genome.fa.s3.2.7.7.80.10.50.1000.15.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: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Length:  105315579

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   317   318   319   320   
          321   322   323   324   325   

This is table  15  of  325  ( 38900 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)
4679995--4680067	38	1.9	38	100	0	146	49	12	5	32	1.63
4682540--4682578	19	2.1	19	90	0	60	35	7	25	30	1.84
4685094--4685130	2	18.5	2	94	0	65	45	0	51	2	1.15
4690192--4690250	31	1.9	31	83	13	77	38	0	0	61	0.96
4691535--4691643	31	3.8	29	77	19	113	50	17	11	21	1.76
4691566--4691611	23	2.0	23	100	0	92	52	17	13	17	1.75
4691534--4691646	54	2.1	54	91	0	181	50	16	11	21	1.76
4693958--4693982	13	1.9	13	100	0	50	48	12	16	24	1.79
4696277--4696306	14	2.1	14	100	0	60	66	0	6	26	1.16
4703707--4703760	18	3.0	18	78	13	58	66	7	3	22	1.33
4706065--4706115	24	2.1	24	82	7	59	54	5	11	27	1.59
4706249--4706285	19	1.9	19	88	0	56	59	5	5	29	1.42
4708325--4708550	46	4.9	46	90	2	292	38	15	23	21	1.92
4708320--4708594	46	6.0	46	86	4	279	40	15	23	21	1.91
4711471--4711575	30	3.5	30	85	2	115	24	48	4	21	1.69
4711955--4712003	18	2.7	18	93	0	80	36	0	8	55	1.30
4711957--4712004	3	16.0	3	82	0	60	35	0	6	58	1.23
4711957--4712004	12	4.0	12	91	0	69	35	0	6	58	1.23
4712150--4712217	23	2.7	26	78	15	63	42	0	26	30	1.56
4712361--4712451	39	2.4	39	80	7	98	20	23	28	27	1.99
4733350--4733509	75	2.1	75	92	0	266	29	18	20	31	1.97
4733425--4733876	89	5.1	89	93	0	742	27	19	19	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4733286--4734039	178	4.5	164	78	15	805	26	19	20	33	1.96
4733781--4734019	73	3.2	75	84	5	301	25	20	21	33	1.97
4734004--4734050	14	3.3	14	90	3	67	17	10	6	65	1.43
4734004--4734051	15	3.3	15	88	5	71	16	10	6	66	1.41
4734916--4735015	30	3.3	30	83	2	130	28	48	4	20	1.67
4735515--4735719	25	8.2	25	69	13	75	33	6	4	56	1.45
4735872--4735919	16	3.1	15	90	6	69	31	2	2	64	1.16
4735872--4735923	8	6.5	8	82	8	61	30	1	1	65	1.14
4741113--4741157	21	2.2	20	84	4	54	42	0	15	42	1.47
4757637--4757666	15	2.0	15	93	0	51	63	0	6	30	1.20
4757755--4757820	18	3.6	18	80	13	73	59	1	7	31	1.35
4758099--4758212	3	37.7	3	71	8	70	60	1	9	28	1.38
4758104--4758143	20	2.0	21	85	5	55	57	2	12	27	1.48
4758100--4758164	17	3.6	17	72	12	58	64	1	7	26	1.29
4758174--4758226	12	4.1	13	84	13	65	64	1	1	32	1.15
4759941--4760013	23	3.2	23	86	7	112	32	24	19	23	1.97
4760100--4760128	8	3.6	8	100	0	58	34	27	13	24	1.93
4762409--4762525	41	2.8	40	78	10	119	31	28	20	19	1.97
4762973--4762999	7	3.9	7	100	0	54	74	25	0	0	0.83
4777978--4778028	26	2.0	26	84	7	68	31	1	0	66	1.03
4781797--4781934	69	2.0	69	95	0	249	26	23	13	36	1.91
4785670--4785695	11	2.4	11	100	0	52	26	19	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4790862--4790907	23	2.0	23	95	0	83	39	23	8	28	1.84
4792427--4792493	31	2.2	31	100	0	134	53	5	19	20	1.66
4793418--4793459	18	2.3	18	87	0	57	21	2	7	69	1.25
4799554--4799578	11	2.3	11	100	0	50	56	0	0	44	0.99
4801903--4801941	19	2.0	20	95	5	71	17	0	5	76	0.96
4801903--4801941	20	2.0	19	90	5	60	17	0	5	76	0.96
4801904--4801968	19	2.9	23	84	13	66	26	0	6	67	1.13
4808260--4808293	12	2.8	12	90	0	50	70	0	0	29	0.87
4808450--4808501	27	1.9	27	96	0	95	32	19	3	44	1.69
4809031--4809059	15	1.9	15	100	0	58	34	17	34	13	1.89
4813014--4813066	26	2.0	26	100	0	106	35	15	11	37	1.83
4819791--4819815	13	1.9	13	100	0	50	36	0	16	48	1.46
4820303--4820461	85	1.9	85	91	0	264	39	15	20	25	1.91
4820816--4820844	15	1.9	15	100	0	58	34	17	34	13	1.89
4824737--4824780	22	2.0	22	100	0	88	40	9	18	31	1.81
4830187--4830217	12	2.6	12	100	0	62	67	9	16	6	1.39
4834355--4834392	19	2.0	19	100	0	76	36	15	10	36	1.82
4844168--4844441	46	6.0	46	89	1	363	40	14	24	20	1.89
4844164--4844436	92	3.0	92	90	1	404	41	13	24	20	1.89
4844722--4844754	17	2.0	17	94	5	59	48	0	15	36	1.45
4862416--4862934	46	11.1	47	89	7	697	31	9	30	29	1.89
4862416--4862922	186	2.7	185	87	6	733	31	9	30	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4865020--4865165	43	3.4	43	95	1	258	23	14	34	27	1.93
4865147--4865220	29	2.6	29	89	4	105	25	16	32	25	1.96
4865534--4865765	40	5.8	40	88	3	333	23	22	28	25	1.99
4869229--4869751	47	11.1	47	92	2	793	31	9	30	28	1.89
4869913--4869991	37	2.1	37	88	4	115	24	18	32	24	1.97
4875363--4875493	67	1.9	69	85	3	185	35	8	2	54	1.43
4876539--4876601	32	2.0	31	90	3	99	39	23	9	26	1.86
4876815--4876970	41	3.8	41	89	6	235	28	22	20	28	1.98
4878452--4878476	12	2.1	12	100	0	50	68	24	0	8	1.16
4884116--4884179	32	2.0	31	90	3	101	39	23	9	28	1.86
4884392--4884547	41	3.8	41	89	6	235	28	22	20	28	1.98
4887482--4887515	15	2.3	15	90	5	52	29	5	0	64	1.17
4888002--4888075	26	2.8	24	74	22	60	32	6	4	56	1.44
4888001--4888075	25	2.8	26	73	20	66	33	6	4	56	1.44
4888011--4888061	25	2.1	24	85	10	68	31	7	3	56	1.46
4889684--4889715	10	3.2	10	95	0	55	15	0	18	65	1.27
4895923--4896019	47	2.0	48	88	2	142	27	17	22	31	1.97
4895952--4895991	19	2.1	19	90	0	62	27	12	27	32	1.93
4904133--4904193	16	3.9	16	78	4	61	29	0	14	55	1.40
4904148--4904186	15	2.5	16	83	8	53	35	0	5	58	1.20
4904922--4905060	71	2.0	71	95	0	251	29	30	11	28	1.92
4910311--4910347	8	4.9	8	87	9	51	75	2	0	21	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4911453--4911501	26	2.0	26	88	8	75	30	0	6	63	1.19
4914422--4914497	38	2.0	38	97	0	143	25	28	11	34	1.91
4915461--4915505	10	4.8	10	78	13	51	31	0	0	68	0.89
4922717--4922763	24	2.0	24	82	0	58	42	4	2	51	1.33
4923398--4923437	6	6.7	6	97	0	62	55	17	27	0	1.43
4934822--4934861	20	2.1	19	85	4	53	40	5	7	47	1.54
4938933--4938965	14	2.3	15	89	5	50	54	0	0	45	0.99
4948143--4948176	4	8.0	4	87	12	50	73	0	2	23	0.97
4948143--4948177	13	2.7	13	86	13	54	71	0	5	22	1.07
4948143--4948176	17	2.0	17	88	11	52	73	0	2	23	0.97
4948276--4948329	16	3.5	16	73	16	60	50	0	5	44	1.25
4949365--4949396	15	2.1	16	94	5	57	43	0	15	40	1.47
4949382--4949421	20	2.0	20	85	9	55	42	2	12	42	1.56
4949741--4949851	18	6.2	18	77	6	91	42	10	11	35	1.76
4949743--4949833	36	2.5	36	80	7	112	43	9	9	36	1.71
4966558--4966591	17	2.0	17	88	11	52	70	0	0	29	0.87
4967109--4967136	10	2.8	10	100	0	56	57	0	0	42	0.99
4968469--4968536	25	2.7	24	84	11	82	69	19	5	5	1.31
4968472--4968536	27	2.5	26	87	5	87	67	20	6	6	1.34
4973547--4973587	15	2.6	17	77	14	52	48	14	4	31	1.65
4978597--4978641	19	2.4	19	85	3	56	44	4	2	48	1.35
4979883--4979960	39	2.0	39	82	0	93	37	12	14	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4980441--4980470	13	2.3	13	100	0	60	80	0	0	20	0.72
4988247--4988271	13	1.9	13	100	0	50	72	4	0	24	1.02
4988470--4988516	25	1.9	24	91	4	76	65	2	6	25	1.27
4988694--4988730	13	2.9	13	84	15	51	78	0	5	16	0.93
4996509--4996550	15	2.7	15	82	10	50	57	0	2	40	1.12
4997596--4997643	18	2.8	16	79	17	51	50	0	2	47	1.12
5001575--5001599	10	2.5	10	100	0	50	92	0	8	0	0.40
5001573--5001602	16	1.9	15	93	6	51	90	0	10	0	0.47
5008101--5008128	14	2.0	14	100	0	56	14	7	35	42	1.73
5014841--5014893	3	16.7	3	77	11	52	58	3	1	35	1.27

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   317   318   319   320   
          321   322   323   324   325