genome.fa.s7.2.7.7.80.10.50.1000.12.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_A07
Parameters: 2 7 7 80 10 50 1000
Length:  92880876

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   

This is table  12  of  290  ( 34756 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)
4228425--4228476	22	2.4	21	83	6	68	61	5	0	32	1.20
4235975--4236032	22	2.6	23	81	13	75	56	0	0	43	0.99
4235967--4236037	22	3.2	22	73	16	67	50	0	0	49	1.00
4239304--4239336	15	2.3	15	89	5	50	42	0	3	54	1.15
4249064--4249114	25	2.0	25	100	0	102	49	0	19	31	1.49
4250510--4250642	40	3.3	40	82	0	167	36	19	12	30	1.89
4252332--4252365	17	1.9	18	94	5	61	11	44	32	11	1.77
4252328--4252367	18	2.3	18	86	4	64	15	40	30	15	1.87
4254079--4254115	20	1.9	18	89	10	56	35	21	0	43	1.53
4256787--4257151	46	8.0	46	90	2	538	22	23	14	40	1.91
4256787--4257151	137	2.6	137	90	2	570	22	23	14	40	1.91
4256787--4257151	183	2.0	183	89	2	563	22	23	14	40	1.91
4259288--4259336	3	17.3	3	76	19	52	69	0	2	28	1.00
4259294--4259332	11	3.5	11	92	0	69	69	0	2	28	1.02
4259295--4259336	19	2.2	19	87	8	59	71	0	2	26	0.98
4259306--4259381	20	3.7	21	77	10	68	59	6	1	32	1.32
4264647--4264707	24	2.8	22	72	16	56	26	0	3	70	1.02
4267232--4267279	18	2.7	18	86	0	78	60	35	0	4	1.16
4267745--4267793	18	2.8	17	81	6	62	57	36	0	6	1.24
4268078--4268116	17	2.3	17	86	8	53	17	10	0	71	1.12
4268159--4268187	13	2.2	13	100	0	58	68	0	0	31	0.89
4268159--4268212	15	3.9	14	78	21	51	70	3	0	25	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4268842--4268886	11	4.1	11	82	0	54	35	0	4	60	1.17
4276692--4276900	102	2.0	102	99	0	409	35	17	15	31	1.91
4278700--4278726	12	2.2	12	100	0	54	0	62	0	37	0.95
4278788--4278848	25	2.4	27	76	18	67	4	36	3	55	1.38
4278987--4279018	12	2.7	12	95	0	55	56	6	18	18	1.62
4279340--4279365	13	2.0	13	100	0	52	15	7	7	69	1.35
4282748--4282800	21	2.5	21	90	0	79	32	37	7	22	1.82
4294209--4294294	31	2.9	28	81	10	91	50	4	4	40	1.44
4294206--4294294	30	3.0	29	83	5	106	50	4	4	40	1.43
4296164--4296202	17	2.3	17	86	8	53	35	2	0	61	1.10
4307161--4307215	16	3.4	16	92	0	92	29	29	7	34	1.84
4310445--4310488	9	5.0	9	83	10	56	0	22	0	77	0.77
4310449--4310482	12	2.9	12	91	4	52	0	23	0	76	0.79
4320082--4320119	7	5.6	7	93	6	69	28	0	0	71	0.87
4323542--4323732	95	2.0	95	98	0	373	41	5	10	42	1.61
4327247--4327279	11	2.8	12	81	9	50	30	3	6	60	1.36
4330235--4330276	16	2.4	18	85	14	54	57	11	2	28	1.47
4344953--4344984	3	10.7	3	100	0	64	68	31	0	0	0.90
4347110--4347286	91	1.9	91	83	6	225	40	9	13	36	1.77
4347510--4347565	25	2.2	25	81	6	69	66	1	1	30	1.12
4351575--4351632	3	20.0	3	86	13	86	31	1	0	67	1.01
4353229--4353263	13	2.6	13	90	4	52	34	0	11	54	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4354974--4355013	19	2.1	19	86	9	55	60	7	0	32	1.25
4369586--4369632	23	2.0	23	95	0	85	63	6	12	17	1.48
4374443--4374467	5	5.0	5	100	0	50	40	0	0	60	0.97
4380454--4380513	31	1.9	31	90	6	95	30	3	1	65	1.19
4386789--4386833	18	2.5	18	85	7	56	48	0	11	40	1.39
4390658--4390751	26	3.5	25	77	18	84	28	10	3	57	1.48
4390672--4390751	26	2.9	28	81	7	92	28	11	1	58	1.40
4390710--4390768	26	2.2	27	87	3	84	28	6	0	64	1.19
4393416--4393498	42	2.0	43	87	2	123	22	25	14	37	1.92
4393475--4393588	47	2.4	47	82	7	126	31	25	14	28	1.94
4393610--4393820	31	6.8	31	89	2	289	28	26	17	27	1.98
4393796--4393924	50	2.5	51	88	2	197	26	23	15	34	1.94
4407864--4407932	34	2.0	34	97	0	129	37	11	21	28	1.89
4411810--4411928	47	2.6	47	86	1	150	29	26	15	28	1.96
4411951--4412098	31	4.8	31	91	4	228	25	28	19	27	1.99
4412074--4412255	55	3.5	50	84	9	240	27	23	14	34	1.94
4418003--4418069	30	2.2	30	81	7	73	41	1	2	53	1.25
4418777--4418812	17	2.1	17	89	0	54	33	0	5	61	1.19
4419855--4419988	57	2.3	59	87	2	191	36	9	17	35	1.83
4422477--4422509	11	2.9	12	86	13	52	33	0	0	66	0.92
4422631--4422691	30	2.0	30	90	0	95	55	11	6	26	1.59
4422674--4422703	12	2.6	11	90	10	51	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4422725--4422767	22	2.0	22	85	0	59	58	11	11	18	1.63
4422732--4422772	11	3.7	11	80	0	55	56	9	14	19	1.66
4422733--4422782	22	2.3	22	86	6	66	60	6	16	18	1.55
4425764--4425874	47	2.4	47	83	6	145	35	21	16	27	1.94
4426638--4426666	4	7.2	4	100	0	58	0	24	0	75	0.80
4431508--4431545	3	12.7	3	100	0	76	31	0	0	68	0.90
4437810--4437853	19	2.4	19	85	7	56	43	0	6	50	1.29
4437929--4437994	23	2.9	23	76	17	66	43	0	1	54	1.09
4440708--4440758	26	1.9	27	92	4	86	21	3	11	62	1.45
4449450--4449485	18	2.0	18	100	0	72	38	22	0	38	1.54
4452294--4452335	3	14.3	3	85	5	59	71	0	28	0	0.86
4453084--4453140	27	2.1	27	100	0	114	15	38	28	17	1.91
4453600--4453689	46	2.0	46	100	0	180	51	24	2	22	1.60
4458659--4458820	80	2.0	81	92	2	272	40	11	18	29	1.85
4459837--4459900	3	21.3	3	100	0	128	32	0	0	67	0.91
4467316--4467363	21	2.3	20	79	10	53	72	0	4	22	1.01
4467504--4467549	19	2.4	19	82	13	58	45	2	0	52	1.13
4467504--4467551	18	2.5	20	76	16	55	45	2	0	52	1.12
4473931--4474033	46	2.2	48	85	3	138	34	14	25	25	1.94
4477798--4477900	46	2.2	48	87	3	147	34	14	24	26	1.94
4483525--4483744	111	2.0	111	90	1	343	35	13	10	41	1.78
4488373--4488399	13	2.1	13	100	0	54	29	7	0	62	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4500544--4500783	120	2.0	120	98	0	462	25	12	18	43	1.85
4514197--4514246	11	4.7	11	82	9	68	30	32	0	38	1.58
4514189--4514246	20	2.7	21	84	10	73	31	29	0	39	1.57
4515394--4515502	42	2.5	43	82	2	139	36	23	22	17	1.94
4515394--4515489	21	4.5	21	85	2	111	37	25	21	15	1.93
4515872--4515944	15	4.8	15	91	1	101	52	12	0	35	1.39
4515875--4515965	45	2.0	44	83	6	112	51	15	1	31	1.51
4517165--4517208	21	2.2	20	87	4	61	9	20	4	65	1.38
4517215--4517246	5	6.2	5	96	3	55	56	0	0	43	0.99
4518695--4518728	7	4.9	7	100	0	68	26	0	14	58	1.36
4519199--4519608	116	3.5	116	96	0	739	40	3	9	46	1.53
4522626--4523164	126	4.3	126	90	0	783	27	21	17	33	1.96
4523208--4523451	97	2.5	97	80	9	264	40	16	1	41	1.58
4530249--4530320	36	2.0	36	94	0	126	25	0	45	29	1.53
4534515--4534559	13	3.5	13	87	6	65	66	4	0	28	1.11
4534845--4534874	13	2.2	14	94	5	53	30	0	6	63	1.20
4535212--4535285	32	2.3	32	80	2	85	35	13	9	41	1.77
4537705--4537753	20	2.4	20	82	3	62	24	12	10	53	1.69
4542769--4542868	9	10.4	10	76	19	97	37	3	1	59	1.20
4542766--4542861	19	5.1	18	79	14	88	36	3	1	59	1.20
4542769--4542861	29	3.2	29	79	11	111	36	3	1	59	1.21
4542780--4542872	10	9.2	11	72	17	60	34	3	1	61	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4543522--4543587	19	3.4	19	75	4	69	33	4	24	37	1.76
4543510--4543585	39	1.9	39	83	0	98	30	6	23	39	1.80
4551756--4551787	13	2.5	13	94	0	55	31	0	12	56	1.37
4551880--4552121	50	4.7	50	82	4	261	26	23	29	19	1.99
4551880--4552129	100	2.4	103	85	6	328	26	23	29	20	1.99
4559060--4559116	30	1.9	29	85	3	78	42	1	24	31	1.65
4559457--4559692	48	4.7	49	82	7	255	25	23	29	21	1.99
4559454--4559693	97	2.4	102	84	9	314	25	23	29	21	1.99
4574581--4574637	24	2.5	23	77	11	55	33	3	0	63	1.12
4577797--4577845	19	2.8	17	82	14	64	57	0	8	34	1.29

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