100	0	134	43	11	25	19	1.85
32541623--32541664	21	2.0	21	100	0	84	47	14	14	23	1.80
32546912--32546957	22	2.0	24	84	16	62	39	6	0	54	1.26
32551122--32551380	47	5.5	46	75	12	201	21	29	20	28	1.98
32553568--32553604	16	2.3	16	100	0	74	29	8	13	48	1.71
32571495--32571583	44	2.0	44	95	0	160	30	21	13	34	1.92
32576670--32577001	48	6.9	48	82	1	369	27	18	28	25	1.98
32576670--32577001	96	3.4	96	87	0	466	27	18	28	25	1.98
32581093--32581357	40	6.7	40	84	6	324	26	21	26	26	2.00
32591403--32591449	20	2.3	20	96	0	85	17	23	38	21	1.93
32599194--32599912	48	15.0	47	76	8	583	27	17	28	25	1.98
32599226--32599908	96	7.1	95	83	6	817	27	18	28	25	1.98
32599208--32599857	287	2.3	287	96	0	1201	27	17	28	26	1.98
32601976--32602047	36	2.0	36	97	0	135	37	13	12	36	1.83
32603204--32603320	42	2.8	41	82	3	117	41	18	11	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32603399--32603991	292	2.0	292	94	0	1033	33	12	17	35	1.88
32608869--32608913	23	2.0	23	95	0	81	48	11	0	40	1.39
32608871--32608920	23	2.2	23	88	0	73	54	10	0	36	1.34
32610361--32610400	19	2.1	19	95	0	71	32	30	7	30	1.85
32618586--32618615	7	4.3	7	100	0	60	60	0	0	40	0.97
32620909--32621153	125	2.0	125	94	0	427	35	8	19	36	1.83
32623386--32623450	25	2.4	27	80	14	73	16	24	23	35	1.95
32628194--32628362	43	3.9	43	71	13	132	23	19	28	27	1.98
32639191--32639322	45	2.8	45	74	10	122	34	17	21	26	1.96
32639191--32639249	23	2.7	21	79	10	64	32	16	22	28	1.96
32639928--32639973	21	2.2	21	84	0	56	41	21	0	36	1.54
32642060--32642245	40	4.7	40	88	5	243	26	27	22	24	2.00
32648401--32648450	20	2.5	20	90	3	82	22	36	28	14	1.92
32656473--32656717	43	5.7	43	81	6	248	30	25	17	26	1.97
32656476--32656717	86	2.8	86	81	6	276	30	24	17	26	1.97
32656463--32656715	129	2.0	129	85	1	346	30	25	17	26	1.97
32657525--32657558	17	2.0	17	88	0	50	2	8	2	85	0.80
32658044--32658226	43	4.3	43	75	9	167	26	18	24	31	1.97
32667168--32667251	27	3.2	26	83	5	96	34	21	23	20	1.97
32680383--32680436	11	5.4	10	78	12	58	35	9	18	37	1.83
32680484--32680605	26	4.8	26	90	3	169	25	26	21	27	1.99
32682864--32682888	12	2.1	12	100	0	50	40	0	8	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32685196--32685243	20	2.3	21	92	3	80	35	10	18	35	1.85
32685291--32685361	26	2.8	26	91	2	108	26	25	21	26	1.99
32685290--32685375	26	3.4	25	80	6	79	30	22	20	26	1.98
32687097--32687129	13	2.6	13	90	4	50	39	0	12	48	1.40
32688948--32689110	43	3.9	42	76	8	152	30	23	15	30	1.96
32692888--32692944	23	2.5	23	88	5	80	24	24	15	35	1.95
32720645--32720702	21	2.8	21	89	0	80	34	25	24	15	1.95
32720631--32720735	21	5.0	21	79	5	79	38	22	21	17	1.93
32720631--32720735	42	2.4	43	79	6	115	38	22	21	17	1.93
32720931--32721025	28	3.6	25	81	16	104	46	32	4	16	1.67
32720942--32721025	28	3.0	28	92	1	132	45	32	3	19	1.67
32727874--32727907	13	2.6	13	100	0	68	14	35	32	17	1.91
32732802--32732973	40	4.3	40	82	3	204	29	27	20	22	1.98
32738134--32738180	24	1.9	24	86	4	67	65	0	6	27	1.16
32742165--32742206	22	2.0	21	81	13	50	38	2	4	54	1.34
32741994--32742221	127	1.8	123	86	9	327	40	3	7	48	1.49
32742241--32742274	17	1.9	18	88	5	52	50	5	5	38	1.51
32746993--32747038	23	2.0	23	95	0	83	26	6	23	43	1.78
32754445--32754622	27	6.6	27	82	6	171	30	28	15	25	1.96
32759299--32759388	27	3.3	27	84	9	103	38	17	11	32	1.85
32759323--32759398	27	2.8	27	84	7	84	38	19	11	30	1.88
32759394--32759606	27	7.9	27	88	1	239	30	23	7	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32759502--32759750	27	9.2	27	81	4	135	36	19	8	36	1.82
32759340--32759633	81	3.6	81	76	0	239	31	22	8	37	1.83
32759464--32759729	54	4.9	54	81	6	162	34	19	7	37	1.81
32759597--32759748	54	2.8	54	81	9	161	42	18	7	31	1.79
32759715--32759808	27	3.4	28	76	15	97	41	15	8	34	1.78
32759865--32759926	27	2.3	27	80	5	72	37	16	25	20	1.93
32760734--32760883	26	5.8	26	88	0	230	27	22	22	27	1.99
32760734--32760883	52	2.9	52	95	1	266	27	22	22	27	1.99
32761143--32761221	31	2.5	31	91	0	131	30	17	25	26	1.97
32765107--32765181	15	5.0	15	75	0	69	56	14	14	14	1.69
32770586--32770610	13	1.9	13	100	0	50	16	20	32	32	1.94
32776562--32776606	20	2.2	20	88	0	63	48	2	13	35	1.54
32778276--32778323	21	2.3	21	85	0	60	14	29	33	22	1.94
32780301--32780349	25	2.0	25	84	8	64	55	4	6	34	1.44
32781386--32781427	15	2.9	14	82	10	57	35	0	11	52	1.38
32781812--32781886	21	3.4	23	76	14	86	14	20	25	40	1.90
32781802--32781882	21	3.8	21	76	3	63	16	20	24	38	1.92
32783733--32783884	43	3.5	43	75	12	150	32	23	17	26	1.96
32788932--32788969	20	1.9	20	89	10	60	42	10	7	39	1.69
32791113--32791228	41	2.8	41	80	6	126	26	17	25	30	1.97
32793720--32793901	79	2.3	81	80	12	209	25	27	21	25	1.99
32793720--32793903	40	4.6	41	78	14	199	25	27	21	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32801270--32801531	39	6.6	39	83	7	284	24	26	21	26	2.00
32801886--32801915	13	2.3	13	100	0	60	36	23	6	33	1.81
32804907--32804938	16	2.0	16	100	0	64	12	18	18	50	1.78
32814530--32814596	34	2.0	34	90	0	107	40	2	22	34	1.69
32815770--32815953	27	6.9	27	80	10	182	37	17	11	33	1.86
32815761--32815953	54	3.6	52	83	6	228	36	19	11	32	1.88
32815883--32815964	27	3.1	26	81	6	85	39	14	13	32	1.85
32816315--32816379	22	3.0	22	79	0	67	23	24	20	32	1.98
32825688--32825728	21	2.0	21	90	4	66	12	43	26	17	1.84
32834937--32835098	28	5.7	28	91	1	261	30	32	13	24	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