genome.fa.s26.2.7.7.80.10.50.1000.122.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: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  96304692

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   

This is table  122  of  313  ( 37448 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)
39417251--39417294	6	7.3	6	89	0	52	59	0	40	0	0.98
39417252--39417292	12	3.4	12	89	0	64	56	0	43	0	0.99
39417252--39417294	18	2.4	18	100	0	86	58	0	41	0	0.98
39420490--39420532	22	1.9	23	85	4	61	37	2	2	58	1.24
39423810--39423885	38	2.0	38	89	0	116	35	15	21	27	1.94
39430067--39430106	20	2.0	21	85	14	57	57	2	12	27	1.48
39435711--39435765	18	3.1	18	77	12	51	63	0	7	29	1.21
39450084--39450165	26	3.2	26	63	16	71	17	20	29	32	1.95
39450099--39450178	25	3.2	25	63	16	65	16	25	27	31	1.96
39450070--39450309	51	4.6	52	89	5	310	19	27	25	27	1.99
39450110--39450190	25	3.2	25	63	16	67	18	27	27	27	1.98
39450407--39450438	13	2.5	13	94	0	55	56	12	0	31	1.37
39450650--39450707	30	1.9	30	89	0	89	31	24	3	41	1.71
39454322--39454401	23	3.5	23	91	5	119	38	41	6	13	1.70
39473136--39473183	23	2.0	24	84	4	62	22	0	20	56	1.43
39475029--39475082	3	18.0	3	100	0	108	66	0	33	0	0.92
39475901--39475948	17	2.9	17	78	3	53	18	0	10	70	1.15
39481968--39482034	28	2.4	28	92	0	116	31	11	5	50	1.63
39484526--39484556	2	15.5	2	100	0	62	51	0	48	0	1.00
39486917--39487120	42	4.8	43	86	6	256	28	32	17	21	1.95
39487393--39487483	43	2.1	43	87	2	130	43	9	10	35	1.73
39491632--39491676	7	6.4	7	92	0	63	31	46	0	22	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39491624--39491672	14	3.5	14	85	0	62	28	46	0	24	1.53
39491660--39491815	81	1.9	83	86	2	226	42	30	1	26	1.63
39492358--39492463	50	2.1	51	91	1	169	28	26	27	17	1.98
39492413--39492615	41	5.0	41	91	0	325	27	30	23	18	1.98
39492680--39492784	40	2.6	39	79	7	122	21	19	20	38	1.94
39492708--39492785	40	2.0	40	92	0	129	21	19	23	35	1.96
39492791--39492816	12	2.2	12	100	0	52	46	30	15	7	1.74
39494518--39494559	17	2.4	18	80	11	52	54	35	0	9	1.33
39500016--39500044	9	3.3	9	90	9	51	79	10	0	10	0.94
39500056--39500093	17	2.2	17	90	0	58	81	0	15	2	0.80
39502586--39503695	50	22.4	50	75	6	850	33	20	19	27	1.97
39502579--39503508	100	9.4	100	89	2	1281	33	20	19	27	1.96
39503383--39503733	100	3.6	99	83	7	401	33	21	19	25	1.97
39503784--39503818	18	1.9	18	88	0	52	25	34	11	28	1.91
39503802--39504824	131	7.8	131	96	0	1767	31	18	23	26	1.97
39506150--39506178	6	4.8	6	100	0	58	13	0	17	68	1.20
39520467--39520509	2	21.5	2	100	0	86	51	0	48	0	1.00
39524637--39524675	18	2.2	17	86	13	53	46	20	0	33	1.51
39525061--39525089	15	1.9	15	100	0	58	41	24	0	34	1.55
39529606--39529657	24	2.2	24	89	0	77	50	9	3	36	1.54
39532420--39532477	29	2.0	30	83	10	75	37	22	1	37	1.65
39533278--39533370	43	2.1	44	84	11	118	56	18	4	20	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39540304--39540550	50	4.8	50	81	4	246	27	21	28	22	1.99
39541927--39541960	17	2.0	17	88	0	50	82	2	0	14	0.79
39541974--39542014	9	4.3	9	88	11	64	58	0	9	31	1.31
39541976--39542017	20	2.1	20	100	0	84	57	0	9	33	1.31
39544463--39544496	10	3.5	10	88	8	52	44	0	0	55	0.99
39545695--39545736	20	2.1	20	86	0	57	35	14	16	33	1.89
39546221--39546260	19	2.1	19	85	0	53	45	0	2	52	1.14
39549029--39549065	14	2.5	16	79	20	53	37	5	0	56	1.22
39549379--39549458	42	1.9	42	87	7	119	43	3	2	50	1.33
39553766--39553811	6	7.7	6	100	0	92	50	15	0	34	1.44
39563697--39563800	52	2.0	52	80	19	119	58	3	8	28	1.46
39566397--39566467	32	2.2	32	92	0	115	32	14	8	45	1.74
39569378--39569423	23	2.1	22	84	8	58	39	23	19	17	1.92
39569324--39569435	57	2.0	57	92	0	188	42	22	19	15	1.88
39570121--39570154	9	3.7	9	88	4	50	0	23	2	73	0.97
39572581--39572635	23	2.4	23	87	0	74	29	21	27	21	1.99
39572602--39572645	23	1.9	23	86	9	63	34	22	25	18	1.96
39582504--39582684	36	5.0	36	93	0	317	29	19	12	38	1.88
39583649--39583860	106	2.0	106	93	0	361	30	17	14	37	1.89
39588196--39588238	14	2.6	17	86	13	56	51	2	0	46	1.13
39596469--39596511	19	2.2	19	83	4	50	27	0	6	65	1.18
39596786--39596821	18	2.0	18	100	0	72	83	0	16	0	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39596812--39597165	103	3.4	105	85	7	497	38	15	17	27	1.90
39598158--39598289	44	3.0	43	85	3	156	27	20	3	49	1.64
39598859--39599296	95	4.3	104	88	7	629	26	18	15	39	1.91
39599302--39599328	12	2.2	12	100	0	54	0	14	0	85	0.61
39615958--39615999	21	2.0	21	85	4	57	30	7	9	52	1.61
39618068--39618103	12	3.1	12	88	4	56	22	0	11	66	1.22
39625655--39625970	160	2.0	160	92	0	524	35	19	12	32	1.90
39631328--39631369	20	2.2	20	87	8	61	33	2	4	59	1.31
39631340--39631382	10	4.4	9	80	13	50	25	0	6	67	1.15
39631789--39631840	26	2.0	26	85	7	70	48	3	0	48	1.20
39653021--39653104	3	27.3	3	74	11	64	30	4	3	60	1.34
39656587--39656879	50	5.8	50	80	2	264	23	27	20	27	1.99
39656637--39656879	100	2.4	102	83	4	301	23	28	20	26	1.99
39660046--39660089	21	2.1	21	86	0	61	38	22	20	18	1.93
39660140--39660191	27	1.9	28	88	7	81	65	0	3	30	1.10
39668879--39669008	41	3.1	42	80	7	124	27	23	20	28	1.99
39668920--39669008	42	2.1	41	89	2	133	26	21	21	30	1.98
39674574--39674742	59	2.9	59	75	1	142	46	15	13	25	1.82
39675708--39675764	14	3.9	14	76	19	55	64	8	3	22	1.37
39679276--39679350	26	2.8	25	82	9	87	30	1	1	66	1.08
39680290--39680421	64	2.1	63	90	2	210	38	3	3	54	1.34
39680639--39680689	18	2.7	19	80	16	61	35	1	1	60	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39695787--39695820	17	2.0	17	94	0	59	35	14	11	38	1.83
39697715--39697762	13	3.7	13	75	10	53	60	2	0	37	1.09
39698450--39698529	30	2.7	30	76	7	81	42	21	8	27	1.82
39698414--39699127	31	23.4	30	68	12	308	42	21	9	27	1.83
39698358--39699194	183	4.6	183	95	0	1426	42	20	9	28	1.82
39701173--39701232	19	3.3	17	77	13	57	30	5	0	65	1.14
39701222--39701270	22	2.3	21	85	3	62	34	4	0	61	1.15
39703684--39703824	41	3.4	41	92	1	230	15	16	26	41	1.88
39703684--39703861	82	2.2	80	84	3	221	16	16	24	42	1.88
39704233--39704302	16	4.4	16	67	16	56	27	1	21	50	1.57
39704235--39704315	23	3.5	23	72	22	80	23	1	24	50	1.56
39704326--39704366	22	1.9	21	85	14	57	19	0	24	56	1.42
39708478--39708535	29	2.0	29	100	0	116	31	24	3	41	1.71
39708665--39708720	9	6.6	9	76	10	55	41	12	1	44	1.53
39708688--39708719	16	2.0	16	93	0	55	46	12	0	40	1.42
39710594--39710729	66	2.1	66	92	0	227	40	18	27	13	1.89
39711030--39711306	43	6.5	43	87	7	379	28	18	24	28	1.98
39711046--39711296	86	2.9	86	95	1	441	28	19	25	26	1.99
39711046--39711296	129	1.9	129	93	1	432	28	19	25	26	1.99
39712166--39712190	6	4.2	6	100	0	50	36	0	0	64	0.94
39716633--39716770	42	3.3	42	72	8	118	36	15	20	26	1.93
39716624--39716782	85	1.9	85	82	2	203	37	17	19	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39721376--39721404	3	9.7	3	100	0	58	65	0	34	0	0.93
39725627--39725665	19	2.1	19	90	0	60	48	17	7	25	1.74
39728583--39728628	23	2.0	23	95	0	83	30	19	0	50	1.48
39736442--39736906	243	1.9	243	80	6	544	36	14	10	38	1.81
39737758--39737806	20	2.5	20	74	9	55	28	0	8	63	1.23
39743177--39743300	21	6.0	21	66	14	69	18	22	16	41	1.90
39743212--39743334	42	2.9	42	82	2	140	17	21	17	43	1.88
39743237--39743350	42	2.7	42	82	2	113	14	22	18	43	1.87
39744749--39744997	50	4.8	50	84	4	275	20	29	24	26	1.99
39744748--39744997	100	2.4	103	86	5	337	20	29	24	26	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   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