genome.fa.s4.2.7.7.80.10.50.1000.172.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  172  of  255  ( 30512 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)
56516115--56516361	101	2.5	99	82	4	291	24	17	28	29	1.97
56516115--56516396	150	1.9	151	84	2	388	24	17	29	29	1.97
56521843--56522027	79	2.3	82	80	7	211	25	27	22	25	2.00
56521820--56522027	40	5.2	40	78	8	212	25	26	22	26	2.00
56529900--56530084	40	4.7	40	83	6	207	24	27	23	24	2.00
56529900--56530084	79	2.3	82	82	7	220	24	27	23	24	2.00
56537353--56537382	7	4.3	7	100	0	60	30	0	30	40	1.57
56551694--56551876	39	4.7	38	83	6	188	25	27	22	24	2.00
56551675--56551876	40	5.1	39	79	8	187	24	27	22	24	2.00
56559146--56559175	7	4.3	7	100	0	60	30	0	30	40	1.57
56565849--56565957	37	2.9	37	91	0	173	27	30	18	23	1.98
56566103--56566287	48	3.8	48	87	4	273	30	25	6	37	1.81
56566103--56566286	98	1.9	98	89	4	293	29	26	6	37	1.81
56566257--56566450	47	4.1	47	89	0	289	25	29	11	32	1.92
56566350--56566421	22	3.1	22	64	24	58	23	29	13	33	1.93
56566372--56566451	25	3.3	25	66	16	69	30	27	8	33	1.87
56573939--56574082	57	2.5	58	80	3	157	29	16	22	30	1.96
56577347--56577530	40	4.6	40	84	5	255	23	26	23	25	2.00
56584051--56584497	47	9.5	47	94	0	696	30	9	30	29	1.88
56584616--56584694	37	2.1	37	88	4	115	25	18	30	25	1.98
56590072--56590244	40	4.3	40	79	8	217	26	25	22	25	2.00
56597289--56597330	5	8.2	5	94	5	75	78	0	21	0	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56601092--56601232	40	3.6	40	75	6	117	31	23	17	28	1.97
56608108--56608352	49	4.9	51	81	7	247	24	17	27	29	1.98
56608215--56608296	26	3.2	26	66	19	73	24	13	30	31	1.93
56609675--56609807	27	5.0	27	86	6	182	33	22	25	18	1.96
56609671--56609810	54	2.6	54	95	2	246	34	22	25	17	1.96
56611429--56611537	26	4.2	26	91	1	173	36	23	6	33	1.81
56616318--56616348	12	2.6	12	100	0	62	12	51	25	9	1.70
56617836--56617968	27	5.0	27	86	6	182	33	22	25	18	1.96
56617832--56617971	54	2.6	54	95	2	246	34	22	25	17	1.96
56619590--56619697	26	4.2	26	90	4	173	37	23	7	32	1.82
56622383--56622522	40	3.6	39	74	10	124	31	25	17	25	1.97
56623491--56623516	7	3.7	7	100	0	52	57	0	0	42	0.98
56634238--56634544	47	6.7	43	74	14	208	27	20	28	23	1.99
56634238--56634596	94	3.9	90	79	12	354	27	20	29	22	1.98
56634235--56634596	141	2.6	140	79	10	373	27	20	29	22	1.98
56641823--56642188	47	7.8	46	74	11	255	27	20	28	23	1.99
56641823--56642188	94	3.9	92	80	8	402	27	20	28	23	1.99
56641822--56642188	141	2.6	140	75	10	385	27	20	28	23	1.99
56646805--56646830	9	2.9	9	100	0	52	30	0	23	46	1.53
56647854--56647982	50	2.5	51	87	5	181	36	15	21	26	1.93
56647958--56648138	31	5.8	31	84	6	231	29	17	26	26	1.98
56647958--56648128	94	1.8	93	89	1	270	30	16	26	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56648164--56648288	47	2.7	48	82	8	150	28	14	26	30	1.95
56657004--56657057	25	2.2	25	82	0	63	20	22	14	42	1.88
56657012--56657063	25	2.1	25	85	0	68	21	17	17	44	1.87
56661391--56661459	26	2.7	26	86	2	95	15	26	23	34	1.95
56664627--56664666	15	2.7	15	80	11	55	15	57	0	27	1.38
56666744--56666819	37	2.1	36	83	11	93	53	2	2	40	1.28
56670813--56670984	93	1.8	93	95	2	310	28	29	20	20	1.98
56670806--56670981	46	3.8	46	79	14	209	29	29	20	20	1.98
56678362--56678533	93	1.8	93	95	2	310	28	29	20	20	1.98
56678355--56678530	46	3.8	46	79	14	209	29	29	20	20	1.98
56687517--56687549	12	2.8	12	95	0	57	15	36	0	48	1.45
56690688--56690942	55	4.8	54	79	12	262	36	17	24	21	1.94
56690695--56690895	108	1.8	108	89	6	316	34	17	24	22	1.96
56691011--56691055	23	1.9	24	90	4	74	42	11	24	22	1.86
56691134--56691164	16	1.9	16	93	0	53	41	0	22	35	1.54
56692673--56692705	15	2.2	15	100	0	66	48	6	12	33	1.65
56695527--56695572	20	2.3	20	96	3	85	36	26	10	26	1.89
56695649--56695722	36	2.1	36	97	0	139	33	20	13	32	1.91
56700287--56700385	28	3.5	29	86	9	125	27	15	28	29	1.96
56708255--56708327	29	2.6	28	82	6	85	26	15	30	28	1.96
56717935--56718001	28	2.3	30	77	12	77	29	31	10	28	1.90
56723645--56723684	7	5.7	7	93	0	71	42	42	12	2	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56725001--56725077	24	3.2	24	68	3	75	53	10	7	28	1.63
56735275--56735368	47	2.0	48	83	6	120	26	4	7	61	1.41
56735557--56735591	13	2.7	13	95	0	61	42	5	25	25	1.77
56738632--56739686	358	3.0	355	86	3	1455	27	19	17	36	1.94
56745104--56745194	39	2.4	39	88	3	132	24	28	21	25	1.99
56745840--56745880	21	2.0	21	100	0	82	43	14	2	39	1.59
56746178--56746283	50	2.1	50	80	3	124	42	21	7	28	1.80
56752974--56753095	39	3.1	39	89	0	199	21	28	22	27	1.99
56753721--56753761	21	2.0	21	100	0	82	43	14	2	39	1.59
56765426--56765486	30	2.0	30	87	0	86	31	22	6	39	1.80
56785896--56786048	28	5.5	28	91	2	229	26	13	30	30	1.94
56791368--56791491	47	2.6	47	89	0	176	33	28	16	22	1.95
56796770--56796930	42	3.8	41	77	7	153	29	24	14	30	1.95
56807772--56807887	37	3.1	37	94	0	196	25	32	18	22	1.97
56808006--56808331	47	6.9	47	93	2	535	28	30	8	31	1.88
56808006--56808486	96	4.9	96	82	11	564	29	30	8	32	1.87
56808315--56808347	16	2.1	16	100	0	66	18	39	18	24	1.92
56808270--56808394	63	2.0	63	98	0	241	26	32	11	30	1.91
56808174--56808486	159	2.0	159	97	1	592	29	29	8	31	1.88
56808333--56808486	48	3.2	48	98	1	292	30	29	7	32	1.86
56814110--56814225	43	2.7	42	81	6	135	31	25	19	23	1.98
56814121--56814225	42	2.5	43	81	7	124	31	23	20	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56819747--56819870	26	4.7	27	70	9	76	40	23	8	27	1.84
56819798--56819856	27	2.2	26	82	8	66	44	18	6	30	1.76
56819854--56820015	27	6.0	27	85	0	225	34	17	20	27	1.95
56819854--56820041	54	3.5	54	88	1	243	33	18	20	27	1.96
56819828--56820003	81	2.2	81	84	3	230	37	18	17	27	1.92
56819861--56820033	81	2.1	81	82	2	204	32	19	20	27	1.97
56822285--56822467	79	2.3	81	82	7	214	25	22	27	24	2.00
56822285--56822467	40	4.6	40	81	6	212	25	22	27	24	2.00
56822339--56822490	79	1.9	79	82	7	193	26	20	26	25	1.99
56829814--56829883	27	2.6	27	88	0	95	25	21	11	41	1.86
56836874--56836985	27	4.2	26	78	12	109	16	24	21	38	1.93
56836874--56836985	54	2.1	54	83	6	138	16	24	21	38	1.93
56860121--56860304	40	4.6	39	80	9	185	25	22	27	25	2.00
56860173--56860337	79	2.1	79	82	6	192	26	20	27	25	1.99
56863384--56863453	27	2.6	27	95	2	113	31	28	12	27	1.93
56863384--56863481	28	3.5	28	90	2	135	31	28	13	26	1.94
56866552--56866859	54	5.7	54	75	4	255	31	8	18	40	1.82
56866552--56866841	81	3.6	81	79	5	273	32	8	18	40	1.81
56866552--56866858	27	11.4	27	75	4	226	31	8	18	40	1.82
56866850--56866904	27	2.0	27	82	0	65	32	21	16	29	1.95
56871053--56871191	44	3.2	42	84	10	158	28	18	22	30	1.97
56871053--56871191	43	3.2	43	81	11	160	28	18	22	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56882718--56882840	43	2.9	42	82	11	160	24	18	24	32	1.97
56884584--56884695	58	1.9	58	92	0	188	27	11	26	33	1.91
56885429--56885468	7	5.7	7	96	0	71	15	52	0	32	1.43
56885429--56885475	14	3.4	14	90	0	58	17	48	0	34	1.47
56885427--56885475	21	2.3	21	82	0	71	18	46	0	34	1.49
56886465--56886520	27	2.1	27	96	0	103	42	23	16	17	1.88
56895547--56896018	48	9.8	48	77	4	387	24	29	17	27	1.98
56895547--56896019	144	3.3	141	83	4	563	24	29	17	27	1.98
56906538--56906712	46	3.8	46	76	13	178	28	28	21	21	1.99
56906546--56906716	93	1.8	92	88	1	261	27	29	21	21	1.99

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