genome.fa.s26.2.7.7.80.10.50.1000.15.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  15  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)
4839500--4839555	26	2.2	26	96	0	103	35	25	7	32	1.83
4839510--4839562	26	2.2	23	83	12	63	33	22	3	39	1.72
4842284--4842399	49	2.3	49	83	4	144	20	22	14	42	1.89
4842315--4842433	49	2.4	49	80	8	127	19	17	19	43	1.88
4846826--4846924	50	1.9	52	89	4	157	47	8	0	44	1.32
4847017--4847114	28	3.5	28	77	0	79	58	7	14	20	1.60
4848705--4848770	30	2.2	30	97	2	125	46	9	10	33	1.70
4849900--4850084	76	2.4	76	83	4	232	35	18	21	24	1.95
4856150--4856193	19	2.3	18	80	7	52	54	6	0	38	1.27
4864644--4864685	17	2.4	18	80	4	50	57	2	2	38	1.25
4870436--4870611	68	2.6	68	76	13	150	21	28	17	33	1.95
4873801--4873920	43	2.8	42	79	7	134	30	17	24	28	1.97
4877084--4877134	21	2.4	21	93	0	84	13	21	45	19	1.85
4882572--4882599	14	2.0	14	100	0	56	50	0	0	50	1.00
4894085--4894118	17	2.0	17	100	0	68	29	17	23	29	1.97
4904770--4904853	20	4.2	20	72	6	80	15	25	15	44	1.85
4918730--4918780	26	2.0	26	84	0	66	41	17	3	37	1.68
4919572--4919615	13	3.6	13	82	17	58	40	47	2	9	1.48
4919640--4919686	6	7.5	6	86	9	67	78	4	0	17	0.90
4919640--4919686	20	2.5	19	83	10	69	78	4	0	17	0.90
4919706--4919764	9	6.6	9	84	0	82	27	8	18	45	1.78
4922152--4922184	16	2.0	17	88	5	50	24	3	3	69	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4922413--4922468	9	6.9	9	76	17	52	60	0	1	37	1.07
4922397--4922464	31	2.2	31	91	2	109	61	0	5	32	1.20
4922413--4922477	22	3.1	22	72	18	59	56	0	1	41	1.08
4923516--4923629	43	2.7	43	92	0	183	26	19	30	23	1.98
4923512--4923649	43	3.2	43	81	8	165	26	21	28	23	1.99
4923699--4923781	31	2.6	31	80	3	85	61	19	3	15	1.48
4941867--4942081	45	4.9	45	82	5	253	24	20	27	27	1.99
4946166--4946205	21	2.1	19	86	13	55	30	0	20	50	1.49
4946174--4946227	23	2.5	22	87	6	74	25	0	18	55	1.43
4946159--4946227	9	8.0	9	69	26	51	24	0	20	55	1.44
4951502--4951569	34	2.0	35	82	5	86	29	25	25	20	1.99
4960127--4960221	46	2.0	47	84	6	122	30	28	15	25	1.96
4960168--4960317	50	2.8	50	78	12	133	30	27	18	24	1.98
4960168--4960328	52	3.1	51	79	9	148	30	27	18	23	1.97
4969768--4969827	30	2.0	30	96	0	111	25	20	21	33	1.97
4970691--4970740	23	2.2	23	86	13	68	42	18	14	26	1.87
4970776--4970891	27	4.3	27	79	4	76	24	18	14	42	1.88
4970887--4971145	27	9.6	27	89	0	338	36	16	15	32	1.90
4973641--4973680	20	2.0	20	90	0	62	52	2	10	35	1.48
4982308--4982350	22	1.9	23	86	13	63	46	4	4	44	1.45
4984809--4984851	18	2.3	20	80	15	56	48	2	6	41	1.43
4991891--4991931	19	2.2	19	100	0	82	39	24	14	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4993177--4993334	42	3.6	41	78	12	145	24	26	20	28	1.99
4993215--4993475	48	5.6	48	75	9	193	27	25	18	27	1.98
4993263--4993353	42	2.2	42	79	0	101	28	27	17	26	1.98
4993168--4993382	90	2.4	90	81	3	245	27	25	19	27	1.98
4993306--4993526	96	2.3	97	80	2	221	27	26	19	27	1.99
4993398--4993586	49	3.9	49	82	2	220	24	29	19	26	1.98
4993403--4993586	98	1.9	97	84	3	244	25	29	18	26	1.98
4998853--4998896	22	2.0	22	90	0	70	38	0	4	56	1.20
4998859--4998907	10	4.7	10	85	9	53	32	0	6	61	1.21
5010871--5011132	39	6.7	40	87	7	337	25	22	27	24	2.00
5017749--5018010	39	6.7	40	87	7	337	25	22	27	24	2.00
5023925--5024027	42	2.5	40	80	10	109	26	21	26	26	1.99
5032416--5032496	34	2.4	34	85	2	99	27	18	20	33	1.96
5035221--5035264	22	2.0	22	90	0	70	20	2	2	75	1.03
5037020--5037203	67	2.8	64	76	8	185	29	17	29	22	1.97
5044635--5044663	13	2.2	13	100	0	58	31	0	13	55	1.39
5045000--5045155	78	2.0	78	100	0	312	34	14	19	32	1.91
5047667--5047787	61	2.0	61	88	3	181	35	22	20	21	1.96
5049228--5049295	29	2.3	29	82	5	84	27	30	11	29	1.92
5049400--5049478	29	2.7	30	82	13	110	29	30	15	25	1.96
5050743--5050886	77	1.9	77	95	1	261	33	15	24	26	1.95
5054072--5054525	227	2.0	227	98	0	872	25	27	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5057781--5057963	40	4.6	39	82	4	188	26	27	21	25	1.99
5057895--5057972	40	1.9	41	82	10	97	26	28	21	23	1.99
5058975--5059135	83	1.9	83	100	0	322	28	16	27	27	1.97
5059283--5059472	95	2.0	96	98	1	373	23	29	22	25	1.99
5080486--5080519	5	6.8	5	100	0	68	79	0	0	20	0.73
5081914--5082003	46	2.0	46	97	0	171	32	23	14	30	1.94
5086521--5086595	38	2.0	38	100	0	150	34	26	6	32	1.82
5087701--5087760	30	2.0	30	83	0	75	30	26	6	36	1.82
5087845--5088705	432	2.0	432	86	3	1225	35	18	13	31	1.90
5090296--5090331	17	2.1	17	100	0	72	47	22	11	19	1.80
5090870--5091054	39	4.7	39	77	4	160	36	15	28	19	1.93
5090888--5091089	39	5.2	39	76	2	149	35	15	28	20	1.93
5122956--5123000	12	3.8	12	87	0	63	28	13	11	46	1.77
5127205--5127354	77	1.9	79	87	5	225	27	20	20	32	1.97
5127153--5127357	26	7.8	27	80	6	179	26	21	20	31	1.98
5139487--5139729	122	2.0	122	99	0	477	39	18	5	37	1.73
5143821--5143912	39	2.3	39	88	5	132	25	28	22	23	2.00
5143802--5143965	40	4.1	40	80	10	176	24	27	23	25	2.00
5151558--5151649	39	2.3	39	88	5	132	25	28	22	23	2.00
5151539--5151702	40	4.1	40	80	10	176	24	27	23	25	2.00
5157466--5157586	39	3.1	39	89	2	181	24	30	23	21	1.99
5157734--5158620	469	1.9	469	99	0	1738	33	20	12	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5158500--5158742	122	2.0	122	99	0	477	39	18	5	37	1.73
5170529--5170580	25	2.0	26	82	10	63	46	11	1	40	1.51
5171011--5171079	15	4.7	15	73	20	56	49	1	1	47	1.19
5175899--5176893	46	20.6	46	82	10	1114	28	21	14	35	1.93
5175899--5176887	98	10.1	98	91	5	1392	28	21	14	35	1.93
5176668--5176887	52	4.3	52	85	8	299	27	22	14	35	1.93
5181146--5181279	67	2.0	67	98	0	259	45	19	11	23	1.82
5181774--5181848	33	2.3	33	83	4	89	24	21	20	34	1.96
5182523--5182552	15	2.0	15	100	0	60	53	13	6	26	1.64
5182764--5182828	17	3.7	17	76	13	69	21	4	4	69	1.25
5198360--5198444	42	2.0	42	86	0	116	29	27	15	28	1.96
5199404--5199592	104	1.8	103	91	3	317	33	16	11	38	1.85
5202546--5202584	20	2.0	20	89	0	60	41	0	2	56	1.13
5204616--5204683	30	2.3	30	84	5	84	47	5	19	27	1.72
5207104--5208066	38	24.9	38	98	1	1755	32	17	26	23	1.97
5208937--5208961	6	4.2	6	100	0	50	32	0	48	20	1.50
5209377--5209480	51	2.0	51	98	0	199	25	25	14	35	1.93
5212222--5212489	48	5.7	46	76	10	197	27	20	27	23	1.99
5212272--5212396	45	2.7	45	84	8	146	25	20	29	24	1.99
5212272--5212489	91	2.3	92	82	3	240	28	20	27	23	1.99
5212223--5212489	46	5.7	46	73	12	197	27	20	27	23	1.99
5212219--5212489	139	1.9	141	83	8	349	27	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5214935--5215065	67	2.0	67	90	0	208	42	9	17	29	1.82
5216776--5216940	85	1.9	85	82	0	204	41	18	13	26	1.88
5219089--5219127	20	1.9	21	89	5	62	2	0	12	84	0.72
5240714--5240827	40	2.9	40	92	1	185	28	20	26	24	1.99
5240717--5240855	40	3.5	40	89	3	183	27	21	25	25	1.99
5242707--5242890	48	3.9	47	82	4	208	27	18	27	26	1.98
5242707--5242894	96	2.0	96	85	4	254	27	18	27	26	1.98
5244074--5244128	21	2.6	21	82	0	65	16	32	29	21	1.95
5244562--5244946	196	2.0	197	96	0	718	34	17	19	28	1.95
5247491--5247534	19	2.4	18	88	7	70	47	13	2	36	1.56

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